03_ECCNP_Analysis.ipynb

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   "cell_type": "markdown",
   "id": "1409bc98-c126-4bf7-8dea-08435d4abd97",
   "metadata": {},
   "source": [
    "# Analysis of ECCNP Resolution and Impact on NER and EL Performance"
   ]
  },
  {
   "cell_type": "code",
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   "id": "d38bfb4c-1586-4ae7-98cb-bf2ca7ffa15b",
   "metadata": {
    "tags": []
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   "source": [
    "from xmen import load_config, load_kb\n",
    "from xmen.data import from_spacy\n",
    "\n",
    "conf = load_config('xmen_ggponc3.yaml')"
   ]
  },
  {
   "cell_type": "markdown",
   "id": "79e4bdce-acb9-4dc3-a6a4-28efd9ec37ad",
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   "source": [
    "**Note:** For this notebook, we only use a small subset of GGPONC 2.0 for demonstration purposes\n",
    "Change the version if you want to use any other GGPONC release"
   ]
  },
  {
   "cell_type": "code",
   "execution_count": 2,
   "id": "b265c2a8-4288-43a4-a78b-9f10f73c9e6d",
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   "source": [
    "from ggponc import *\n",
    "import os\n",
    "\n",
    "sent_df = read_sentences(os.path.join('data', conf.data_version), zipped=False)"
   ]
  },
  {
   "cell_type": "code",
   "execution_count": 3,
   "id": "1b1298e5-5963-4afa-8ff2-efdf27580bbb",
   "metadata": {
    "tags": []
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   "outputs": [
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     "text": [
      "/home/Florian.Borchert/miniconda3/envs/ggponc/lib/python3.10/site-packages/huggingface_hub/file_download.py:1132: FutureWarning: `resume_download` is deprecated and will be removed in version 1.0.0. Downloads always resume when possible. If you want to force a new download, use `force_download=True`.\n",
      "  warnings.warn(\n",
      "/home/Florian.Borchert/miniconda3/envs/ggponc/lib/python3.10/site-packages/transformers/convert_slow_tokenizer.py:446: UserWarning: The sentencepiece tokenizer that you are converting to a fast tokenizer uses the byte fallback option which is not implemented in the fast tokenizers. In practice this means that the fast version of the tokenizer can produce unknown tokens whereas the sentencepiece version would have converted these unknown tokens into a sequence of byte tokens matching the original piece of text.\n",
      "  warnings.warn(\n"
     ]
    }
   ],
   "source": [
    "resolver = ECCNPResolver(**conf.eccnp)"
   ]
  },
  {
   "cell_type": "code",
   "execution_count": 4,
   "id": "ffefead0-a5a9-4eda-9902-1f32424ea979",
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   "source": [
    "sent_df = resolver.set_df(sent_df)"
   ]
  },
  {
   "cell_type": "code",
   "execution_count": 5,
   "id": "f888ba14-e5f8-4f95-8eb4-abdd8e057bd5",
   "metadata": {
    "tags": []
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   "outputs": [],
   "source": [
    "ner = NERTagger()"
   ]
  },
  {
   "cell_type": "code",
   "execution_count": 6,
   "id": "d7dfbe74-f8ba-4509-949f-547563c15d36",
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   "source": [
    "ner_df_before = ner.set_df(sent_df, sent_col='sentence')\n",
    "ds_ner_before = from_spacy(ner_df_before.spacy_ner, span_key='entities', doc_id_key='file_name')"
   ]
  },
  {
   "cell_type": "code",
   "execution_count": 7,
   "id": "3d35e3dc-3ccf-4dd8-ae7c-860eb862509e",
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   ],
   "source": [
    "ner_df_after = ner.set_df(sent_df)\n",
    "ds_ner_after = from_spacy(ner_df_after.spacy_ner, span_key='entities', doc_id_key='file_name')"
   ]
  },
  {
   "cell_type": "code",
   "execution_count": 8,
   "id": "a2c821d8-2545-4410-987e-668d47c151ba",
   "metadata": {
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     "text": [
      "/home/Florian.Borchert/miniconda3/envs/ggponc/lib/python3.10/site-packages/sklearn/base.py:376: InconsistentVersionWarning: Trying to unpickle estimator TfidfTransformer from version 1.3.1 when using version 1.5.0. This might lead to breaking code or invalid results. Use at your own risk. For more info please refer to:\n",
      "https://scikit-learn.org/stable/model_persistence.html#security-maintainability-limitations\n",
      "  warnings.warn(\n",
      "/home/Florian.Borchert/miniconda3/envs/ggponc/lib/python3.10/site-packages/sklearn/base.py:376: InconsistentVersionWarning: Trying to unpickle estimator TfidfVectorizer from version 1.3.1 when using version 1.5.0. This might lead to breaking code or invalid results. Use at your own risk. For more info please refer to:\n",
      "https://scikit-learn.org/stable/model_persistence.html#security-maintainability-limitations\n",
      "  warnings.warn(\n",
      "/home/Florian.Borchert/miniconda3/envs/ggponc/lib/python3.10/site-packages/huggingface_hub/file_download.py:1132: FutureWarning: `resume_download` is deprecated and will be removed in version 1.0.0. Downloads always resume when possible. If you want to force a new download, use `force_download=True`.\n",
      "  warnings.warn(\n"
     ]
    },
    {
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     "text": [
      "/home/Florian.Borchert/miniconda3/envs/ggponc/lib/python3.10/site-packages/huggingface_hub/file_download.py:1132: FutureWarning: `resume_download` is deprecated and will be removed in version 1.0.0. Downloads always resume when possible. If you want to force a new download, use `force_download=True`.\n",
      "  warnings.warn(\n"
     ]
    }
   ],
   "source": [
    "from ggponc import EntityLinker\n",
    "linker = EntityLinker(**conf.linker.ranking, candidate_generation_kwargs=conf.linker.candidate_generation)"
   ]
  },
  {
   "cell_type": "code",
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     "text": [
      "/home/Florian.Borchert/miniconda3/envs/ggponc/lib/python3.10/site-packages/scispacy/abbreviation.py:248: UserWarning: [W036] The component 'matcher' does not have any patterns defined.\n",
      "  global_matches = self.global_matcher(doc)\n"
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      "Context length: 128\n",
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      "  global_matches = self.global_matcher(doc)\n"
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   ],
   "source": [
    "linking_results = {}\n",
    "linking_results['before_eccnp'] = linker.transform(ds_ner_before, silent=True)\n",
    "linking_results['before_eccnp_no_semtype'] = linker.transform(ds_ner_before, ['abbrv', 'candidates', 'reranking'], silent=True)\n",
    "linking_results['after_eccnp'] = linker.transform(ds_ner_after, silent=True)\n",
    "linking_results['after_eccnp_no_semtype'] = linker.transform(ds_ner_after, ['abbrv', 'candidates', 'reranking'], silent=True)"
   ]
  },
  {
   "cell_type": "code",
   "execution_count": 10,
   "id": "3340d144-944c-4d80-82df-8c62e4ac4960",
   "metadata": {
    "tags": []
   },
   "outputs": [],
   "source": [
    "from nb_util import show_diff_single\n",
    "from IPython.display import display\n",
    "from nen_util import get_annotation_dataframe\n",
    "from xmen.data import Sampler\n",
    "\n",
    "def get_ent_texts(d):\n",
    "    return [e['text'] for e in d['entities']]"
   ]
  },
  {
   "cell_type": "markdown",
   "id": "130de8aa-3632-4845-bd51-a7c3b7f5eb6f",
   "metadata": {},
   "source": [
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   ]
  },
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   "metadata": {
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     "text": [
      "Bei komplett parenteraler Ernährung kann die Supplementierung von Spurenelementen deren Abfall im Serum verhindern; dies trifft besonders auf Mangan und Kupfer zu [REF].\n",
      "\n",
      "No Filter:\n"
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       "6  01_magenkarzinom_0192_5  Kupfer  Clinical_Drug    153  159  C0009968   \n",
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      "Es gibt keinen Beweis, dass Selen Nebenwirkungen vermindert, die im Zusammenhang mit Therapien des Magenkarzinoms relevant sind.\n",
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      "Präklinische Daten sprechen dafür, dass Zink das Wachstum von Tumoren fördert, eine Supplementierung ist deshalb bei normaler Ernährung nicht zu empfehlen.\n",
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       "      <th>0</th>\n",
       "      <td>01_magenkarzinom_0192_22</td>\n",
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       "      <td>Nutrient_or_Body_Substance</td>\n",
       "      <td>40</td>\n",
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     "text": [
      "Die Cochrane-Übersichtsarbeit aus dem Jahr 2007 sah eine ungenügende Datenlage im Hinblick auf eine Evidenz für die Wirksamkeit von Omega-3-Fettsäuren zur Behandlung der Tumorkachexie [REF].\n",
      "\n",
      "No Filter:\n"
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      "Deutlich niedriger ist die Exposition für Berufstätige in Wasserwerken, Heilstollen und Radonbädern.\n",
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      "Aktuelle Daten zur Radonexposition finden sich in der Radonkarte des Bundesamts für Strahlenschutz, welche online verfügbar ist ([URL]).\n",
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      "Ergibt die kolposkopische Abklärung bei zytologischem Verdacht auf CIN 1 (s. Kapitel VI „Differentialdiagnostik und Abklärungsalgorithmus“) den histopathologischen Nachweis von CIN 1, so wird die Patientin bzgl. einer Kontrolluntersuchung oder Behandlung beraten.\n",
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      "Bei inadäquater kolposkopischer Aussage, Verdacht auf endocervikale CIN 2 oder CIN 3 oder Zustand nach früherer Behandlung einer CIN wird die Exzision mit kompletter histopathologischer Evaluierung empfohlen ( [REF], S17).\n",
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      "Eine Hysterektomie als primäre Therapie sollte bei histologisch nachgewiesener CIN 1 ohne Zusatzindikation nicht durchgeführt werden.\n",
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      "Zum Thema der Antioxidantien und Vitamine während der aktiven konventionellen Behandlung des Zervixkarzinoms existieren nur wenige Daten.\n",
      "\n",
      "No Filter:\n"
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       "      <th>2</th>\n",
       "      <td>05_zervixkarzinom_0265_0</td>\n",
       "      <td>aktiven konventionellen Behandlung des Zervixk...</td>\n",
       "      <td>Therapeutic</td>\n",
       "      <td>54</td>\n",
       "      <td>108</td>\n",
       "      <td>C5420818</td>\n",
       "      <td>[T191]</td>\n",
       "      <td>Locally Advanced Cervical Squamous Cell Carcinoma</td>\n",
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       "        cui    tuis                                          canonical  \\\n",
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      "Filter:\n"
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      "In einer kleinen randomisierten Studie (n=42) wurde eine verbesserte Immunreaktion und ein tendenziell geringere Rezidivrate bei Vitamin-A-Gabe festgestellt [REF] [REF].\n",
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      "Diese Hinweise aus Studien sind nicht ausreichend, um eine Empfehlung für einen vorbeugenden Einsatz von Vitaminpräparaten, Antioxidantien und/oder Selen zur Vermeidung unerwünschter Nebenwirkungen in der Therapie von Zervixkarzinompatientinnen abzuleiten.\n",
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      "Auch hepatische Nebenwirkungen sind unter zielgerichteten und Immuntherapien häufig.\n",
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      "Unter der Immuntherapie können lebensgefährliche kardiale Nebenwirkungen auftreten, die ein schnelles konsequentes Vorgehen inklusive symptomatischer medizinischer Intervention ggf. auf der Intensivstation erfordern können [REF].\n",
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      "Aufgrund des subendothelialen Wachstums entlang der Perineuralscheiden beträgt das Rezidivrisiko nach radikaler chirurgischer Tumorentfernung für ein perihiläres Cholangiokarzinom (CCA) 40-80% (Auflistung der Studienergebnisse siehe [REF] ).\n",
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      "In dieser Studie wurde bei 447 Patienten mit CCA oder muskelinvasivem GB-CA sowie vollständiger makroskopischer Tumorentfernung (R0 oder R1) die Gabe von Capecitabin (1250 mg/m2 zweimal täglich an Tag 1 bis 14 bei einer Zyklusdauer von 21 Tagen, insgesamt 8 Zyklen) mit der alleinigen Nachsorge verglichen.\n",
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      "Der Therapiebeginn sollte innerhalb von 12 Wochen postoperativ bei Patienten mit ECOG 0 – 1 erfolgen, erlaubt war eine Ausdehnung des Zeitraumes bis auf 16 Wochen.\n",
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      "Die mediane Zeit von der OP bis zum Therapiebeginn lag bei 10,3 Wochen.\n",
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      "Datenlage zum prädiktiven Wert einer negativen Interim-PET nach zwei/drei Zyklen ABVD\n",
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      "In kleinen (77 bzw. 85 Patienten), nicht-randomisierten Studien aus Dänemark (Hutchings 2006b) und aus England [REF] wurde das Ergebnis des PET/CTs nach 2 Zyklen Chemotherapie beim Hodgkin Lymphom als unabhängiger Prognosefaktor identifiziert.\n",
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      "In die „RAPID“-Studie des britischen „National Cancer Research Institute“(NCRI) wurden Patienten im Stadium IA/IIA eines klassischen Hodgkin Lymphoms (bei Diagnosestellung lag bei ca. 70% der Patienten nach der GHSG-Risikostratifizierung ein frühes Stadium vor) bei Vorliegen eines negativen PET/CTs nach drei Zyklen ABVD entweder in einen Nachbeobachtungsarm oder in einen Therapiearm mit konsolidierender Strahlentherapie mit 30 Gy IF-RT randomisiert.\n",
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      "Bei einem medianen Follow-up von 60 Monaten wurden im Beobachtungsarm 9.5% und im Strahlentherapiearm 3.5% Progresse dokumentiert.\n",
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      "In der „Intent-to-Treat“-Analyse betrug das 3-Jahres progressionsfreie Überleben (PFS) 94.6% (95% Konfidenzintervall [CI], 91.5% bis 97.7%) im Bestrahlungsarm und 90.8% (95% CI, 86.9% bis 94.8%) im Beobachtungsarm; noch deutlicher war der PFS-Unterschied in der „Per-Protocol“-Analyse mit einem 3-Jahres PFS von 97.1% (95% CI, 94.7% bis 99.6%) im Bestrahlungsarm und von 90.8% (95% CI, 86.8% bis 94.7%) im Beobachtungsarm.\n",
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      "In der H10F Studie der EORTC/The Lymphoma Study Association (LYSA)/Italian Foundation for Lymphoma Study (FIL) wurden Patienten im Stadium I/II eines klassischen Hodgkin Lymphoms ohne Vorliegen eines definierten Risikofaktors bei Dokumentation eines negativen PET/CTs nach zwei Zyklen ABVD im Standardarm mit einem weiteren Zyklus ABVD gefolgt von 30 Gy „involved-node“ (IN)-RT und im experimentellen Arm mit zwei weiteren Zyklen ABVD ohne konsolidierende Strahlentherapie behandelt.\n",
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      "Der experimentelle Arm wurde nach Vorliegen der Ergebnisse der 12-Monats-Interimsanalyse geschlossen, da im experimentellen Arm 9 Rezidive und im Standardarm nur 1 Rezidiv zu dokumentieren waren (1-Jahres PFS 94.9% (95% CI 91.9% bis 96.9%) bzw. 100%) [REF].\n",
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      "Der PFS-Unterschied war v.a. durch eine vermehrte Inzidenz an Rezidiven im Bereich der initialen Lymphomlokalisation und damit im Bestrahlungsfeld bedingt.\n",
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      "Zusammenfassend ergab die Meta-Analyse der RAPID-, H10F- und HD16-Studie der GHSG, dass der Verzicht auf eine konsolidierende Strahlentherapie trotz Dokumentation einer PET-Negativität nach zwei bis drei Zyklen ABVD mit einer niedrigeren Tumorkontrolle und damit einem niedrigeren PFS/EFS einhergeht ( [REF] [REF] und Metaanalyse im Leitlinienreport).\n",
      "\n",
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      "Datenlage zum prädiktiven Wert einer positiven Interim-PET nach zwei/drei Zyklen ABVD\n",
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      "Für die im experimentellen Arm behandelten PET-positiven Patienten wurde eine signifikant höhere 5-Jahres-PFS-Rate (90.6%, 95% CI 84.7% bis 94.3%) im Vergleich zu der im Standardarm behandelten PET-positiven Patienten (5-Jahres PFS 77.4%; 95%CI 70.4% bis 82.9%) dokumentiert [REF].\n",
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      "Mit der angewandten Definition der PET-Positivität scheint daher keine ausreichende Differenzierung der Prognose der PET-negativen und PET-positiven Patienten möglich zu sein; die weiterführende Analyse der PET-positiven Patienten ergab, dass insbesondere für die Patienten mit einem Deauville-Score von 5 im Vergleich zu den Patienten mit einem Deauville-Score von 1-4 ein signifikant niedrigeres PFS und ES (5-Jahres PFS und -EFS jeweils 61.9%) und ein niedrigeres Gesamtüberleben (5-Jahres OS 85,2%; 95% CI, 69.7% bis 100% versus 97.8%, 95%CI, 96.4 bis 99.2%) zu dokumentieren war [REF].\n",
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      "Die Ergebnisse der H10F-, RAPID- und der HD16- Studie unterstützen daher die Hypothese des prognostischen Werts einer positiven PET-CT nach zwei bis drei Zyklen ABVD, d.h. einer signifikant schlechteren Prognose der Patienten mit einer positiven Interim-PET, insbesondere bei Vorliegen eines Deauville-Scores von 4-5.\n",
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      "Im Hinblick darauf, dass in der HD16-Studie für die Patienten mit einer positiven Interim-PET ein signifikant niedrigeres PFS dokumentiert wurde und das der PFS-Unterschied besonders deutlich bei Vorliegen eines Deauville-Score von 4-5 war, sollte die Option einer Therapieeskalation in Form von zwei Zyklen BEACOPPeskaliert analog der H10F-Studie vor der konsolidierenden Strahlentherapie bei den Patienten mit einem positiven PET Ergebnis mit einem Deauville-Score von 4-5 nach zwei Zyklen ABVD individuell erwogen werden.\n",
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      "In retrospektiven bzw. in Kohortenanalysen konnte gezeigt werden, dass insbesondere bei Frauen bis zu einem Alter von 29 Jahren zum Zeitpunkt der Therapie des Hodgkin Lymphoms ein gegenüber der Normalbevölkerung deutlich erhöhtes Risiko der Entwicklung eines sekundären Mamma-Karzinoms vorliegt und, dass das Risiko mit zunehmendem Alter zum Zeitpunkt der Hodgkin-Lymphom-Diagnose abnimmt [REF].\n",
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      "Sollte aufgrund des Vorliegens einer positiven PET/CT oder unabhängig vom PET/CT-Befund die Entscheidung zur konsolidierenden Strahlentherapie gefällt werden, sollten- wie in Abschnitt 11.2 beschrieben- frühzeitig intensivierte Vorsorgeuntersuchungen erfolgen.\n",
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      "In der großen Kohortenanalyse von Veit-Rubin wurde nämlich gezeigt, dass bis zu 30 Jahre nach Therapie des Hodgkin-Lymphoms von einer steigenden Inzidenz des sekundären Mamma-Karzinoms auszugehen ist.\n",
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      "- Labordiagnostik, wie Blutsenkungsgeschwindigkeit (BSG), Differentialblutbild, Klinische Chemie (Gamma-GT, GOT, GPT, Bilirubin, Kreatinin, Harnsäure), Alkalische Phosphatase (AP), Laktatdehydrogenase (LDH)\n",
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       "      <td>58</td>\n",
       "      <td>78</td>\n",
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       "      <td>[sapbert]</td>\n",
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       "0  18_hodgkin-lymphom_0051_47       Labordiagnostik  Diagnostic      2   17   \n",
       "3  18_hodgkin-lymphom_0051_47  Differentialblutbild  Diagnostic     58   78   \n",
       "\n",
       "        cui    tuis                      canonical            linker  \\\n",
       "0  C0011911  [T033]                Labordiagnostik  [ngram, sapbert]   \n",
       "3  C0009555  [T059]  Blutzellzählung, vollständige         [sapbert]   \n",
       "\n",
       "   confidence  \n",
       "0    0.159278  \n",
       "3    0.067997  "
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      "Zudem ist die Bestimmung der Serumtumormarker (AFP, Beta-hCG, LDH) zur korrekten Klassifikation des EGKZT nach IGCCCG erforderlich.\n",
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      "Die Notwendigkeit einer primären Biopsie eines solchen Befundes wird kontrovers diskutiert.\n",
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       "      <td>[T191]</td>\n",
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      "Die beschriebenen Fallserien können jedoch sowohl wegen ihrer Fallzahl als auch aufgrund des Fehlens einer Kontrollgruppe nicht die Evidenz liefern, dass eine Testosteronsubstitution nach kurativer Therapie unschädlich sei.\n",
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      "Die Autoren dieser Leitlinie sehen die Notwendigkeit für eine Stellungnahme zur Testosteronsubstition bei klinisch schwer symptomatischen Patienten mit nachgewiesenem Testosteronmangel nach kurativer Therapie eines Prostatakarzinoms.\n",
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      "Obwohl Nikotin einen protektiven Effekt für die entzündliche Komponente der Pneumonitis hat und die Pneumonitisrate zu senken scheint [REF] [REF] [REF] [REF] [REF] [REF], wird Nikotinkarenz empfohlen, um eine Verbesserung der Lungenfunktion zu erreichen und das Risiko von Zweittumoren zu reduzieren [REF].\n",
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       "      <td>Diagnosis_or_Pathology</td>\n",
       "      <td>75</td>\n",
       "      <td>80</td>\n",
       "      <td>C2984258</td>\n",
       "      <td>[T077]</td>\n",
       "      <td>Non-Small Cell Lung Cancer Pathway</td>\n",
       "      <td>[ngram, sapbert]</td>\n",
       "      <td>0.065139</td>\n",
       "    </tr>\n",
       "  </tbody>\n",
       "</table>\n",
       "</div>"
      ],
      "text/plain": [
       "                         document   text                    type  start  end  \\\n",
       "0  27_supportive-therapie_0765_21  NSCLC  Diagnosis_or_Pathology     75   80   \n",
       "\n",
       "        cui    tuis                           canonical            linker  \\\n",
       "0  C2984258  [T077]  Non-Small Cell Lung Cancer Pathway  [ngram, sapbert]   \n",
       "\n",
       "   confidence  \n",
       "0    0.065139  "
      ]
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     "text": [
      "####\n"
     ]
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   ],
   "source": [
    "res_sem = linking_results['before_eccnp']['reranked']\n",
    "res_no_sem = linking_results['before_eccnp_no_semtype']['reranked']\n",
    "\n",
    "assert len(res_sem) == len(res_no_sem)\n",
    "\n",
    "diff_sem = 0\n",
    "\n",
    "for d_b, d_a in zip(res_no_sem, res_sem):\n",
    "    t_a = d_a['passages'][0]['text'][0]\n",
    "    df1 = get_annotation_dataframe([d_b], linker.kb, 1, 0.0)\n",
    "    df2 = get_annotation_dataframe([d_a], linker.kb, 1, 0.0)\n",
    "    if len(df1) == 0:\n",
    "        continue\n",
    "    mask = df1.canonical != df2.canonical\n",
    "    if mask.any():\n",
    "        print(t_a + '\\n')\n",
    "        #show_diff_single(t_b, t_a)\n",
    "        print('No Filter:')\n",
    "        display(df1[mask])\n",
    "        print('Filter:')\n",
    "        display(df2[mask])\n",
    "        diff_sem += 1\n",
    "        print('####')"
   ]
  },
  {
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   "id": "81a10ff2-065d-4472-b1b5-2c99f25147af",
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   "outputs": [
    {
     "data": {
      "text/plain": [
       "0.13368983957219252"
      ]
     },
     "execution_count": 12,
     "metadata": {},
     "output_type": "execute_result"
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   ],
   "source": [
    "diff_sem / len(res_no_sem)"
   ]
  },
  {
   "cell_type": "markdown",
   "id": "c1eca9dc-1154-4f25-8c44-97916db355dc",
   "metadata": {},
   "source": [
    "# Impact of ECCNPs"
   ]
  },
  {
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   "execution_count": 13,
   "id": "e02979b7-f39d-461e-8f7f-fea5177d5777",
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    {
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     "output_type": "stream",
     "text": [
      "Difference 1\n"
     ]
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     "data": {
      "text/markdown": [
       "Am ehesten werden bei Patienten mit Malignomen Mangelzustände von Vitamin D beobachtet [REF] und von einigen Autoren mit der Erkrankungsinzidenz und -prognose in Verbindung gebracht [REF] [REF] [REF] [REF]."
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       "Am ehesten werden bei Patienten mit Malignomen Mangelzustände von Vitamin D beobachtet [REF] und von einigen Autoren mit der Erkrankungsinzidenz und Erkrankungsprognose in Verbindung gebracht [REF] [REF] [REF] [REF]."
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       "<html><body><div>Am ehesten werden bei Patienten mit Malignomen Mangelzustände von Vitamin D beobachtet [REF] und von einigen Autoren mit der Erkrankungsinzidenz und <span style=\"background-color: red; text-decoration: line-through;\">-</span><span style=\"background-color: lightgreen;\">Erkrankungs</span>prognose in Verbindung gebracht [REF] [REF] [REF] [REF].</div></body></html>"
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       "      <td>01_magenkarzinom_0192_2</td>\n",
       "      <td>-prognose</td>\n",
       "      <td>Other_Finding</td>\n",
       "      <td>149</td>\n",
       "      <td>158</td>\n",
       "      <td>C0033325</td>\n",
       "      <td>[T058]</td>\n",
       "      <td>Prognose</td>\n",
       "      <td>[ngram, sapbert]</td>\n",
       "      <td>0.092011</td>\n",
       "    </tr>\n",
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       "</table>\n",
       "</div>"
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      "text/plain": [
       "                  document                          text  \\\n",
       "0  01_magenkarzinom_0192_2                    Malignomen   \n",
       "1  01_magenkarzinom_0192_2  Mangelzustände von Vitamin D   \n",
       "2  01_magenkarzinom_0192_2                     Vitamin D   \n",
       "3  01_magenkarzinom_0192_2           Erkrankungsinzidenz   \n",
       "4  01_magenkarzinom_0192_2                     -prognose   \n",
       "\n",
       "                         type  start  end       cui                tuis  \\\n",
       "0      Diagnosis_or_Pathology     36   46  C0006826              [T191]   \n",
       "1      Diagnosis_or_Pathology     47   75  C0042870              [T047]   \n",
       "2  Nutrient_or_Body_Substance     66   75  C0042866  [T121, T125, T127]   \n",
       "3      Diagnosis_or_Pathology    125  144  C0012655              [T201]   \n",
       "4               Other_Finding    149  158  C0033325              [T058]   \n",
       "\n",
       "                canonical            linker  confidence  \n",
       "0         Krebserkrankung  [ngram, sapbert]    0.078375  \n",
       "1        Vitamin-D-Mangel  [ngram, sapbert]    0.071928  \n",
       "2               Vitamin D  [ngram, sapbert]    0.077961  \n",
       "3  Krankheitsanfälligkeit         [sapbert]    0.065133  \n",
       "4                Prognose  [ngram, sapbert]    0.092011  "
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       "      <td>01_magenkarzinom_0192_2</td>\n",
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       "      <th>3</th>\n",
       "      <td>01_magenkarzinom_0192_2</td>\n",
       "      <td>Erkrankungsinzidenz</td>\n",
       "      <td>Diagnosis_or_Pathology</td>\n",
       "      <td>125</td>\n",
       "      <td>144</td>\n",
       "      <td>C0012655</td>\n",
       "      <td>[T201]</td>\n",
       "      <td>Krankheitsanfälligkeit</td>\n",
       "      <td>[sapbert]</td>\n",
       "      <td>0.065035</td>\n",
       "    </tr>\n",
       "    <tr>\n",
       "      <th>4</th>\n",
       "      <td>01_magenkarzinom_0192_2</td>\n",
       "      <td>Erkrankungsprognose</td>\n",
       "      <td>Other_Finding</td>\n",
       "      <td>149</td>\n",
       "      <td>168</td>\n",
       "      <td>C0242656</td>\n",
       "      <td>[T046]</td>\n",
       "      <td>Krankheitsprogression</td>\n",
       "      <td>[ngram, sapbert]</td>\n",
       "      <td>0.071588</td>\n",
       "    </tr>\n",
       "  </tbody>\n",
       "</table>\n",
       "</div>"
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      "text/plain": [
       "                  document                          text  \\\n",
       "0  01_magenkarzinom_0192_2                    Malignomen   \n",
       "1  01_magenkarzinom_0192_2  Mangelzustände von Vitamin D   \n",
       "2  01_magenkarzinom_0192_2                     Vitamin D   \n",
       "3  01_magenkarzinom_0192_2           Erkrankungsinzidenz   \n",
       "4  01_magenkarzinom_0192_2           Erkrankungsprognose   \n",
       "\n",
       "                         type  start  end       cui                tuis  \\\n",
       "0      Diagnosis_or_Pathology     36   46  C0205282              [T080]   \n",
       "1      Diagnosis_or_Pathology     47   75  C0042870              [T047]   \n",
       "2  Nutrient_or_Body_Substance     66   75  C0042866  [T121, T125, T127]   \n",
       "3      Diagnosis_or_Pathology    125  144  C0012655              [T201]   \n",
       "4               Other_Finding    149  168  C0242656              [T046]   \n",
       "\n",
       "                canonical            linker  confidence  \n",
       "0               Malignant  [ngram, sapbert]    0.078865  \n",
       "1        Vitamin-D-Mangel  [ngram, sapbert]    0.072261  \n",
       "2               Vitamin D  [ngram, sapbert]    0.077968  \n",
       "3  Krankheitsanfälligkeit         [sapbert]    0.065035  \n",
       "4   Krankheitsprogression  [ngram, sapbert]    0.071588  "
      ]
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     "text": [
      "Difference 2\n"
     ]
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     "data": {
      "text/markdown": [
       "Insbesondere Antioxidantien können die Wirkung von Chemo- und Strahlentherapie abschwächen."
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       "      <td>13</td>\n",
       "      <td>27</td>\n",
       "      <td>C0003402</td>\n",
       "      <td>[T121]</td>\n",
       "      <td>Antioxydanzien</td>\n",
       "      <td>[ngram, sapbert]</td>\n",
       "      <td>0.139340</td>\n",
       "    </tr>\n",
       "    <tr>\n",
       "      <th>1</th>\n",
       "      <td>01_magenkarzinom_0192_12</td>\n",
       "      <td>Chemo-</td>\n",
       "      <td>Therapeutic</td>\n",
       "      <td>51</td>\n",
       "      <td>57</td>\n",
       "      <td>C3665472</td>\n",
       "      <td>[T061]</td>\n",
       "      <td>Chemotherapie</td>\n",
       "      <td>[ngram, sapbert]</td>\n",
       "      <td>0.090850</td>\n",
       "    </tr>\n",
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       "      <th>2</th>\n",
       "      <td>01_magenkarzinom_0192_12</td>\n",
       "      <td>Strahlentherapie</td>\n",
       "      <td>Therapeutic</td>\n",
       "      <td>62</td>\n",
       "      <td>78</td>\n",
       "      <td>C1522449</td>\n",
       "      <td>[T061]</td>\n",
       "      <td>Strahlentherapie</td>\n",
       "      <td>[ngram, sapbert]</td>\n",
       "      <td>0.140554</td>\n",
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       "                   document              text                        type  \\\n",
       "0  01_magenkarzinom_0192_12    Antioxidantien  Nutrient_or_Body_Substance   \n",
       "1  01_magenkarzinom_0192_12            Chemo-                 Therapeutic   \n",
       "2  01_magenkarzinom_0192_12  Strahlentherapie                 Therapeutic   \n",
       "\n",
       "   start  end       cui    tuis         canonical            linker  \\\n",
       "0     13   27  C0003402  [T121]    Antioxydanzien  [ngram, sapbert]   \n",
       "1     51   57  C3665472  [T061]     Chemotherapie  [ngram, sapbert]   \n",
       "2     62   78  C1522449  [T061]  Strahlentherapie  [ngram, sapbert]   \n",
       "\n",
       "   confidence  \n",
       "0    0.139340  \n",
       "1    0.090850  \n",
       "2    0.140554  "
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     "text": [
      "Difference 3\n"
     ]
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     "data": {
      "text/markdown": [
       "Hierzu gehören die Vitamine C und E sowie Betacarotin."
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       "Hierzu gehören die Vitamine C und Vitamine E sowie Betacarotin."
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       "<html><body><div>Hierzu gehören die Vitamine C und <span style=\"background-color: lightgreen;\">Vitamine </span>E sowie Betacarotin.</div></body></html>"
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       "                   document              text                        type  \\\n",
       "0  01_magenkarzinom_0192_13        Vitamine C  Nutrient_or_Body_Substance   \n",
       "1  01_magenkarzinom_0192_13  Vitamine C und E  Nutrient_or_Body_Substance   \n",
       "2  01_magenkarzinom_0192_13                 E  Nutrient_or_Body_Substance   \n",
       "3  01_magenkarzinom_0192_13       Betacarotin  Nutrient_or_Body_Substance   \n",
       "\n",
       "   start  end       cui                tuis  \\\n",
       "0     19   29  C0003968  [T109, T121, T127]   \n",
       "1     19   35  C0042874  [T109, T121, T127]   \n",
       "2     34   35  C0439131              [T170]   \n",
       "3     42   53  C0053396  [T109, T121, T127]   \n",
       "\n",
       "                                     canonical            linker  confidence  \n",
       "0                                Ascorbinsäure  [ngram, sapbert]    0.134796  \n",
       "1                                    Vitamin E  [ngram, sapbert]    0.069408  \n",
       "2  Lower case Roman letter e (qualifier value)  [ngram, sapbert]    0.079268  \n",
       "3                                 Beta-Carotin  [ngram, sapbert]    0.203045  "
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       "2  01_magenkarzinom_0192_13  Betacarotin  Nutrient_or_Body_Substance     51   \n",
       "\n",
       "   end       cui                tuis      canonical            linker  \\\n",
       "0   29  C0003968  [T109, T121, T127]  Ascorbinsäure  [ngram, sapbert]   \n",
       "1   44  C0042874  [T109, T121, T127]      Vitamin E  [ngram, sapbert]   \n",
       "2   62  C0053396  [T109, T121, T127]   Beta-Carotin  [ngram, sapbert]   \n",
       "\n",
       "   confidence  \n",
       "0    0.126339  \n",
       "1    0.074293  \n",
       "2    0.194001  "
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     "text": [
      "Difference 4\n"
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     "data": {
      "text/markdown": [
       "Bei nachgewiesenem oder mit der Krankheitssituation des Patienten regelhaft einhergehenden Mangelsituationen (Beispiel Vitamin B12) ist eine Substitution orientiert am physiologischen Bedarf und den Zufuhr- und Resorptionsmöglichkeiten des Patienten erforderlich."
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       "Bei nachgewiesenem oder mit der Krankheitssituation des Patienten regelhaft einhergehenden Mangelsituationen (Beispiel Vitamin B12) ist eine Substitution orientiert am physiologischen Bedarf und den Zufuhrmöglichkeiten und Resorptionsmöglichkeiten des Patienten erforderlich."
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       "<html><body><div>Bei nachgewiesenem oder mit der Krankheitssituation des Patienten regelhaft einhergehenden Mangelsituationen (Beispiel Vitamin B12) ist eine Substitution orientiert am physiologischen Bedarf und den Zufuhr<span style=\"background-color: red; text-decoration: line-through;\">-</span><span style=\"background-color: lightgreen;\">möglichkeiten</span> und Resorptionsmöglichkeiten des Patienten erforderlich.</div></body></html>"
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       "      <td>Nutrient_or_Body_Substance</td>\n",
       "      <td>119</td>\n",
       "      <td>130</td>\n",
       "      <td>C0042845</td>\n",
       "      <td>[T109, T121, T127]</td>\n",
       "      <td>Vitamin B12</td>\n",
       "      <td>[ngram, sapbert]</td>\n",
       "      <td>0.124395</td>\n",
       "    </tr>\n",
       "    <tr>\n",
       "      <th>3</th>\n",
       "      <td>01_magenkarzinom_0192_18</td>\n",
       "      <td>Substitution</td>\n",
       "      <td>Therapeutic</td>\n",
       "      <td>141</td>\n",
       "      <td>153</td>\n",
       "      <td>C2936279</td>\n",
       "      <td>[T058]</td>\n",
       "      <td>Drug Substitution</td>\n",
       "      <td>[ngram, sapbert]</td>\n",
       "      <td>0.072037</td>\n",
       "    </tr>\n",
       "    <tr>\n",
       "      <th>4</th>\n",
       "      <td>01_magenkarzinom_0192_18</td>\n",
       "      <td>physiologischen Bedarf</td>\n",
       "      <td>Other_Finding</td>\n",
       "      <td>168</td>\n",
       "      <td>190</td>\n",
       "      <td>C0028719</td>\n",
       "      <td>[T032]</td>\n",
       "      <td>Nutritional Requirements</td>\n",
       "      <td>[sapbert]</td>\n",
       "      <td>0.066891</td>\n",
       "    </tr>\n",
       "    <tr>\n",
       "      <th>5</th>\n",
       "      <td>01_magenkarzinom_0192_18</td>\n",
       "      <td>Zufuhr-</td>\n",
       "      <td>Other_Finding</td>\n",
       "      <td>199</td>\n",
       "      <td>206</td>\n",
       "      <td>C0013470</td>\n",
       "      <td>[T040]</td>\n",
       "      <td>Essen</td>\n",
       "      <td>[sapbert]</td>\n",
       "      <td>0.070076</td>\n",
       "    </tr>\n",
       "    <tr>\n",
       "      <th>6</th>\n",
       "      <td>01_magenkarzinom_0192_18</td>\n",
       "      <td>Resorptionsmöglichkeiten</td>\n",
       "      <td>Other_Finding</td>\n",
       "      <td>211</td>\n",
       "      <td>235</td>\n",
       "      <td>C2985494</td>\n",
       "      <td>[T040]</td>\n",
       "      <td>Resorption</td>\n",
       "      <td>[ngram, sapbert]</td>\n",
       "      <td>0.066815</td>\n",
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       "                   document                                             text  \\\n",
       "0  01_magenkarzinom_0192_18  nachgewiesenem oder mit der Krankheitssituation   \n",
       "1  01_magenkarzinom_0192_18       regelhaft einhergehenden Mangelsituationen   \n",
       "2  01_magenkarzinom_0192_18                                      Vitamin B12   \n",
       "3  01_magenkarzinom_0192_18                                     Substitution   \n",
       "4  01_magenkarzinom_0192_18                           physiologischen Bedarf   \n",
       "5  01_magenkarzinom_0192_18                                          Zufuhr-   \n",
       "6  01_magenkarzinom_0192_18                         Resorptionsmöglichkeiten   \n",
       "\n",
       "                         type  start  end       cui                tuis  \\\n",
       "0      Diagnosis_or_Pathology      4   51  C3887610              [T033]   \n",
       "1      Diagnosis_or_Pathology     66  108  C0520966              [T033]   \n",
       "2  Nutrient_or_Body_Substance    119  130  C0042845  [T109, T121, T127]   \n",
       "3                 Therapeutic    141  153  C2936279              [T058]   \n",
       "4               Other_Finding    168  190  C0028719              [T032]   \n",
       "5               Other_Finding    199  206  C0013470              [T040]   \n",
       "6               Other_Finding    211  235  C2985494              [T040]   \n",
       "\n",
       "                         canonical            linker  confidence  \n",
       "0  Disease related state (finding)         [sapbert]    0.065285  \n",
       "1                  Dyskoordination  [ngram, sapbert]    0.063747  \n",
       "2                      Vitamin B12  [ngram, sapbert]    0.124395  \n",
       "3                Drug Substitution  [ngram, sapbert]    0.072037  \n",
       "4         Nutritional Requirements         [sapbert]    0.066891  \n",
       "5                            Essen         [sapbert]    0.070076  \n",
       "6                       Resorption  [ngram, sapbert]    0.066815  "
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       "      <td>141</td>\n",
       "      <td>153</td>\n",
       "      <td>C2936279</td>\n",
       "      <td>[T058]</td>\n",
       "      <td>Drug Substitution</td>\n",
       "      <td>[ngram, sapbert]</td>\n",
       "      <td>0.072232</td>\n",
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       "      <td>[T032]</td>\n",
       "      <td>Nutritional Requirements</td>\n",
       "      <td>[sapbert]</td>\n",
       "      <td>0.066736</td>\n",
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       "      <th>5</th>\n",
       "      <td>01_magenkarzinom_0192_18</td>\n",
       "      <td>Zufuhrmöglichkeiten</td>\n",
       "      <td>Other_Finding</td>\n",
       "      <td>199</td>\n",
       "      <td>218</td>\n",
       "      <td>C0028722</td>\n",
       "      <td>[T080]</td>\n",
       "      <td>Nutritive Value</td>\n",
       "      <td>[sapbert]</td>\n",
       "      <td>0.066207</td>\n",
       "    </tr>\n",
       "    <tr>\n",
       "      <th>6</th>\n",
       "      <td>01_magenkarzinom_0192_18</td>\n",
       "      <td>Resorptionsmöglichkeiten</td>\n",
       "      <td>Other_Finding</td>\n",
       "      <td>223</td>\n",
       "      <td>247</td>\n",
       "      <td>C2985494</td>\n",
       "      <td>[T040]</td>\n",
       "      <td>Resorption</td>\n",
       "      <td>[ngram, sapbert]</td>\n",
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       "                   document                                             text  \\\n",
       "0  01_magenkarzinom_0192_18  nachgewiesenem oder mit der Krankheitssituation   \n",
       "1  01_magenkarzinom_0192_18       regelhaft einhergehenden Mangelsituationen   \n",
       "2  01_magenkarzinom_0192_18                                      Vitamin B12   \n",
       "3  01_magenkarzinom_0192_18                                     Substitution   \n",
       "4  01_magenkarzinom_0192_18                           physiologischen Bedarf   \n",
       "5  01_magenkarzinom_0192_18                              Zufuhrmöglichkeiten   \n",
       "6  01_magenkarzinom_0192_18                         Resorptionsmöglichkeiten   \n",
       "\n",
       "                         type  start  end       cui                tuis  \\\n",
       "0      Diagnosis_or_Pathology      4   51  C3887610              [T033]   \n",
       "1      Diagnosis_or_Pathology     66  108  C0520966              [T033]   \n",
       "2  Nutrient_or_Body_Substance    119  130  C0042845  [T109, T121, T127]   \n",
       "3                 Therapeutic    141  153  C2936279              [T058]   \n",
       "4               Other_Finding    168  190  C0028719              [T032]   \n",
       "5               Other_Finding    199  218  C0028722              [T080]   \n",
       "6               Other_Finding    223  247  C2985494              [T040]   \n",
       "\n",
       "                         canonical            linker  confidence  \n",
       "0  Disease related state (finding)         [sapbert]    0.065285  \n",
       "1                  Dyskoordination  [ngram, sapbert]    0.063714  \n",
       "2                      Vitamin B12  [ngram, sapbert]    0.123965  \n",
       "3                Drug Substitution  [ngram, sapbert]    0.072232  \n",
       "4         Nutritional Requirements         [sapbert]    0.066736  \n",
       "5                  Nutritive Value         [sapbert]    0.066207  \n",
       "6                       Resorption  [ngram, sapbert]    0.068145  "
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     "text": [
      "Difference 5\n"
     ]
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    {
     "data": {
      "text/markdown": [
       "Zu uterinen Karzinomen (Endometrium- und Zervixkarzinom) existiert eine multizentrische, randomisierte Phase-3-Studie, die die Auswirkungen einer Supplementation von Natriumselenit auf die unerwünschten Wirkungen der Strahlentherapie untersuchte."
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       "Zu uterinen Karzinomen (Endometriumkarzinom und Zervixkarzinom) existiert eine multizentrische, randomisierte Phase-3-Studie, die die Auswirkungen einer Supplementation von Natriumselenit auf die unerwünschten Wirkungen der Strahlentherapie untersuchte."
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       "<html><body><div>Zu uterinen Karzinomen (Endometrium<span style=\"background-color: red; text-decoration: line-through;\">-</span><span style=\"background-color: lightgreen;\">karzinom</span> und Zervixkarzinom) existiert eine multizentrische, randomisierte Phase-3-Studie, die die Auswirkungen einer Supplementation von Natriumselenit auf die unerwünschten Wirkungen der Strahlentherapie untersuchte.</div></body></html>"
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       "      <th>0</th>\n",
       "      <td>05_zervixkarzinom_0265_11</td>\n",
       "      <td>uterinen Karzinomen</td>\n",
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       "      <td>146</td>\n",
       "      <td>180</td>\n",
       "      <td>C0521939</td>\n",
       "      <td>[T121, T197]</td>\n",
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       "      <td>[ngram, sapbert]</td>\n",
       "      <td>0.070027</td>\n",
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       "      <td>166</td>\n",
       "      <td>180</td>\n",
       "      <td>C0142923</td>\n",
       "      <td>[T121, T197]</td>\n",
       "      <td>Natriumselenit</td>\n",
       "      <td>[ngram, sapbert]</td>\n",
       "      <td>0.148524</td>\n",
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       "      <th>5</th>\n",
       "      <td>05_zervixkarzinom_0265_11</td>\n",
       "      <td>unerwünschten Wirkungen der Strahlentherapie</td>\n",
       "      <td>Diagnosis_or_Pathology</td>\n",
       "      <td>189</td>\n",
       "      <td>233</td>\n",
       "      <td>C0392615</td>\n",
       "      <td>[T037]</td>\n",
       "      <td>Effect of radiation therapy</td>\n",
       "      <td>[sapbert]</td>\n",
       "      <td>0.075655</td>\n",
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       "    <tr>\n",
       "      <th>6</th>\n",
       "      <td>05_zervixkarzinom_0265_11</td>\n",
       "      <td>Strahlentherapie</td>\n",
       "      <td>Therapeutic</td>\n",
       "      <td>217</td>\n",
       "      <td>233</td>\n",
       "      <td>C1522449</td>\n",
       "      <td>[T061]</td>\n",
       "      <td>Strahlentherapie</td>\n",
       "      <td>[ngram, sapbert]</td>\n",
       "      <td>0.139603</td>\n",
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       "                    document                                          text  \\\n",
       "0  05_zervixkarzinom_0265_11                           uterinen Karzinomen   \n",
       "1  05_zervixkarzinom_0265_11                                  Endometrium-   \n",
       "2  05_zervixkarzinom_0265_11                                Zervixkarzinom   \n",
       "3  05_zervixkarzinom_0265_11            Supplementation von Natriumselenit   \n",
       "4  05_zervixkarzinom_0265_11                                Natriumselenit   \n",
       "5  05_zervixkarzinom_0265_11  unerwünschten Wirkungen der Strahlentherapie   \n",
       "6  05_zervixkarzinom_0265_11                              Strahlentherapie   \n",
       "\n",
       "                     type  start  end       cui          tuis  \\\n",
       "0  Diagnosis_or_Pathology      3   22  C0153567        [T191]   \n",
       "1  Diagnosis_or_Pathology     24   36  C0014180        [T023]   \n",
       "2  Diagnosis_or_Pathology     41   55  C0302592        [T191]   \n",
       "3             Therapeutic    146  180  C0521939  [T121, T197]   \n",
       "4           Clinical_Drug    166  180  C0142923  [T121, T197]   \n",
       "5  Diagnosis_or_Pathology    189  233  C0392615        [T037]   \n",
       "6             Therapeutic    217  233  C1522449        [T061]   \n",
       "\n",
       "                     canonical            linker  confidence  \n",
       "0             Krebs des Uterus  [ngram, sapbert]    0.076731  \n",
       "1                  Endometrium  [ngram, sapbert]    0.115464  \n",
       "2               Zervixkarzinom  [ngram, sapbert]    0.123141  \n",
       "3          Selenium supplement  [ngram, sapbert]    0.070027  \n",
       "4               Natriumselenit  [ngram, sapbert]    0.148524  \n",
       "5  Effect of radiation therapy         [sapbert]    0.075655  \n",
       "6             Strahlentherapie  [ngram, sapbert]    0.139603  "
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       "      <td>05_zervixkarzinom_0265_11</td>\n",
       "      <td>Endometriumkarzinom</td>\n",
       "      <td>Diagnosis_or_Pathology</td>\n",
       "      <td>24</td>\n",
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       "      <td>C0476089</td>\n",
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       "      <td>Endometriumkarzinom</td>\n",
       "      <td>[ngram, sapbert]</td>\n",
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       "      <td>Zervixkarzinom</td>\n",
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       "      <td>48</td>\n",
       "      <td>62</td>\n",
       "      <td>C0302592</td>\n",
       "      <td>[T191]</td>\n",
       "      <td>Zervixkarzinom</td>\n",
       "      <td>[ngram, sapbert]</td>\n",
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       "      <td>[ngram, sapbert]</td>\n",
       "      <td>0.070570</td>\n",
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       "      <td>05_zervixkarzinom_0265_11</td>\n",
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       "      <td>[T121, T197]</td>\n",
       "      <td>Natriumselenit</td>\n",
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       "      <td>0.148524</td>\n",
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       "      <th>5</th>\n",
       "      <td>05_zervixkarzinom_0265_11</td>\n",
       "      <td>unerwünschten Wirkungen der Strahlentherapie</td>\n",
       "      <td>Diagnosis_or_Pathology</td>\n",
       "      <td>196</td>\n",
       "      <td>240</td>\n",
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       "      <td>[T037]</td>\n",
       "      <td>Effect of radiation therapy</td>\n",
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       "      <th>6</th>\n",
       "      <td>05_zervixkarzinom_0265_11</td>\n",
       "      <td>Strahlentherapie</td>\n",
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       "      <td>224</td>\n",
       "      <td>240</td>\n",
       "      <td>C1522449</td>\n",
       "      <td>[T061]</td>\n",
       "      <td>Strahlentherapie</td>\n",
       "      <td>[ngram, sapbert]</td>\n",
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       "                    document                                          text  \\\n",
       "0  05_zervixkarzinom_0265_11                           uterinen Karzinomen   \n",
       "1  05_zervixkarzinom_0265_11                           Endometriumkarzinom   \n",
       "2  05_zervixkarzinom_0265_11                                Zervixkarzinom   \n",
       "3  05_zervixkarzinom_0265_11            Supplementation von Natriumselenit   \n",
       "4  05_zervixkarzinom_0265_11                                Natriumselenit   \n",
       "5  05_zervixkarzinom_0265_11  unerwünschten Wirkungen der Strahlentherapie   \n",
       "6  05_zervixkarzinom_0265_11                              Strahlentherapie   \n",
       "\n",
       "                     type  start  end       cui          tuis  \\\n",
       "0  Diagnosis_or_Pathology      3   22  C0153567        [T191]   \n",
       "1  Diagnosis_or_Pathology     24   43  C0476089        [T191]   \n",
       "2  Diagnosis_or_Pathology     48   62  C0302592        [T191]   \n",
       "3             Therapeutic    153  187  C0521939  [T121, T197]   \n",
       "4           Clinical_Drug    173  187  C0142923  [T121, T197]   \n",
       "5  Diagnosis_or_Pathology    196  240  C0392615        [T037]   \n",
       "6             Therapeutic    224  240  C1522449        [T061]   \n",
       "\n",
       "                     canonical            linker  confidence  \n",
       "0             Krebs des Uterus  [ngram, sapbert]    0.076976  \n",
       "1          Endometriumkarzinom  [ngram, sapbert]    0.118525  \n",
       "2               Zervixkarzinom  [ngram, sapbert]    0.121492  \n",
       "3          Selenium supplement  [ngram, sapbert]    0.070570  \n",
       "4               Natriumselenit  [ngram, sapbert]    0.148524  \n",
       "5  Effect of radiation therapy         [sapbert]    0.075655  \n",
       "6             Strahlentherapie  [ngram, sapbert]    0.139603  "
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     "text": [
      "Difference 6\n"
     ]
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     "data": {
      "text/markdown": [
       "Hinweise für ein ungünstigeres rezidivfreies und Gesamtüberleben fanden sich nicht."
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       "Hinweise für ein ungünstigeres rezidivfreies Überleben und Gesamtüberleben fanden sich nicht."
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       "\n",
       "                                           canonical            linker  \\\n",
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       "1                                      Survival Rate  [ngram, sapbert]   \n",
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     "text": [
      "Difference 7\n"
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     "data": {
      "text/markdown": [
       "Auch hepatische Nebenwirkungen sind unter zielgerichteten und Immuntherapien häufig."
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       "      <td>[T061]</td>\n",
       "      <td>Immuntherapie</td>\n",
       "      <td>[ngram, sapbert]</td>\n",
       "      <td>0.139838</td>\n",
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       "                     document                       text  \\\n",
       "0  07_malignes-melanom_0197_2  hepatische Nebenwirkungen   \n",
       "1  07_malignes-melanom_0197_2  zielgerichteten Therapien   \n",
       "2  07_malignes-melanom_0197_2             Immuntherapien   \n",
       "\n",
       "                     type  start  end       cui    tuis  \\\n",
       "0  Diagnosis_or_Pathology      5   30  C0235378  [T037]   \n",
       "1             Therapeutic     42   67  C2699893  [T061]   \n",
       "2             Therapeutic     72   86  C0021083  [T061]   \n",
       "\n",
       "                    canonical            linker  confidence  \n",
       "0             Lebertoxizitaet         [sapbert]    0.066987  \n",
       "1  Molecular Targeted Therapy  [ngram, sapbert]    0.072630  \n",
       "2               Immuntherapie  [ngram, sapbert]    0.139838  "
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     "text": [
      "Difference 8\n"
     ]
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      "text/markdown": [
       "BRAF/MEK-Inhibitoren führen insbesondere zu asymptomatischen Transaminasenerhöhungen bei etwa 30% der Patienten, Grad 3/4 Erhöhungen treten bei etwa 10% auf [REF], [REF]."
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       "BRAF-Inhibitoren/MEK-Inhibitoren führen insbesondere zu asymptomatischen Transaminasenerhöhungen bei etwa 30% der Patienten, Grad 3 Erhöhungen/Grad 4 Erhöhungen treten bei etwa 10% auf [REF], [REF]."
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       "<html><body><div>BRAF<span style=\"background-color: lightgreen;\">-Inhibitoren</span>/MEK-Inhibitoren führen insbesondere zu asymptomatischen Transaminasenerhöhungen bei etwa 30% der Patienten, Grad 3<span style=\"background-color: lightgreen;\"> Erhöhungen</span>/<span style=\"background-color: lightgreen;\">Grad </span>4 Erhöhungen treten bei etwa 10% auf [REF], [REF].</div></body></html>"
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       "                     document                                      text  \\\n",
       "0  07_malignes-melanom_0197_3                                      BRAF   \n",
       "1  07_malignes-melanom_0197_3                           MEK-Inhibitoren   \n",
       "2  07_malignes-melanom_0197_3  asymptomatischen Transaminasenerhöhungen   \n",
       "3  07_malignes-melanom_0197_3                                    Grad 3   \n",
       "4  07_malignes-melanom_0197_3                       Grad 3/4 Erhöhungen   \n",
       "\n",
       "                     type  start  end       cui          tuis  \\\n",
       "0           Clinical_Drug      0    4  C1259929  [T116, T123]   \n",
       "1           Clinical_Drug      5   20  C2347168        [T121]   \n",
       "2  Diagnosis_or_Pathology     44   84  C0438717        [T033]   \n",
       "3  Diagnosis_or_Pathology    113  119  C0450094        [T033]   \n",
       "4  Diagnosis_or_Pathology    113  132  C5548512        [T185]   \n",
       "\n",
       "                      canonical            linker  confidence  \n",
       "0          94 kDa B-raf Protein  [ngram, sapbert]    0.077802  \n",
       "1               MAPKK Inhibitor  [ngram, sapbert]    0.112728  \n",
       "2         Transaminasen erhoeht  [ngram, sapbert]    0.067316  \n",
       "3                       Grade 3  [ngram, sapbert]    0.116514  \n",
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       "                     document                                      text  \\\n",
       "0  07_malignes-melanom_0197_3                          BRAF-Inhibitoren   \n",
       "1  07_malignes-melanom_0197_3                           MEK-Inhibitoren   \n",
       "2  07_malignes-melanom_0197_3  asymptomatischen Transaminasenerhöhungen   \n",
       "3  07_malignes-melanom_0197_3                         Grad 3 Erhöhungen   \n",
       "4  07_malignes-melanom_0197_3                         Grad 4 Erhöhungen   \n",
       "\n",
       "                     type  start  end       cui          tuis  \\\n",
       "0           Clinical_Drug      0   16  C3838813  [T116, T121]   \n",
       "1           Clinical_Drug     17   32  C2347168        [T121]   \n",
       "2  Diagnosis_or_Pathology     56   96  C0438717        [T033]   \n",
       "3  Diagnosis_or_Pathology    125  142  C1333844        [T033]   \n",
       "4  Diagnosis_or_Pathology    143  160  C0547054        [T185]   \n",
       "\n",
       "               canonical            linker  confidence  \n",
       "0        B-Raf inhibitor  [ngram, sapbert]    0.099231  \n",
       "1        MAPKK Inhibitor  [ngram, sapbert]    0.091886  \n",
       "2  Transaminasen erhoeht  [ngram, sapbert]    0.064062  \n",
       "3         Grade 3 Lesion  [ngram, sapbert]    0.068164  \n",
       "4               Grade IV  [ngram, sapbert]    0.067878  "
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      "Difference 9\n"
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      "text/markdown": [
       "In der CheckMate 067 Studie zeigten bis zu 18% der Patienten meist asymptomatische Transaminasenerhöhungen, während es bei Ipilimumab und Nivolumab Monotherapie jeweils nur 4% sind [REF]."
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       "                     document                                     text  \\\n",
       "0  07_malignes-melanom_0197_6  asymptomatische Transaminasenerhöhungen   \n",
       "1  07_malignes-melanom_0197_6                               Ipilimumab   \n",
       "2  07_malignes-melanom_0197_6                   Nivolumab Monotherapie   \n",
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       "                     type  start  end       cui                tuis  \\\n",
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       "2             Therapeutic    138  160  C3657270  [T116, T121, T129]   \n",
       "\n",
       "               canonical            linker  confidence  \n",
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       "1             Ipilimumab  [ngram, sapbert]    0.144958  \n",
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       "      <td>asymptomatische Transaminasenerhöhungen</td>\n",
       "      <td>Diagnosis_or_Pathology</td>\n",
       "      <td>67</td>\n",
       "      <td>106</td>\n",
       "      <td>C0438717</td>\n",
       "      <td>[T033]</td>\n",
       "      <td>Transaminasen erhoeht</td>\n",
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       "      <td>Nivolumab Monotherapie</td>\n",
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       "                     document                                     text  \\\n",
       "0  07_malignes-melanom_0197_6  asymptomatische Transaminasenerhöhungen   \n",
       "1  07_malignes-melanom_0197_6                  Ipilimumab Monotherapie   \n",
       "2  07_malignes-melanom_0197_6                   Nivolumab Monotherapie   \n",
       "\n",
       "                     type  start  end       cui                tuis  \\\n",
       "0  Diagnosis_or_Pathology     67  106  C0438717              [T033]   \n",
       "1             Therapeutic    123  146  C1367202  [T116, T121, T129]   \n",
       "2             Therapeutic    151  173  C3657270  [T116, T121, T129]   \n",
       "\n",
       "               canonical            linker  confidence  \n",
       "0  Transaminasen erhoeht  [ngram, sapbert]    0.064624  \n",
       "1             Ipilimumab         [sapbert]    0.076966  \n",
       "2              Nivolumab         [sapbert]    0.075624  "
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      "Difference 10\n"
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       "Grad 3/4 Hepatitiden sieht man bei bis zu 8% unter Ipilimumab plus Nivolumab und maximal 2% unter den Monotherapien."
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       "0  07_malignes-melanom_0197_7       Grad 3/4 Hepatitiden   \n",
       "1  07_malignes-melanom_0197_7  Ipilimumab plus Nivolumab   \n",
       "2  07_malignes-melanom_0197_7              Monotherapien   \n",
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       "                     type  start  end       cui    tuis  \\\n",
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       "1           Clinical_Drug     51   76  C4727545  [T061]   \n",
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       "                        canonical            linker  confidence  \n",
       "0  Grade 4 Viral Hepatitis, CTCAE  [ngram, sapbert]    0.063176  \n",
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       "0  07_malignes-melanom_0197_7  Grad 3 Hepatitiden/Grad 4 Hepatitiden   \n",
       "1  07_malignes-melanom_0197_7              Ipilimumab plus Nivolumab   \n",
       "2  07_malignes-melanom_0197_7                          Monotherapien   \n",
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       "0  Diagnosis_or_Pathology      0   37  C4686259  [T033]   \n",
       "1           Clinical_Drug     68   93  C4727545  [T061]   \n",
       "2             Therapeutic    119  132  C4763675  [T061]   \n",
       "\n",
       "                      canonical            linker  confidence  \n",
       "0   Grade 3 Hepatic Pain, CTCAE         [sapbert]    0.063627  \n",
       "1  Ipilimumab/Nivolumab Regimen  [ngram, sapbert]    0.110924  \n",
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     "text": [
      "Difference 11\n"
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     "data": {
      "text/markdown": [
       "Bei Grad 3/4 Transaminasenanstiegen unter zielgerichteten Therapien führt in der Regel eine Pausierung der Therapie zu einem Rückgang der Leberwerte."
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       "2  07_malignes-melanom_0197_22   \n",
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       "\n",
       "                                                text                    type  \\\n",
       "0  Grad 3/4 Transaminasenanstiegen unter zielgeri...  Diagnosis_or_Pathology   \n",
       "1                          zielgerichteten Therapien             Therapeutic   \n",
       "2                            Pausierung der Therapie             Therapeutic   \n",
       "3                            Rückgang der Leberwerte           Other_Finding   \n",
       "\n",
       "   start  end       cui    tuis                   canonical            linker  \\\n",
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       "      <td>95</td>\n",
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       "      <td>[T061]</td>\n",
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       "   start  end       cui    tuis                   canonical            linker  \\\n",
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       "1    120  143  C0444921  [T079]          Dauer der Therapie  [ngram, sapbert]   \n",
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      "Difference 12\n"
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       "   end       cui    tuis                               canonical  \\\n",
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     "text": [
      "Difference 13\n"
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      "text/markdown": [
       "Zielgerichtete Therapien wie die BRAF- und die MEK-Inhibitoren induzieren neben Reizüberleitungsstörungen eine Reduktion der Ejektionsfraktion [REF]."
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       "                     document                             text  \\\n",
       "0  07_malignes-melanom_0207_4         Zielgerichtete Therapien   \n",
       "1  07_malignes-melanom_0207_4                            BRAF-   \n",
       "2  07_malignes-melanom_0207_4                  MEK-Inhibitoren   \n",
       "3  07_malignes-melanom_0207_4        Reizüberleitungsstörungen   \n",
       "4  07_malignes-melanom_0207_4  Reduktion der Ejektionsfraktion   \n",
       "\n",
       "                     type  start  end       cui          tuis  \\\n",
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       "1           Clinical_Drug     33   38  C1259929  [T116, T123]   \n",
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       "3  Diagnosis_or_Pathology     80  105  C0264886        [T047]   \n",
       "4  Diagnosis_or_Pathology    111  142  C0743400        [T033]   \n",
       "\n",
       "                                     canonical            linker  confidence  \n",
       "0                   Molecular Targeted Therapy  [ngram, sapbert]    0.071887  \n",
       "1                         94 kDa B-raf Protein  [ngram, sapbert]    0.077549  \n",
       "2                              MAPKK Inhibitor  [ngram, sapbert]    0.101331  \n",
       "3  Kardiale Erregungsleitungssystem-Erkrankung  [ngram, sapbert]    0.149191  \n",
       "4                  Auswurffraktion verkleinert  [ngram, sapbert]    0.072382  "
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       "      <td>Clinical_Drug</td>\n",
       "      <td>33</td>\n",
       "      <td>49</td>\n",
       "      <td>C3838813</td>\n",
       "      <td>[T116, T121]</td>\n",
       "      <td>B-Raf inhibitor</td>\n",
       "      <td>[ngram, sapbert]</td>\n",
       "      <td>0.102607</td>\n",
       "    </tr>\n",
       "    <tr>\n",
       "      <th>2</th>\n",
       "      <td>07_malignes-melanom_0207_4</td>\n",
       "      <td>MEK-Inhibitoren</td>\n",
       "      <td>Clinical_Drug</td>\n",
       "      <td>58</td>\n",
       "      <td>73</td>\n",
       "      <td>C2347168</td>\n",
       "      <td>[T121]</td>\n",
       "      <td>MAPKK Inhibitor</td>\n",
       "      <td>[ngram, sapbert]</td>\n",
       "      <td>0.100303</td>\n",
       "    </tr>\n",
       "    <tr>\n",
       "      <th>3</th>\n",
       "      <td>07_malignes-melanom_0207_4</td>\n",
       "      <td>Reizüberleitungsstörungen</td>\n",
       "      <td>Diagnosis_or_Pathology</td>\n",
       "      <td>91</td>\n",
       "      <td>116</td>\n",
       "      <td>C0264886</td>\n",
       "      <td>[T047]</td>\n",
       "      <td>Kardiale Erregungsleitungssystem-Erkrankung</td>\n",
       "      <td>[ngram, sapbert]</td>\n",
       "      <td>0.126522</td>\n",
       "    </tr>\n",
       "    <tr>\n",
       "      <th>4</th>\n",
       "      <td>07_malignes-melanom_0207_4</td>\n",
       "      <td>Reduktion der Ejektionsfraktion</td>\n",
       "      <td>Diagnosis_or_Pathology</td>\n",
       "      <td>122</td>\n",
       "      <td>153</td>\n",
       "      <td>C0743400</td>\n",
       "      <td>[T033]</td>\n",
       "      <td>Auswurffraktion verkleinert</td>\n",
       "      <td>[ngram, sapbert]</td>\n",
       "      <td>0.073114</td>\n",
       "    </tr>\n",
       "  </tbody>\n",
       "</table>\n",
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       "                     document                             text  \\\n",
       "0  07_malignes-melanom_0207_4         Zielgerichtete Therapien   \n",
       "1  07_malignes-melanom_0207_4                 BRAF-Inhibitoren   \n",
       "2  07_malignes-melanom_0207_4                  MEK-Inhibitoren   \n",
       "3  07_malignes-melanom_0207_4        Reizüberleitungsstörungen   \n",
       "4  07_malignes-melanom_0207_4  Reduktion der Ejektionsfraktion   \n",
       "\n",
       "                     type  start  end       cui          tuis  \\\n",
       "0             Therapeutic      0   24  C2699893        [T061]   \n",
       "1           Clinical_Drug     33   49  C3838813  [T116, T121]   \n",
       "2           Clinical_Drug     58   73  C2347168        [T121]   \n",
       "3  Diagnosis_or_Pathology     91  116  C0264886        [T047]   \n",
       "4  Diagnosis_or_Pathology    122  153  C0743400        [T033]   \n",
       "\n",
       "                                     canonical            linker  confidence  \n",
       "0                   Molecular Targeted Therapy  [ngram, sapbert]    0.072258  \n",
       "1                              B-Raf inhibitor  [ngram, sapbert]    0.102607  \n",
       "2                              MAPKK Inhibitor  [ngram, sapbert]    0.100303  \n",
       "3  Kardiale Erregungsleitungssystem-Erkrankung  [ngram, sapbert]    0.126522  \n",
       "4                  Auswurffraktion verkleinert  [ngram, sapbert]    0.073114  "
      ]
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     "text": [
      "Difference 14\n"
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      "text/markdown": [
       "Unter Immuntherapien mit anti-CTLA4 und anti-PD1 Antikörper zeigten sich Myokarditiden, Perikarditiden, Perikardtamponade, Kardiomyopathie, Herzversagen, Reizleitungsstörungen, Myokardinfarkt bzw. kardiale Ischämie und Myokardfibrose [REF]."
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       "Unter Immuntherapien mit anti-CTLA4 Antikörper und anti-PD1 Antikörper zeigten sich Myokarditiden, Perikarditiden, Perikardtamponade, Kardiomyopathie, Herzversagen, Reizleitungsstörungen, Myokardinfarkt bzw. kardiale Ischämie und Myokardfibrose [REF]."
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       "<html><body><div>Unter Immuntherapien mit anti-CTLA4 <span style=\"background-color: lightgreen;\">Antikörper </span>und anti-PD1 Antikörper zeigten sich Myokarditiden, Perikarditiden, Perikardtamponade, Kardiomyopathie, Herzversagen, Reizleitungsstörungen, Myokardinfarkt bzw. kardiale Ischämie und Myokardfibrose [REF].</div></body></html>"
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       "      <th>0</th>\n",
       "      <td>07_malignes-melanom_0207_9</td>\n",
       "      <td>Immuntherapien mit anti-CTLA4 und anti-PD1 Ant...</td>\n",
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       "      <td>6</td>\n",
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       "      <td>C1367202</td>\n",
       "      <td>[T116, T121, T129]</td>\n",
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       "      <td>[ngram, sapbert]</td>\n",
       "      <td>0.065991</td>\n",
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       "    <tr>\n",
       "      <th>3</th>\n",
       "      <td>07_malignes-melanom_0207_9</td>\n",
       "      <td>anti-PD1 Antikörper</td>\n",
       "      <td>Clinical_Drug</td>\n",
       "      <td>40</td>\n",
       "      <td>59</td>\n",
       "      <td>C4289970</td>\n",
       "      <td>[T116, T121, T129]</td>\n",
       "      <td>Anti-PD1 Monoclonal Antibody</td>\n",
       "      <td>[ngram, sapbert]</td>\n",
       "      <td>0.066907</td>\n",
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       "    <tr>\n",
       "      <th>4</th>\n",
       "      <td>07_malignes-melanom_0207_9</td>\n",
       "      <td>Myokarditiden</td>\n",
       "      <td>Diagnosis_or_Pathology</td>\n",
       "      <td>73</td>\n",
       "      <td>86</td>\n",
       "      <td>C0027059</td>\n",
       "      <td>[T047]</td>\n",
       "      <td>Myokarditis</td>\n",
       "      <td>[ngram, sapbert]</td>\n",
       "      <td>0.099101</td>\n",
       "    </tr>\n",
       "    <tr>\n",
       "      <th>5</th>\n",
       "      <td>07_malignes-melanom_0207_9</td>\n",
       "      <td>Perikarditiden</td>\n",
       "      <td>Diagnosis_or_Pathology</td>\n",
       "      <td>88</td>\n",
       "      <td>102</td>\n",
       "      <td>C0031046</td>\n",
       "      <td>[T047]</td>\n",
       "      <td>Perikarditis</td>\n",
       "      <td>[ngram, sapbert]</td>\n",
       "      <td>0.122347</td>\n",
       "    </tr>\n",
       "    <tr>\n",
       "      <th>6</th>\n",
       "      <td>07_malignes-melanom_0207_9</td>\n",
       "      <td>Perikardtamponade</td>\n",
       "      <td>Diagnosis_or_Pathology</td>\n",
       "      <td>104</td>\n",
       "      <td>121</td>\n",
       "      <td>C0007177</td>\n",
       "      <td>[T047]</td>\n",
       "      <td>Herztamponade</td>\n",
       "      <td>[ngram, sapbert]</td>\n",
       "      <td>0.161796</td>\n",
       "    </tr>\n",
       "    <tr>\n",
       "      <th>7</th>\n",
       "      <td>07_malignes-melanom_0207_9</td>\n",
       "      <td>Kardiomyopathie</td>\n",
       "      <td>Diagnosis_or_Pathology</td>\n",
       "      <td>123</td>\n",
       "      <td>138</td>\n",
       "      <td>C0878544</td>\n",
       "      <td>[T047]</td>\n",
       "      <td>Myokardkrankheiten</td>\n",
       "      <td>[ngram, sapbert]</td>\n",
       "      <td>0.145596</td>\n",
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       "    <tr>\n",
       "      <th>8</th>\n",
       "      <td>07_malignes-melanom_0207_9</td>\n",
       "      <td>Herzversagen</td>\n",
       "      <td>Diagnosis_or_Pathology</td>\n",
       "      <td>140</td>\n",
       "      <td>152</td>\n",
       "      <td>C0018801</td>\n",
       "      <td>[T047]</td>\n",
       "      <td>Herzinsuffizienz</td>\n",
       "      <td>[ngram, sapbert]</td>\n",
       "      <td>0.132407</td>\n",
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       "    <tr>\n",
       "      <th>9</th>\n",
       "      <td>07_malignes-melanom_0207_9</td>\n",
       "      <td>Reizleitungsstörungen</td>\n",
       "      <td>Diagnosis_or_Pathology</td>\n",
       "      <td>154</td>\n",
       "      <td>175</td>\n",
       "      <td>C0264886</td>\n",
       "      <td>[T047]</td>\n",
       "      <td>Kardiale Erregungsleitungssystem-Erkrankung</td>\n",
       "      <td>[ngram, sapbert]</td>\n",
       "      <td>0.129754</td>\n",
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       "      <th>10</th>\n",
       "      <td>07_malignes-melanom_0207_9</td>\n",
       "      <td>Myokardinfarkt</td>\n",
       "      <td>Diagnosis_or_Pathology</td>\n",
       "      <td>177</td>\n",
       "      <td>191</td>\n",
       "      <td>C0027051</td>\n",
       "      <td>[T047]</td>\n",
       "      <td>Myokardinfarkt</td>\n",
       "      <td>[ngram, sapbert]</td>\n",
       "      <td>0.132754</td>\n",
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       "    <tr>\n",
       "      <th>11</th>\n",
       "      <td>07_malignes-melanom_0207_9</td>\n",
       "      <td>kardiale Ischämie</td>\n",
       "      <td>Diagnosis_or_Pathology</td>\n",
       "      <td>197</td>\n",
       "      <td>214</td>\n",
       "      <td>C0151744</td>\n",
       "      <td>[T047]</td>\n",
       "      <td>Myokardischämie</td>\n",
       "      <td>[ngram, sapbert]</td>\n",
       "      <td>0.147217</td>\n",
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       "    <tr>\n",
       "      <th>12</th>\n",
       "      <td>07_malignes-melanom_0207_9</td>\n",
       "      <td>Myokardfibrose</td>\n",
       "      <td>Diagnosis_or_Pathology</td>\n",
       "      <td>219</td>\n",
       "      <td>233</td>\n",
       "      <td>C0151654</td>\n",
       "      <td>[T046]</td>\n",
       "      <td>Myokardfibrose</td>\n",
       "      <td>[ngram, sapbert]</td>\n",
       "      <td>0.149962</td>\n",
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       "                      document  \\\n",
       "0   07_malignes-melanom_0207_9   \n",
       "1   07_malignes-melanom_0207_9   \n",
       "2   07_malignes-melanom_0207_9   \n",
       "3   07_malignes-melanom_0207_9   \n",
       "4   07_malignes-melanom_0207_9   \n",
       "5   07_malignes-melanom_0207_9   \n",
       "6   07_malignes-melanom_0207_9   \n",
       "7   07_malignes-melanom_0207_9   \n",
       "8   07_malignes-melanom_0207_9   \n",
       "9   07_malignes-melanom_0207_9   \n",
       "10  07_malignes-melanom_0207_9   \n",
       "11  07_malignes-melanom_0207_9   \n",
       "12  07_malignes-melanom_0207_9   \n",
       "\n",
       "                                                 text                    type  \\\n",
       "0   Immuntherapien mit anti-CTLA4 und anti-PD1 Ant...             Therapeutic   \n",
       "1                                          anti-CTLA4           Clinical_Drug   \n",
       "2                  anti-CTLA4 und anti-PD1 Antikörper           Clinical_Drug   \n",
       "3                                 anti-PD1 Antikörper           Clinical_Drug   \n",
       "4                                       Myokarditiden  Diagnosis_or_Pathology   \n",
       "5                                      Perikarditiden  Diagnosis_or_Pathology   \n",
       "6                                   Perikardtamponade  Diagnosis_or_Pathology   \n",
       "7                                     Kardiomyopathie  Diagnosis_or_Pathology   \n",
       "8                                        Herzversagen  Diagnosis_or_Pathology   \n",
       "9                               Reizleitungsstörungen  Diagnosis_or_Pathology   \n",
       "10                                     Myokardinfarkt  Diagnosis_or_Pathology   \n",
       "11                                  kardiale Ischämie  Diagnosis_or_Pathology   \n",
       "12                                     Myokardfibrose  Diagnosis_or_Pathology   \n",
       "\n",
       "    start  end       cui                tuis  \\\n",
       "0       6   59  C1367202  [T116, T121, T129]   \n",
       "1      25   35  C4289973              [T116]   \n",
       "2      25   59  C4289973              [T116]   \n",
       "3      40   59  C4289970  [T116, T121, T129]   \n",
       "4      73   86  C0027059              [T047]   \n",
       "5      88  102  C0031046              [T047]   \n",
       "6     104  121  C0007177              [T047]   \n",
       "7     123  138  C0878544              [T047]   \n",
       "8     140  152  C0018801              [T047]   \n",
       "9     154  175  C0264886              [T047]   \n",
       "10    177  191  C0027051              [T047]   \n",
       "11    197  214  C0151744              [T047]   \n",
       "12    219  233  C0151654              [T046]   \n",
       "\n",
       "                                      canonical            linker  confidence  \n",
       "0                                    Ipilimumab         [sapbert]    0.064055  \n",
       "1               Anti-CTLA-4 Monoclonal Antibody  [ngram, sapbert]    0.069021  \n",
       "2               Anti-CTLA-4 Monoclonal Antibody  [ngram, sapbert]    0.065991  \n",
       "3                  Anti-PD1 Monoclonal Antibody  [ngram, sapbert]    0.066907  \n",
       "4                                   Myokarditis  [ngram, sapbert]    0.099101  \n",
       "5                                  Perikarditis  [ngram, sapbert]    0.122347  \n",
       "6                                 Herztamponade  [ngram, sapbert]    0.161796  \n",
       "7                            Myokardkrankheiten  [ngram, sapbert]    0.145596  \n",
       "8                              Herzinsuffizienz  [ngram, sapbert]    0.132407  \n",
       "9   Kardiale Erregungsleitungssystem-Erkrankung  [ngram, sapbert]    0.129754  \n",
       "10                               Myokardinfarkt  [ngram, sapbert]    0.132754  \n",
       "11                              Myokardischämie  [ngram, sapbert]    0.147217  \n",
       "12                               Myokardfibrose  [ngram, sapbert]    0.149962  "
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       "      <td>[ngram, sapbert]</td>\n",
       "      <td>0.066033</td>\n",
       "    </tr>\n",
       "    <tr>\n",
       "      <th>3</th>\n",
       "      <td>07_malignes-melanom_0207_9</td>\n",
       "      <td>anti-PD1 Antikörper</td>\n",
       "      <td>Clinical_Drug</td>\n",
       "      <td>51</td>\n",
       "      <td>70</td>\n",
       "      <td>C4289970</td>\n",
       "      <td>[T116, T121, T129]</td>\n",
       "      <td>Anti-PD1 Monoclonal Antibody</td>\n",
       "      <td>[ngram, sapbert]</td>\n",
       "      <td>0.066620</td>\n",
       "    </tr>\n",
       "    <tr>\n",
       "      <th>4</th>\n",
       "      <td>07_malignes-melanom_0207_9</td>\n",
       "      <td>Myokarditiden</td>\n",
       "      <td>Diagnosis_or_Pathology</td>\n",
       "      <td>84</td>\n",
       "      <td>97</td>\n",
       "      <td>C0027059</td>\n",
       "      <td>[T047]</td>\n",
       "      <td>Myokarditis</td>\n",
       "      <td>[ngram, sapbert]</td>\n",
       "      <td>0.097542</td>\n",
       "    </tr>\n",
       "    <tr>\n",
       "      <th>5</th>\n",
       "      <td>07_malignes-melanom_0207_9</td>\n",
       "      <td>Perikarditiden</td>\n",
       "      <td>Diagnosis_or_Pathology</td>\n",
       "      <td>99</td>\n",
       "      <td>113</td>\n",
       "      <td>C0031046</td>\n",
       "      <td>[T047]</td>\n",
       "      <td>Perikarditis</td>\n",
       "      <td>[ngram, sapbert]</td>\n",
       "      <td>0.130398</td>\n",
       "    </tr>\n",
       "    <tr>\n",
       "      <th>6</th>\n",
       "      <td>07_malignes-melanom_0207_9</td>\n",
       "      <td>Perikardtamponade</td>\n",
       "      <td>Diagnosis_or_Pathology</td>\n",
       "      <td>115</td>\n",
       "      <td>132</td>\n",
       "      <td>C0007177</td>\n",
       "      <td>[T047]</td>\n",
       "      <td>Herztamponade</td>\n",
       "      <td>[ngram, sapbert]</td>\n",
       "      <td>0.160963</td>\n",
       "    </tr>\n",
       "    <tr>\n",
       "      <th>7</th>\n",
       "      <td>07_malignes-melanom_0207_9</td>\n",
       "      <td>Kardiomyopathie</td>\n",
       "      <td>Diagnosis_or_Pathology</td>\n",
       "      <td>134</td>\n",
       "      <td>149</td>\n",
       "      <td>C0878544</td>\n",
       "      <td>[T047]</td>\n",
       "      <td>Myokardkrankheiten</td>\n",
       "      <td>[ngram, sapbert]</td>\n",
       "      <td>0.144874</td>\n",
       "    </tr>\n",
       "    <tr>\n",
       "      <th>8</th>\n",
       "      <td>07_malignes-melanom_0207_9</td>\n",
       "      <td>Herzversagen</td>\n",
       "      <td>Diagnosis_or_Pathology</td>\n",
       "      <td>151</td>\n",
       "      <td>163</td>\n",
       "      <td>C0018801</td>\n",
       "      <td>[T047]</td>\n",
       "      <td>Herzinsuffizienz</td>\n",
       "      <td>[ngram, sapbert]</td>\n",
       "      <td>0.130615</td>\n",
       "    </tr>\n",
       "    <tr>\n",
       "      <th>9</th>\n",
       "      <td>07_malignes-melanom_0207_9</td>\n",
       "      <td>Reizleitungsstörungen</td>\n",
       "      <td>Diagnosis_or_Pathology</td>\n",
       "      <td>165</td>\n",
       "      <td>186</td>\n",
       "      <td>C0264886</td>\n",
       "      <td>[T047]</td>\n",
       "      <td>Kardiale Erregungsleitungssystem-Erkrankung</td>\n",
       "      <td>[ngram, sapbert]</td>\n",
       "      <td>0.132998</td>\n",
       "    </tr>\n",
       "    <tr>\n",
       "      <th>10</th>\n",
       "      <td>07_malignes-melanom_0207_9</td>\n",
       "      <td>Myokardinfarkt</td>\n",
       "      <td>Diagnosis_or_Pathology</td>\n",
       "      <td>188</td>\n",
       "      <td>202</td>\n",
       "      <td>C0027051</td>\n",
       "      <td>[T047]</td>\n",
       "      <td>Myokardinfarkt</td>\n",
       "      <td>[ngram, sapbert]</td>\n",
       "      <td>0.132754</td>\n",
       "    </tr>\n",
       "    <tr>\n",
       "      <th>11</th>\n",
       "      <td>07_malignes-melanom_0207_9</td>\n",
       "      <td>kardiale Ischämie</td>\n",
       "      <td>Diagnosis_or_Pathology</td>\n",
       "      <td>208</td>\n",
       "      <td>225</td>\n",
       "      <td>C0151744</td>\n",
       "      <td>[T047]</td>\n",
       "      <td>Myokardischämie</td>\n",
       "      <td>[ngram, sapbert]</td>\n",
       "      <td>0.147217</td>\n",
       "    </tr>\n",
       "    <tr>\n",
       "      <th>12</th>\n",
       "      <td>07_malignes-melanom_0207_9</td>\n",
       "      <td>Myokardfibrose</td>\n",
       "      <td>Diagnosis_or_Pathology</td>\n",
       "      <td>230</td>\n",
       "      <td>244</td>\n",
       "      <td>C0151654</td>\n",
       "      <td>[T046]</td>\n",
       "      <td>Myokardfibrose</td>\n",
       "      <td>[ngram, sapbert]</td>\n",
       "      <td>0.149962</td>\n",
       "    </tr>\n",
       "  </tbody>\n",
       "</table>\n",
       "</div>"
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       "                      document  \\\n",
       "0   07_malignes-melanom_0207_9   \n",
       "1   07_malignes-melanom_0207_9   \n",
       "2   07_malignes-melanom_0207_9   \n",
       "3   07_malignes-melanom_0207_9   \n",
       "4   07_malignes-melanom_0207_9   \n",
       "5   07_malignes-melanom_0207_9   \n",
       "6   07_malignes-melanom_0207_9   \n",
       "7   07_malignes-melanom_0207_9   \n",
       "8   07_malignes-melanom_0207_9   \n",
       "9   07_malignes-melanom_0207_9   \n",
       "10  07_malignes-melanom_0207_9   \n",
       "11  07_malignes-melanom_0207_9   \n",
       "12  07_malignes-melanom_0207_9   \n",
       "\n",
       "                                                 text                    type  \\\n",
       "0   Immuntherapien mit anti-CTLA4 Antikörper und a...             Therapeutic   \n",
       "1                               anti-CTLA4 Antikörper           Clinical_Drug   \n",
       "2       anti-CTLA4 Antikörper und anti-PD1 Antikörper           Clinical_Drug   \n",
       "3                                 anti-PD1 Antikörper           Clinical_Drug   \n",
       "4                                       Myokarditiden  Diagnosis_or_Pathology   \n",
       "5                                      Perikarditiden  Diagnosis_or_Pathology   \n",
       "6                                   Perikardtamponade  Diagnosis_or_Pathology   \n",
       "7                                     Kardiomyopathie  Diagnosis_or_Pathology   \n",
       "8                                        Herzversagen  Diagnosis_or_Pathology   \n",
       "9                               Reizleitungsstörungen  Diagnosis_or_Pathology   \n",
       "10                                     Myokardinfarkt  Diagnosis_or_Pathology   \n",
       "11                                  kardiale Ischämie  Diagnosis_or_Pathology   \n",
       "12                                     Myokardfibrose  Diagnosis_or_Pathology   \n",
       "\n",
       "    start  end       cui                tuis  \\\n",
       "0       6   70  C1367202  [T116, T121, T129]   \n",
       "1      25   46  C4289973              [T116]   \n",
       "2      25   70  C4289973              [T116]   \n",
       "3      51   70  C4289970  [T116, T121, T129]   \n",
       "4      84   97  C0027059              [T047]   \n",
       "5      99  113  C0031046              [T047]   \n",
       "6     115  132  C0007177              [T047]   \n",
       "7     134  149  C0878544              [T047]   \n",
       "8     151  163  C0018801              [T047]   \n",
       "9     165  186  C0264886              [T047]   \n",
       "10    188  202  C0027051              [T047]   \n",
       "11    208  225  C0151744              [T047]   \n",
       "12    230  244  C0151654              [T046]   \n",
       "\n",
       "                                      canonical            linker  confidence  \n",
       "0                                    Ipilimumab         [sapbert]    0.063651  \n",
       "1               Anti-CTLA-4 Monoclonal Antibody  [ngram, sapbert]    0.069302  \n",
       "2               Anti-CTLA-4 Monoclonal Antibody  [ngram, sapbert]    0.066033  \n",
       "3                  Anti-PD1 Monoclonal Antibody  [ngram, sapbert]    0.066620  \n",
       "4                                   Myokarditis  [ngram, sapbert]    0.097542  \n",
       "5                                  Perikarditis  [ngram, sapbert]    0.130398  \n",
       "6                                 Herztamponade  [ngram, sapbert]    0.160963  \n",
       "7                            Myokardkrankheiten  [ngram, sapbert]    0.144874  \n",
       "8                              Herzinsuffizienz  [ngram, sapbert]    0.130615  \n",
       "9   Kardiale Erregungsleitungssystem-Erkrankung  [ngram, sapbert]    0.132998  \n",
       "10                               Myokardinfarkt  [ngram, sapbert]    0.132754  \n",
       "11                              Myokardischämie  [ngram, sapbert]    0.147217  \n",
       "12                               Myokardfibrose  [ngram, sapbert]    0.149962  "
      ]
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     "text": [
      "Difference 15\n"
     ]
    },
    {
     "data": {
      "text/markdown": [
       "Bei Patienten unter BRAF/MEK-Inhibitortherapie müssen die Elektrolyte und das EKG vor und zunächst alle 4 Wochen nach Einleitung der Therapie bzw. nach Dosisänderungen untersucht werden."
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      "text/markdown": [
       "Bei Patienten unter BRAF-Inhibitortherapie/MEK-Inhibitortherapie müssen die Elektrolyte und das EKG vor und zunächst alle 4 Wochen nach Einleitung der Therapie bzw. nach Dosisänderungen untersucht werden."
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      "text/html": [
       "<html><body><div>Bei Patienten unter BRAF<span style=\"background-color: lightgreen;\">-Inhibitortherapie</span>/MEK-Inhibitortherapie müssen die Elektrolyte und das EKG vor und zunächst alle 4 Wochen nach Einleitung der Therapie bzw. nach Dosisänderungen untersucht werden.</div></body></html>"
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       "      <td>07_malignes-melanom_0207_14</td>\n",
       "      <td>BRAF</td>\n",
       "      <td>Therapeutic</td>\n",
       "      <td>20</td>\n",
       "      <td>24</td>\n",
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       "      <td>[ngram, sapbert]</td>\n",
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       "      <th>3</th>\n",
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       "      <td>Elektrolyte</td>\n",
       "      <td>Nutrient_or_Body_Substance</td>\n",
       "      <td>58</td>\n",
       "      <td>69</td>\n",
       "      <td>C0013832</td>\n",
       "      <td>[T121, T197]</td>\n",
       "      <td>Elektrolyte</td>\n",
       "      <td>[ngram, sapbert]</td>\n",
       "      <td>0.069613</td>\n",
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       "      <th>4</th>\n",
       "      <td>07_malignes-melanom_0207_14</td>\n",
       "      <td>EKG</td>\n",
       "      <td>Diagnostic</td>\n",
       "      <td>78</td>\n",
       "      <td>81</td>\n",
       "      <td>C0013798</td>\n",
       "      <td>[T060]</td>\n",
       "      <td>Elektrokardiogramm</td>\n",
       "      <td>[ngram, sapbert]</td>\n",
       "      <td>0.088079</td>\n",
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       "    <tr>\n",
       "      <th>5</th>\n",
       "      <td>07_malignes-melanom_0207_14</td>\n",
       "      <td>Einleitung der Therapie</td>\n",
       "      <td>Therapeutic</td>\n",
       "      <td>118</td>\n",
       "      <td>141</td>\n",
       "      <td>C4288398</td>\n",
       "      <td>[T061]</td>\n",
       "      <td>Pharmacotherapy Initiation</td>\n",
       "      <td>[sapbert]</td>\n",
       "      <td>0.066210</td>\n",
       "    </tr>\n",
       "    <tr>\n",
       "      <th>6</th>\n",
       "      <td>07_malignes-melanom_0207_14</td>\n",
       "      <td>Dosisänderungen</td>\n",
       "      <td>Therapeutic</td>\n",
       "      <td>152</td>\n",
       "      <td>167</td>\n",
       "      <td>C1827449</td>\n",
       "      <td>[T061]</td>\n",
       "      <td>Drug Tapering</td>\n",
       "      <td>[ngram, sapbert]</td>\n",
       "      <td>0.068877</td>\n",
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       "                      document                        text  \\\n",
       "0  07_malignes-melanom_0207_14                        BRAF   \n",
       "1  07_malignes-melanom_0207_14  BRAF/MEK-Inhibitortherapie   \n",
       "2  07_malignes-melanom_0207_14       MEK-Inhibitortherapie   \n",
       "3  07_malignes-melanom_0207_14                 Elektrolyte   \n",
       "4  07_malignes-melanom_0207_14                         EKG   \n",
       "5  07_malignes-melanom_0207_14     Einleitung der Therapie   \n",
       "6  07_malignes-melanom_0207_14             Dosisänderungen   \n",
       "\n",
       "                         type  start  end       cui          tuis  \\\n",
       "0                 Therapeutic     20   24  C1259929  [T116, T123]   \n",
       "1                 Therapeutic     20   46  C4521853        [T080]   \n",
       "2                 Therapeutic     25   46  C2347168        [T121]   \n",
       "3  Nutrient_or_Body_Substance     58   69  C0013832  [T121, T197]   \n",
       "4                  Diagnostic     78   81  C0013798        [T060]   \n",
       "5                 Therapeutic    118  141  C4288398        [T061]   \n",
       "6                 Therapeutic    152  167  C1827449        [T061]   \n",
       "\n",
       "                    canonical            linker  confidence  \n",
       "0        94 kDa B-raf Protein  [ngram, sapbert]    0.079368  \n",
       "1             B-Raf inhibitor  [ngram, sapbert]    0.064098  \n",
       "2             MAPKK Inhibitor  [ngram, sapbert]    0.064760  \n",
       "3                 Elektrolyte  [ngram, sapbert]    0.069613  \n",
       "4          Elektrokardiogramm  [ngram, sapbert]    0.088079  \n",
       "5  Pharmacotherapy Initiation         [sapbert]    0.066210  \n",
       "6               Drug Tapering  [ngram, sapbert]    0.068877  "
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       "      <td>20</td>\n",
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       "      <td>[ngram, sapbert]</td>\n",
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       "      <td>C0013832</td>\n",
       "      <td>[T121, T197]</td>\n",
       "      <td>Elektrolyte</td>\n",
       "      <td>[ngram, sapbert]</td>\n",
       "      <td>0.071724</td>\n",
       "    </tr>\n",
       "    <tr>\n",
       "      <th>3</th>\n",
       "      <td>07_malignes-melanom_0207_14</td>\n",
       "      <td>EKG</td>\n",
       "      <td>Diagnostic</td>\n",
       "      <td>96</td>\n",
       "      <td>99</td>\n",
       "      <td>C0013798</td>\n",
       "      <td>[T060]</td>\n",
       "      <td>Elektrokardiogramm</td>\n",
       "      <td>[ngram, sapbert]</td>\n",
       "      <td>0.088586</td>\n",
       "    </tr>\n",
       "    <tr>\n",
       "      <th>4</th>\n",
       "      <td>07_malignes-melanom_0207_14</td>\n",
       "      <td>Einleitung der Therapie</td>\n",
       "      <td>Therapeutic</td>\n",
       "      <td>136</td>\n",
       "      <td>159</td>\n",
       "      <td>C4288398</td>\n",
       "      <td>[T061]</td>\n",
       "      <td>Pharmacotherapy Initiation</td>\n",
       "      <td>[sapbert]</td>\n",
       "      <td>0.065879</td>\n",
       "    </tr>\n",
       "    <tr>\n",
       "      <th>5</th>\n",
       "      <td>07_malignes-melanom_0207_14</td>\n",
       "      <td>Dosisänderungen</td>\n",
       "      <td>Therapeutic</td>\n",
       "      <td>170</td>\n",
       "      <td>185</td>\n",
       "      <td>C1827449</td>\n",
       "      <td>[T061]</td>\n",
       "      <td>Drug Tapering</td>\n",
       "      <td>[ngram, sapbert]</td>\n",
       "      <td>0.068877</td>\n",
       "    </tr>\n",
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       "                      document                     text  \\\n",
       "0  07_malignes-melanom_0207_14   BRAF-Inhibitortherapie   \n",
       "1  07_malignes-melanom_0207_14    MEK-Inhibitortherapie   \n",
       "2  07_malignes-melanom_0207_14              Elektrolyte   \n",
       "3  07_malignes-melanom_0207_14                      EKG   \n",
       "4  07_malignes-melanom_0207_14  Einleitung der Therapie   \n",
       "5  07_malignes-melanom_0207_14          Dosisänderungen   \n",
       "\n",
       "                         type  start  end       cui          tuis  \\\n",
       "0                 Therapeutic     20   42  C4521853        [T080]   \n",
       "1                 Therapeutic     43   64  C2347168        [T121]   \n",
       "2  Nutrient_or_Body_Substance     76   87  C0013832  [T121, T197]   \n",
       "3                  Diagnostic     96   99  C0013798        [T060]   \n",
       "4                 Therapeutic    136  159  C4288398        [T061]   \n",
       "5                 Therapeutic    170  185  C1827449        [T061]   \n",
       "\n",
       "                    canonical            linker  confidence  \n",
       "0             B-Raf inhibitor  [ngram, sapbert]    0.069536  \n",
       "1             MAPKK Inhibitor  [ngram, sapbert]    0.065105  \n",
       "2                 Elektrolyte  [ngram, sapbert]    0.071724  \n",
       "3          Elektrokardiogramm  [ngram, sapbert]    0.088586  \n",
       "4  Pharmacotherapy Initiation         [sapbert]    0.065879  \n",
       "5               Drug Tapering  [ngram, sapbert]    0.068877  "
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     "text": [
      "Difference 16\n"
     ]
    },
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     "data": {
      "text/markdown": [
       "Vor und unter Immuntherapien mit anti-CTLA4 und anti-PD1 Antikörper sollte die CK regelmässig bestimmt werden, sowie immer bei Auftreten kardialer Symptome."
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       "Vor und unter Immuntherapien mit anti-CTLA4 Antikörper und anti-PD1 Antikörper sollte die CK regelmässig bestimmt werden, sowie immer bei Auftreten kardialer Symptome."
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       "<html><body><div>Vor und unter Immuntherapien mit anti-CTLA4<span style=\"background-color: lightgreen;\"> Antikörper</span> und anti-PD1 Antikörper sollte die CK regelmässig bestimmt werden, sowie immer bei Auftreten kardialer Symptome.</div></body></html>"
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       "      <td>[ngram, sapbert]</td>\n",
       "      <td>0.065451</td>\n",
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       "    <tr>\n",
       "      <th>3</th>\n",
       "      <td>07_malignes-melanom_0207_20</td>\n",
       "      <td>anti-PD1 Antikörper</td>\n",
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       "      <td>48</td>\n",
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       "      <td>C4289970</td>\n",
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       "      <td>Anti-PD1 Monoclonal Antibody</td>\n",
       "      <td>[ngram, sapbert]</td>\n",
       "      <td>0.069309</td>\n",
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       "    <tr>\n",
       "      <th>4</th>\n",
       "      <td>07_malignes-melanom_0207_20</td>\n",
       "      <td>CK</td>\n",
       "      <td>Nutrient_or_Body_Substance</td>\n",
       "      <td>79</td>\n",
       "      <td>81</td>\n",
       "      <td>C0010287</td>\n",
       "      <td>[T116, T126]</td>\n",
       "      <td>Creatinkinase</td>\n",
       "      <td>[ngram, sapbert]</td>\n",
       "      <td>0.082112</td>\n",
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       "      <th>5</th>\n",
       "      <td>07_malignes-melanom_0207_20</td>\n",
       "      <td>Auftreten kardialer Symptome</td>\n",
       "      <td>Diagnosis_or_Pathology</td>\n",
       "      <td>127</td>\n",
       "      <td>155</td>\n",
       "      <td>C0476270</td>\n",
       "      <td>[T184]</td>\n",
       "      <td>Cardiovascular symptoms</td>\n",
       "      <td>[ngram, sapbert]</td>\n",
       "      <td>0.068689</td>\n",
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       "                      document  \\\n",
       "0  07_malignes-melanom_0207_20   \n",
       "1  07_malignes-melanom_0207_20   \n",
       "2  07_malignes-melanom_0207_20   \n",
       "3  07_malignes-melanom_0207_20   \n",
       "4  07_malignes-melanom_0207_20   \n",
       "5  07_malignes-melanom_0207_20   \n",
       "\n",
       "                                                text  \\\n",
       "0  Immuntherapien mit anti-CTLA4 und anti-PD1 Ant...   \n",
       "1                                         anti-CTLA4   \n",
       "2                 anti-CTLA4 und anti-PD1 Antikörper   \n",
       "3                                anti-PD1 Antikörper   \n",
       "4                                                 CK   \n",
       "5                       Auftreten kardialer Symptome   \n",
       "\n",
       "                         type  start  end       cui                tuis  \\\n",
       "0                 Therapeutic     14   67  C1367202  [T116, T121, T129]   \n",
       "1               Clinical_Drug     33   43  C4289973              [T116]   \n",
       "2               Clinical_Drug     33   67  C4289973              [T116]   \n",
       "3               Clinical_Drug     48   67  C4289970  [T116, T121, T129]   \n",
       "4  Nutrient_or_Body_Substance     79   81  C0010287        [T116, T126]   \n",
       "5      Diagnosis_or_Pathology    127  155  C0476270              [T184]   \n",
       "\n",
       "                         canonical            linker  confidence  \n",
       "0                       Ipilimumab         [sapbert]    0.064058  \n",
       "1  Anti-CTLA-4 Monoclonal Antibody  [ngram, sapbert]    0.068610  \n",
       "2  Anti-CTLA-4 Monoclonal Antibody  [ngram, sapbert]    0.065451  \n",
       "3     Anti-PD1 Monoclonal Antibody  [ngram, sapbert]    0.069309  \n",
       "4                    Creatinkinase  [ngram, sapbert]    0.082112  \n",
       "5          Cardiovascular symptoms  [ngram, sapbert]    0.068689  "
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       "      <td>[T116, T121, T129]</td>\n",
       "      <td>Ipilimumab</td>\n",
       "      <td>[sapbert]</td>\n",
       "      <td>0.063941</td>\n",
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       "      <td>[ngram, sapbert]</td>\n",
       "      <td>0.069343</td>\n",
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       "      <td>anti-CTLA4 Antikörper und anti-PD1 Antikörper</td>\n",
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       "      <td>33</td>\n",
       "      <td>78</td>\n",
       "      <td>C4289973</td>\n",
       "      <td>[T116]</td>\n",
       "      <td>Anti-CTLA-4 Monoclonal Antibody</td>\n",
       "      <td>[ngram, sapbert]</td>\n",
       "      <td>0.065643</td>\n",
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       "      <td>59</td>\n",
       "      <td>78</td>\n",
       "      <td>C4289970</td>\n",
       "      <td>[T116, T121, T129]</td>\n",
       "      <td>Anti-PD1 Monoclonal Antibody</td>\n",
       "      <td>[ngram, sapbert]</td>\n",
       "      <td>0.068731</td>\n",
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       "      <th>5</th>\n",
       "      <td>07_malignes-melanom_0207_20</td>\n",
       "      <td>CK</td>\n",
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       "      <td>90</td>\n",
       "      <td>92</td>\n",
       "      <td>C0010287</td>\n",
       "      <td>[T116, T126]</td>\n",
       "      <td>Creatinkinase</td>\n",
       "      <td>[ngram, sapbert]</td>\n",
       "      <td>0.083508</td>\n",
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       "      <th>6</th>\n",
       "      <td>07_malignes-melanom_0207_20</td>\n",
       "      <td>Auftreten kardialer Symptome</td>\n",
       "      <td>Diagnosis_or_Pathology</td>\n",
       "      <td>138</td>\n",
       "      <td>166</td>\n",
       "      <td>C0476270</td>\n",
       "      <td>[T184]</td>\n",
       "      <td>Cardiovascular symptoms</td>\n",
       "      <td>[ngram, sapbert]</td>\n",
       "      <td>0.069976</td>\n",
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       "                      document  \\\n",
       "0  07_malignes-melanom_0207_20   \n",
       "1  07_malignes-melanom_0207_20   \n",
       "2  07_malignes-melanom_0207_20   \n",
       "3  07_malignes-melanom_0207_20   \n",
       "4  07_malignes-melanom_0207_20   \n",
       "5  07_malignes-melanom_0207_20   \n",
       "6  07_malignes-melanom_0207_20   \n",
       "\n",
       "                                                text  \\\n",
       "0           Immuntherapien mit anti-CTLA4 Antikörper   \n",
       "1  Immuntherapien mit anti-CTLA4 Antikörper und a...   \n",
       "2                              anti-CTLA4 Antikörper   \n",
       "3      anti-CTLA4 Antikörper und anti-PD1 Antikörper   \n",
       "4                                anti-PD1 Antikörper   \n",
       "5                                                 CK   \n",
       "6                       Auftreten kardialer Symptome   \n",
       "\n",
       "                         type  start  end       cui                tuis  \\\n",
       "0                 Therapeutic     14   54  C1367202  [T116, T121, T129]   \n",
       "1                 Therapeutic     14   78  C1367202  [T116, T121, T129]   \n",
       "2               Clinical_Drug     33   54  C4289973              [T116]   \n",
       "3               Clinical_Drug     33   78  C4289973              [T116]   \n",
       "4               Clinical_Drug     59   78  C4289970  [T116, T121, T129]   \n",
       "5  Nutrient_or_Body_Substance     90   92  C0010287        [T116, T126]   \n",
       "6      Diagnosis_or_Pathology    138  166  C0476270              [T184]   \n",
       "\n",
       "                         canonical            linker  confidence  \n",
       "0                       Ipilimumab         [sapbert]    0.065093  \n",
       "1                       Ipilimumab         [sapbert]    0.063941  \n",
       "2  Anti-CTLA-4 Monoclonal Antibody  [ngram, sapbert]    0.069343  \n",
       "3  Anti-CTLA-4 Monoclonal Antibody  [ngram, sapbert]    0.065643  \n",
       "4     Anti-PD1 Monoclonal Antibody  [ngram, sapbert]    0.068731  \n",
       "5                    Creatinkinase  [ngram, sapbert]    0.083508  \n",
       "6          Cardiovascular symptoms  [ngram, sapbert]    0.069976  "
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     "text": [
      "Difference 17\n"
     ]
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     "data": {
      "text/markdown": [
       "Kommt es unter der BRAF/MEK-Inhibitortherapie zu einer QTc-Verlängerung im EKG, muss die Dosis reduziert, die Medikamentengabe ausgesetzt oder ganz abgebrochen werden."
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       "Kommt es unter der BRAF-Inhibitortherapie/MEK-Inhibitortherapie zu einer QTc-Verlängerung im EKG, muss die Dosis reduziert, die Medikamentengabe ausgesetzt oder ganz abgebrochen werden."
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       "<html><body><div>Kommt es unter der BRAF<span style=\"background-color: lightgreen;\">-Inhibitortherapie</span>/MEK-Inhibitortherapie zu einer QTc-Verlängerung im EKG, muss die Dosis reduziert, die Medikamentengabe ausgesetzt oder ganz abgebrochen werden.</div></body></html>"
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       "                      document                        text  \\\n",
       "0  07_malignes-melanom_0207_26                        BRAF   \n",
       "1  07_malignes-melanom_0207_26  BRAF/MEK-Inhibitortherapie   \n",
       "2  07_malignes-melanom_0207_26       MEK-Inhibitortherapie   \n",
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       "4  07_malignes-melanom_0207_26            Medikamentengabe   \n",
       "\n",
       "                     type  start  end       cui          tuis  \\\n",
       "0             Therapeutic     19   23  C1259929  [T116, T123]   \n",
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       "2             Therapeutic     24   45  C2347168        [T121]   \n",
       "3  Diagnosis_or_Pathology     55   78  C0855333        [T033]   \n",
       "4             Therapeutic    110  126  C0001563        [T061]   \n",
       "\n",
       "                                           canonical            linker  \\\n",
       "0                               94 kDa B-raf Protein  [ngram, sapbert]   \n",
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       "4                               Administration, Oral         [sapbert]   \n",
       "\n",
       "   confidence  \n",
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       "0  07_malignes-melanom_0207_26   BRAF-Inhibitortherapie   \n",
       "1  07_malignes-melanom_0207_26    MEK-Inhibitortherapie   \n",
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       "\n",
       "                     type  start  end       cui          tuis  \\\n",
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       "1             Therapeutic     42   63  C2347168        [T121]   \n",
       "2  Diagnosis_or_Pathology     73   96  C0855333        [T033]   \n",
       "3             Therapeutic    128  144  C0001563        [T061]   \n",
       "\n",
       "                                           canonical            linker  \\\n",
       "0                                    B-Raf inhibitor  [ngram, sapbert]   \n",
       "1                                    MAPKK Inhibitor  [ngram, sapbert]   \n",
       "2  Elektrokardiogramm QT-korrigiertes Intervall v...  [ngram, sapbert]   \n",
       "3                               Administration, Oral         [sapbert]   \n",
       "\n",
       "   confidence  \n",
       "0    0.069738  \n",
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      "Difference 18\n"
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      "text/markdown": [
       "In die „RAPID“-Studie des britischen „National Cancer Research Institute“(NCRI) wurden Patienten im Stadium IA/IIA eines klassischen Hodgkin Lymphoms (bei Diagnosestellung lag bei ca. 70% der Patienten nach der GHSG-Risikostratifizierung ein frühes Stadium vor) bei Vorliegen eines negativen PET/CTs nach drei Zyklen ABVD entweder in einen Nachbeobachtungsarm oder in einen Therapiearm mit konsolidierender Strahlentherapie mit 30 Gy IF-RT randomisiert."
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       "In die „RAPID“-Studie des britischen „National Cancer Research Institute“(NCRI) wurden Patienten im Stadium IA/Stadium IIA eines klassischen Hodgkin Lymphoms (bei Diagnosestellung lag bei ca. 70% der Patienten nach der GHSG-Risikostratifizierung ein frühes Stadium vor) bei Vorliegen eines negativen PET/CTs nach drei Zyklen ABVD entweder in einen Nachbeobachtungsarm oder in einen Therapiearm mit konsolidierender Strahlentherapie mit 30 Gy IF-RT randomisiert."
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       "<html><body><div>In die „RAPID“-Studie des britischen „National Cancer Research Institute“(NCRI) wurden Patienten im Stadium IA/<span style=\"background-color: lightgreen;\">Stadium </span>IIA eines klassischen Hodgkin Lymphoms (bei Diagnosestellung lag bei ca. 70% der Patienten nach der GHSG-Risikostratifizierung ein frühes Stadium vor) bei Vorliegen eines negativen PET/CTs nach drei Zyklen ABVD entweder in einen Nachbeobachtungsarm oder in einen Therapiearm mit konsolidierender Strahlentherapie mit 30 Gy IF-RT randomisiert.</div></body></html>"
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       "      <td>211</td>\n",
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       "      <td>frühes Stadium</td>\n",
       "      <td>Diagnosis_or_Pathology</td>\n",
       "      <td>242</td>\n",
       "      <td>256</td>\n",
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       "      <td>305</td>\n",
       "      <td>321</td>\n",
       "      <td>C0050380</td>\n",
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       "      <td>340</td>\n",
       "      <td>359</td>\n",
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       "      <td>[T058]</td>\n",
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       "      <td>374</td>\n",
       "      <td>439</td>\n",
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       "                    document  \\\n",
       "0  18_hodgkin-lymphom_0051_5   \n",
       "1  18_hodgkin-lymphom_0051_5   \n",
       "2  18_hodgkin-lymphom_0051_5   \n",
       "3  18_hodgkin-lymphom_0051_5   \n",
       "4  18_hodgkin-lymphom_0051_5   \n",
       "5  18_hodgkin-lymphom_0051_5   \n",
       "6  18_hodgkin-lymphom_0051_5   \n",
       "7  18_hodgkin-lymphom_0051_5   \n",
       "\n",
       "                                                text                    type  \\\n",
       "0                                             Cancer  Diagnosis_or_Pathology   \n",
       "1  Stadium IA/IIA eines klassischen Hodgkin Lymphoms  Diagnosis_or_Pathology   \n",
       "2                                   Diagnosestellung              Diagnostic   \n",
       "3                         GHSG-Risikostratifizierung              Diagnostic   \n",
       "4                                     frühes Stadium  Diagnosis_or_Pathology   \n",
       "5                                   drei Zyklen ABVD             Therapeutic   \n",
       "6                                Nachbeobachtungsarm              Diagnostic   \n",
       "7  Therapiearm mit konsolidierender Strahlenthera...             Therapeutic   \n",
       "\n",
       "   start  end       cui          tuis                             canonical  \\\n",
       "0     47   53  C0006826        [T191]                       Krebserkrankung   \n",
       "1    100  149  C0262516        [T191]  Ann Arbor Stage IIA Hodgkin Lymphoma   \n",
       "2    155  171  C0011900        [T060]                            Diagnostik   \n",
       "3    211  237  C0391690  [T116, T192]                  Rezeptoren, Ghrelin-   \n",
       "4    242  256  C2363430        [T079]                           Early stage   \n",
       "5    305  321  C0050380        [T061]                     BLEO/DOX/DTIC/VBL   \n",
       "6    340  359  C4684721        [T058]                   Observer Assessment   \n",
       "7    374  439  C1522449        [T061]                      Strahlentherapie   \n",
       "\n",
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       "0  [ngram, sapbert]    0.118521  \n",
       "1  [ngram, sapbert]    0.068773  \n",
       "2  [ngram, sapbert]    0.079946  \n",
       "3         [sapbert]    0.063205  \n",
       "4         [sapbert]    0.141263  \n",
       "5         [sapbert]    0.067385  \n",
       "6         [sapbert]    0.082006  \n",
       "7           [ngram]    0.067481  "
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       "\n",
       "                                                text                    type  \\\n",
       "0                                             Cancer  Diagnosis_or_Pathology   \n",
       "1                                   Diagnosestellung              Diagnostic   \n",
       "2                         GHSG-Risikostratifizierung              Diagnostic   \n",
       "3                                     frühes Stadium  Diagnosis_or_Pathology   \n",
       "4                                   drei Zyklen ABVD             Therapeutic   \n",
       "5                                Nachbeobachtungsarm              Diagnostic   \n",
       "6  Therapiearm mit konsolidierender Strahlenthera...             Therapeutic   \n",
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      "Difference 19\n"
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      "Difference 20\n"
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       "                  document                                               text  \\\n",
       "0  21_hodentumoren_0260_21  sonographisch- oder CT-gesteuerte Feinnadelbio...   \n",
       "1  21_hodentumoren_0260_21                                      Medianoskopie   \n",
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       "         type  start  end       cui    tuis            canonical  \\\n",
       "0  Diagnostic     16   66  C0085846  [T060]  Biopsie, Feinnadel-   \n",
       "1  Diagnostic     80   93  C0029090  [T060]      Ophthalmoskopie   \n",
       "2  Diagnostic     94  106  C0031150  [T060]         Laparoskopie   \n",
       "\n",
       "             linker  confidence  \n",
       "0  [ngram, sapbert]    0.076167  \n",
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       "0  21_hodentumoren_0260_21  sonographisch-gesteuerte oder CT-gesteuerte Fe...   \n",
       "1  21_hodentumoren_0260_21                                      Medianoskopie   \n",
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       "             linker  confidence  \n",
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      "Difference 21\n"
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       "Dysurie (26 % versus 2 %), Hämaturie (28 % versus 3 %), Drangsymptomatik (11 % versus <1 %), Harnverhaltung (17 % versus <1 %), Inkontinenz (10 % versus 4 %), Harnwegsinfekte (10,7 % versus 4,3 %) erektile Dysfunktion (38 % versus 11 %) sowie Prostata- oder Perinealschmerzen (18 % versus <1 %) [REF]."
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       "Dysurie (26 % versus 2 %), Hämaturie (28 % versus 3 %), Drangsymptomatik (11 % versus <1 %), Harnverhaltung (17 % versus <1 %), Inkontinenz (10 % versus 4 %), Harnwegsinfekte (10,7 % versus 4,3 %) erektile Dysfunktion (38 % versus 11 %) sowie Prostataschmerzen oder Perinealschmerzen (18 % versus <1 %) [REF]."
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       "<html><body><div>Dysurie (26 % versus 2 %), Hämaturie (28 % versus 3 %), Drangsymptomatik (11 % versus <1 %), Harnverhaltung (17 % versus <1 %), Inkontinenz (10 % versus 4 %), Harnwegsinfekte (10,7 % versus 4,3 %) erektile Dysfunktion (38 % versus 11 %) sowie Prostata<span style=\"background-color: red; text-decoration: line-through;\">-</span><span style=\"background-color: lightgreen;\">schmerzen</span> oder Perinealschmerzen (18 % versus <1 %) [REF].</div></body></html>"
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       "      <td>0.094017</td>\n",
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       "      <td>22_prostatakarzinom_0153_14</td>\n",
       "      <td>erektile Dysfunktion</td>\n",
       "      <td>Diagnosis_or_Pathology</td>\n",
       "      <td>197</td>\n",
       "      <td>217</td>\n",
       "      <td>C0242350</td>\n",
       "      <td>[T047]</td>\n",
       "      <td>Erektile Dysfunktion</td>\n",
       "      <td>[ngram, sapbert]</td>\n",
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       "      <th>7</th>\n",
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       "      <td>243</td>\n",
       "      <td>252</td>\n",
       "      <td>C0033572</td>\n",
       "      <td>[T023]</td>\n",
       "      <td>Prostata</td>\n",
       "      <td>[ngram, sapbert]</td>\n",
       "      <td>0.080446</td>\n",
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       "      <th>8</th>\n",
       "      <td>22_prostatakarzinom_0153_14</td>\n",
       "      <td>Perinealschmerzen</td>\n",
       "      <td>Diagnosis_or_Pathology</td>\n",
       "      <td>258</td>\n",
       "      <td>275</td>\n",
       "      <td>C0240717</td>\n",
       "      <td>[T184]</td>\n",
       "      <td>Dammschmerz</td>\n",
       "      <td>[ngram, sapbert]</td>\n",
       "      <td>0.150069</td>\n",
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       "                      document                  text                    type  \\\n",
       "0  22_prostatakarzinom_0153_14               Dysurie  Diagnosis_or_Pathology   \n",
       "1  22_prostatakarzinom_0153_14             Hämaturie  Diagnosis_or_Pathology   \n",
       "2  22_prostatakarzinom_0153_14      Drangsymptomatik  Diagnosis_or_Pathology   \n",
       "3  22_prostatakarzinom_0153_14        Harnverhaltung  Diagnosis_or_Pathology   \n",
       "4  22_prostatakarzinom_0153_14           Inkontinenz  Diagnosis_or_Pathology   \n",
       "5  22_prostatakarzinom_0153_14       Harnwegsinfekte  Diagnosis_or_Pathology   \n",
       "6  22_prostatakarzinom_0153_14  erektile Dysfunktion  Diagnosis_or_Pathology   \n",
       "7  22_prostatakarzinom_0153_14             Prostata-  Diagnosis_or_Pathology   \n",
       "8  22_prostatakarzinom_0153_14     Perinealschmerzen  Diagnosis_or_Pathology   \n",
       "\n",
       "   start  end       cui    tuis             canonical            linker  \\\n",
       "0      0    7  C0013428  [T184]               Dysurie  [ngram, sapbert]   \n",
       "1     27   36  C0018965  [T047]             Hämaturie  [ngram, sapbert]   \n",
       "2     56   72  C0087169  [T184]   Withdrawal Symptoms         [sapbert]   \n",
       "3     93  107  C0080274  [T169]           Harnverhalt  [ngram, sapbert]   \n",
       "4    128  139  C0021167  [T047]           Inkontinenz  [ngram, sapbert]   \n",
       "5    159  174  C0042029  [T047]   Harnwegsinfektionen  [ngram, sapbert]   \n",
       "6    197  217  C0242350  [T047]  Erektile Dysfunktion  [ngram, sapbert]   \n",
       "7    243  252  C0033572  [T023]              Prostata  [ngram, sapbert]   \n",
       "8    258  275  C0240717  [T184]           Dammschmerz  [ngram, sapbert]   \n",
       "\n",
       "   confidence  \n",
       "0    0.153963  \n",
       "1    0.142960  \n",
       "2    0.064590  \n",
       "3    0.143468  \n",
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       "5    0.094017  \n",
       "6    0.195050  \n",
       "7    0.080446  \n",
       "8    0.150069  "
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       "      <th>5</th>\n",
       "      <td>22_prostatakarzinom_0153_14</td>\n",
       "      <td>Harnwegsinfekte</td>\n",
       "      <td>Diagnosis_or_Pathology</td>\n",
       "      <td>159</td>\n",
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       "      <td>0.080301</td>\n",
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       "      <th>6</th>\n",
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       "      <td>217</td>\n",
       "      <td>C0242350</td>\n",
       "      <td>[T047]</td>\n",
       "      <td>Erektile Dysfunktion</td>\n",
       "      <td>[ngram, sapbert]</td>\n",
       "      <td>0.185237</td>\n",
       "    </tr>\n",
       "    <tr>\n",
       "      <th>7</th>\n",
       "      <td>22_prostatakarzinom_0153_14</td>\n",
       "      <td>Prostataschmerzen</td>\n",
       "      <td>Diagnosis_or_Pathology</td>\n",
       "      <td>243</td>\n",
       "      <td>260</td>\n",
       "      <td>C0240812</td>\n",
       "      <td>[T184]</td>\n",
       "      <td>Prostataschmerz</td>\n",
       "      <td>[ngram, sapbert]</td>\n",
       "      <td>0.145128</td>\n",
       "    </tr>\n",
       "    <tr>\n",
       "      <th>8</th>\n",
       "      <td>22_prostatakarzinom_0153_14</td>\n",
       "      <td>Perinealschmerzen</td>\n",
       "      <td>Diagnosis_or_Pathology</td>\n",
       "      <td>266</td>\n",
       "      <td>283</td>\n",
       "      <td>C0240717</td>\n",
       "      <td>[T184]</td>\n",
       "      <td>Dammschmerz</td>\n",
       "      <td>[ngram, sapbert]</td>\n",
       "      <td>0.150170</td>\n",
       "    </tr>\n",
       "  </tbody>\n",
       "</table>\n",
       "</div>"
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       "                      document                  text                    type  \\\n",
       "0  22_prostatakarzinom_0153_14               Dysurie  Diagnosis_or_Pathology   \n",
       "1  22_prostatakarzinom_0153_14             Hämaturie  Diagnosis_or_Pathology   \n",
       "2  22_prostatakarzinom_0153_14      Drangsymptomatik  Diagnosis_or_Pathology   \n",
       "3  22_prostatakarzinom_0153_14        Harnverhaltung  Diagnosis_or_Pathology   \n",
       "4  22_prostatakarzinom_0153_14           Inkontinenz  Diagnosis_or_Pathology   \n",
       "5  22_prostatakarzinom_0153_14       Harnwegsinfekte  Diagnosis_or_Pathology   \n",
       "6  22_prostatakarzinom_0153_14  erektile Dysfunktion  Diagnosis_or_Pathology   \n",
       "7  22_prostatakarzinom_0153_14     Prostataschmerzen  Diagnosis_or_Pathology   \n",
       "8  22_prostatakarzinom_0153_14     Perinealschmerzen  Diagnosis_or_Pathology   \n",
       "\n",
       "   start  end       cui    tuis             canonical            linker  \\\n",
       "0      0    7  C0013428  [T184]               Dysurie  [ngram, sapbert]   \n",
       "1     27   36  C0018965  [T047]             Hämaturie  [ngram, sapbert]   \n",
       "2     56   72  C0087169  [T184]   Withdrawal Symptoms         [sapbert]   \n",
       "3     93  107  C0080274  [T169]           Harnverhalt  [ngram, sapbert]   \n",
       "4    128  139  C0021167  [T047]           Inkontinenz  [ngram, sapbert]   \n",
       "5    159  174  C0042029  [T047]   Harnwegsinfektionen  [ngram, sapbert]   \n",
       "6    197  217  C0242350  [T047]  Erektile Dysfunktion  [ngram, sapbert]   \n",
       "7    243  260  C0240812  [T184]       Prostataschmerz  [ngram, sapbert]   \n",
       "8    266  283  C0240717  [T184]           Dammschmerz  [ngram, sapbert]   \n",
       "\n",
       "   confidence  \n",
       "0    0.153963  \n",
       "1    0.142960  \n",
       "2    0.064590  \n",
       "3    0.143468  \n",
       "4    0.122175  \n",
       "5    0.080301  \n",
       "6    0.185237  \n",
       "7    0.145128  \n",
       "8    0.150170  "
      ]
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     "text": [
      "Difference 22\n"
     ]
    },
    {
     "data": {
      "text/markdown": [
       "Im Sinne eines Recall-Phänomens kann eine Pneumonitis auch lange nach Bestrahlung nach Chemo- oder Immunotherapie z.B. mit Taxanen, Gemcitabin oder Tyrosinkinase- Inhibitoren (Erlotinib, Gefitinib, Sunitinib und Folgesubstanzen) auftreten [REF] [REF] [REF] [REF] [REF] [REF] [REF] [REF] [REF] [REF]."
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       "Im Sinne eines Recall-Phänomens kann eine Pneumonitis auch lange nach Bestrahlung nach Chemotherapie oder Immunotherapie z.B. mit Taxanen, Gemcitabin oder Tyrosinkinase- Inhibitoren (Erlotinib, Gefitinib, Sunitinib und Folgesubstanzen) auftreten [REF] [REF] [REF] [REF] [REF] [REF] [REF] [REF] [REF] [REF]."
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      "text/html": [
       "<html><body><div>Im Sinne eines Recall-Phänomens kann eine Pneumonitis auch lange nach Bestrahlung nach Chemo<span style=\"background-color: red; text-decoration: line-through;\">-</span><span style=\"background-color: lightgreen;\">therapie</span> oder Immunotherapie z.B. mit Taxanen, Gemcitabin oder Tyrosinkinase- Inhibitoren (Erlotinib, Gefitinib, Sunitinib und Folgesubstanzen) auftreten [REF] [REF] [REF] [REF] [REF] [REF] [REF] [REF] [REF] [REF].</div></body></html>"
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       "      <td>C1262013</td>\n",
       "      <td>[T046]</td>\n",
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       "      <td>[ngram, sapbert]</td>\n",
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       "      <td>[ngram, sapbert]</td>\n",
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       "      <td>87</td>\n",
       "      <td>93</td>\n",
       "      <td>C3665472</td>\n",
       "      <td>[T061]</td>\n",
       "      <td>Chemotherapie</td>\n",
       "      <td>[ngram, sapbert]</td>\n",
       "      <td>0.106600</td>\n",
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       "      <td>99</td>\n",
       "      <td>113</td>\n",
       "      <td>C0021083</td>\n",
       "      <td>[T061]</td>\n",
       "      <td>Immuntherapie</td>\n",
       "      <td>[ngram, sapbert]</td>\n",
       "      <td>0.126997</td>\n",
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       "      <th>5</th>\n",
       "      <td>27_supportive-therapie_0765_11</td>\n",
       "      <td>Taxanen</td>\n",
       "      <td>Clinical_Drug</td>\n",
       "      <td>123</td>\n",
       "      <td>130</td>\n",
       "      <td>C0796419</td>\n",
       "      <td>[T109]</td>\n",
       "      <td>Taxane</td>\n",
       "      <td>[ngram, sapbert]</td>\n",
       "      <td>0.079232</td>\n",
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       "    <tr>\n",
       "      <th>6</th>\n",
       "      <td>27_supportive-therapie_0765_11</td>\n",
       "      <td>Gemcitabin</td>\n",
       "      <td>Clinical_Drug</td>\n",
       "      <td>132</td>\n",
       "      <td>142</td>\n",
       "      <td>C0045093</td>\n",
       "      <td>[T114, T121]</td>\n",
       "      <td>2' Deoxy 2' Difluorocytidine</td>\n",
       "      <td>[ngram, sapbert]</td>\n",
       "      <td>0.132524</td>\n",
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       "      <th>7</th>\n",
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       "      <td>Tyrosinkinase-</td>\n",
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       "      <td>148</td>\n",
       "      <td>162</td>\n",
       "      <td>C0033681</td>\n",
       "      <td>[T116, T126]</td>\n",
       "      <td>Protein-Tyrosin-Kinase</td>\n",
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       "      <td>Clinical_Drug</td>\n",
       "      <td>148</td>\n",
       "      <td>174</td>\n",
       "      <td>C4521478</td>\n",
       "      <td>[T080]</td>\n",
       "      <td>Tyrosine Protein Kinase Inhibitors</td>\n",
       "      <td>[ngram, sapbert]</td>\n",
       "      <td>0.139909</td>\n",
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       "      <td>27_supportive-therapie_0765_11</td>\n",
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       "      <td>[T109, T121]</td>\n",
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       "      <td>[T109, T121]</td>\n",
       "      <td>Gefitinib</td>\n",
       "      <td>[ngram, sapbert]</td>\n",
       "      <td>0.148072</td>\n",
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       "      <td>198</td>\n",
       "      <td>207</td>\n",
       "      <td>C1176020</td>\n",
       "      <td>[T109, T121]</td>\n",
       "      <td>Sunitinib</td>\n",
       "      <td>[ngram, sapbert]</td>\n",
       "      <td>0.139536</td>\n",
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       "      <th>12</th>\n",
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       "      <td>Folgesubstanzen</td>\n",
       "      <td>Clinical_Drug</td>\n",
       "      <td>212</td>\n",
       "      <td>227</td>\n",
       "      <td>C1564892</td>\n",
       "      <td>[T116, T121, T129]</td>\n",
       "      <td>Komplement-inaktivierende Substanzen</td>\n",
       "      <td>[ngram, sapbert]</td>\n",
       "      <td>0.068746</td>\n",
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       "                          document                        text  \\\n",
       "0   27_supportive-therapie_0765_11            Recall-Phänomens   \n",
       "1   27_supportive-therapie_0765_11                 Pneumonitis   \n",
       "2   27_supportive-therapie_0765_11                 Bestrahlung   \n",
       "3   27_supportive-therapie_0765_11                      Chemo-   \n",
       "4   27_supportive-therapie_0765_11              Immunotherapie   \n",
       "5   27_supportive-therapie_0765_11                     Taxanen   \n",
       "6   27_supportive-therapie_0765_11                  Gemcitabin   \n",
       "7   27_supportive-therapie_0765_11              Tyrosinkinase-   \n",
       "8   27_supportive-therapie_0765_11  Tyrosinkinase- Inhibitoren   \n",
       "9   27_supportive-therapie_0765_11                   Erlotinib   \n",
       "10  27_supportive-therapie_0765_11                   Gefitinib   \n",
       "11  27_supportive-therapie_0765_11                   Sunitinib   \n",
       "12  27_supportive-therapie_0765_11             Folgesubstanzen   \n",
       "\n",
       "                      type  start  end       cui                tuis  \\\n",
       "0   Diagnosis_or_Pathology     15   31  C1262013              [T046]   \n",
       "1   Diagnosis_or_Pathology     42   53  C3714636              [T047]   \n",
       "2              Therapeutic     70   81  C1522449              [T061]   \n",
       "3              Therapeutic     87   93  C3665472              [T061]   \n",
       "4              Therapeutic     99  113  C0021083              [T061]   \n",
       "5            Clinical_Drug    123  130  C0796419              [T109]   \n",
       "6            Clinical_Drug    132  142  C0045093        [T114, T121]   \n",
       "7            Clinical_Drug    148  162  C0033681        [T116, T126]   \n",
       "8            Clinical_Drug    148  174  C4521478              [T080]   \n",
       "9            Clinical_Drug    176  185  C1135135        [T109, T121]   \n",
       "10           Clinical_Drug    187  196  C1122962        [T109, T121]   \n",
       "11           Clinical_Drug    198  207  C1176020        [T109, T121]   \n",
       "12           Clinical_Drug    212  227  C1564892  [T116, T121, T129]   \n",
       "\n",
       "                               canonical            linker  confidence  \n",
       "0                      Recall phenomenon  [ngram, sapbert]    0.117091  \n",
       "1                            Pneumonitis  [ngram, sapbert]    0.129935  \n",
       "2                       Strahlentherapie         [sapbert]    0.114749  \n",
       "3                          Chemotherapie  [ngram, sapbert]    0.106600  \n",
       "4                          Immuntherapie  [ngram, sapbert]    0.126997  \n",
       "5                                 Taxane  [ngram, sapbert]    0.079232  \n",
       "6           2' Deoxy 2' Difluorocytidine  [ngram, sapbert]    0.132524  \n",
       "7                 Protein-Tyrosin-Kinase  [ngram, sapbert]    0.141131  \n",
       "8     Tyrosine Protein Kinase Inhibitors  [ngram, sapbert]    0.139909  \n",
       "9                              Erlotinib  [ngram, sapbert]    0.139762  \n",
       "10                             Gefitinib  [ngram, sapbert]    0.148072  \n",
       "11                             Sunitinib  [ngram, sapbert]    0.139536  \n",
       "12  Komplement-inaktivierende Substanzen  [ngram, sapbert]    0.068746  "
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       "      <th>4</th>\n",
       "      <td>27_supportive-therapie_0765_11</td>\n",
       "      <td>Immunotherapie</td>\n",
       "      <td>Therapeutic</td>\n",
       "      <td>106</td>\n",
       "      <td>120</td>\n",
       "      <td>C0021083</td>\n",
       "      <td>[T061]</td>\n",
       "      <td>Immuntherapie</td>\n",
       "      <td>[ngram, sapbert]</td>\n",
       "      <td>0.125116</td>\n",
       "    </tr>\n",
       "    <tr>\n",
       "      <th>5</th>\n",
       "      <td>27_supportive-therapie_0765_11</td>\n",
       "      <td>Taxanen</td>\n",
       "      <td>Clinical_Drug</td>\n",
       "      <td>130</td>\n",
       "      <td>137</td>\n",
       "      <td>C0796419</td>\n",
       "      <td>[T109]</td>\n",
       "      <td>Taxane</td>\n",
       "      <td>[ngram, sapbert]</td>\n",
       "      <td>0.077322</td>\n",
       "    </tr>\n",
       "    <tr>\n",
       "      <th>6</th>\n",
       "      <td>27_supportive-therapie_0765_11</td>\n",
       "      <td>Gemcitabin</td>\n",
       "      <td>Clinical_Drug</td>\n",
       "      <td>139</td>\n",
       "      <td>149</td>\n",
       "      <td>C0045093</td>\n",
       "      <td>[T114, T121]</td>\n",
       "      <td>2' Deoxy 2' Difluorocytidine</td>\n",
       "      <td>[ngram, sapbert]</td>\n",
       "      <td>0.135344</td>\n",
       "    </tr>\n",
       "    <tr>\n",
       "      <th>7</th>\n",
       "      <td>27_supportive-therapie_0765_11</td>\n",
       "      <td>Tyrosinkinase-</td>\n",
       "      <td>Clinical_Drug</td>\n",
       "      <td>155</td>\n",
       "      <td>169</td>\n",
       "      <td>C0033681</td>\n",
       "      <td>[T116, T126]</td>\n",
       "      <td>Protein-Tyrosin-Kinase</td>\n",
       "      <td>[ngram, sapbert]</td>\n",
       "      <td>0.134931</td>\n",
       "    </tr>\n",
       "    <tr>\n",
       "      <th>8</th>\n",
       "      <td>27_supportive-therapie_0765_11</td>\n",
       "      <td>Tyrosinkinase- Inhibitoren</td>\n",
       "      <td>Clinical_Drug</td>\n",
       "      <td>155</td>\n",
       "      <td>181</td>\n",
       "      <td>C4521478</td>\n",
       "      <td>[T080]</td>\n",
       "      <td>Tyrosine Protein Kinase Inhibitors</td>\n",
       "      <td>[ngram, sapbert]</td>\n",
       "      <td>0.137750</td>\n",
       "    </tr>\n",
       "    <tr>\n",
       "      <th>9</th>\n",
       "      <td>27_supportive-therapie_0765_11</td>\n",
       "      <td>Erlotinib</td>\n",
       "      <td>Clinical_Drug</td>\n",
       "      <td>183</td>\n",
       "      <td>192</td>\n",
       "      <td>C1135135</td>\n",
       "      <td>[T109, T121]</td>\n",
       "      <td>Erlotinib</td>\n",
       "      <td>[ngram, sapbert]</td>\n",
       "      <td>0.140089</td>\n",
       "    </tr>\n",
       "    <tr>\n",
       "      <th>10</th>\n",
       "      <td>27_supportive-therapie_0765_11</td>\n",
       "      <td>Gefitinib</td>\n",
       "      <td>Clinical_Drug</td>\n",
       "      <td>194</td>\n",
       "      <td>203</td>\n",
       "      <td>C1122962</td>\n",
       "      <td>[T109, T121]</td>\n",
       "      <td>Gefitinib</td>\n",
       "      <td>[ngram, sapbert]</td>\n",
       "      <td>0.149970</td>\n",
       "    </tr>\n",
       "    <tr>\n",
       "      <th>11</th>\n",
       "      <td>27_supportive-therapie_0765_11</td>\n",
       "      <td>Sunitinib</td>\n",
       "      <td>Clinical_Drug</td>\n",
       "      <td>205</td>\n",
       "      <td>214</td>\n",
       "      <td>C1176020</td>\n",
       "      <td>[T109, T121]</td>\n",
       "      <td>Sunitinib</td>\n",
       "      <td>[ngram, sapbert]</td>\n",
       "      <td>0.141609</td>\n",
       "    </tr>\n",
       "    <tr>\n",
       "      <th>12</th>\n",
       "      <td>27_supportive-therapie_0765_11</td>\n",
       "      <td>Folgesubstanzen</td>\n",
       "      <td>Clinical_Drug</td>\n",
       "      <td>219</td>\n",
       "      <td>234</td>\n",
       "      <td>C1564892</td>\n",
       "      <td>[T116, T121, T129]</td>\n",
       "      <td>Komplement-inaktivierende Substanzen</td>\n",
       "      <td>[ngram, sapbert]</td>\n",
       "      <td>0.063600</td>\n",
       "    </tr>\n",
       "  </tbody>\n",
       "</table>\n",
       "</div>"
      ],
      "text/plain": [
       "                          document                        text  \\\n",
       "0   27_supportive-therapie_0765_11            Recall-Phänomens   \n",
       "1   27_supportive-therapie_0765_11                 Pneumonitis   \n",
       "2   27_supportive-therapie_0765_11                 Bestrahlung   \n",
       "3   27_supportive-therapie_0765_11               Chemotherapie   \n",
       "4   27_supportive-therapie_0765_11              Immunotherapie   \n",
       "5   27_supportive-therapie_0765_11                     Taxanen   \n",
       "6   27_supportive-therapie_0765_11                  Gemcitabin   \n",
       "7   27_supportive-therapie_0765_11              Tyrosinkinase-   \n",
       "8   27_supportive-therapie_0765_11  Tyrosinkinase- Inhibitoren   \n",
       "9   27_supportive-therapie_0765_11                   Erlotinib   \n",
       "10  27_supportive-therapie_0765_11                   Gefitinib   \n",
       "11  27_supportive-therapie_0765_11                   Sunitinib   \n",
       "12  27_supportive-therapie_0765_11             Folgesubstanzen   \n",
       "\n",
       "                      type  start  end       cui                tuis  \\\n",
       "0   Diagnosis_or_Pathology     15   31  C1262013              [T046]   \n",
       "1   Diagnosis_or_Pathology     42   53  C3714636              [T047]   \n",
       "2              Therapeutic     70   81  C1522449              [T061]   \n",
       "3              Therapeutic     87  100  C3665472              [T061]   \n",
       "4              Therapeutic    106  120  C0021083              [T061]   \n",
       "5            Clinical_Drug    130  137  C0796419              [T109]   \n",
       "6            Clinical_Drug    139  149  C0045093        [T114, T121]   \n",
       "7            Clinical_Drug    155  169  C0033681        [T116, T126]   \n",
       "8            Clinical_Drug    155  181  C4521478              [T080]   \n",
       "9            Clinical_Drug    183  192  C1135135        [T109, T121]   \n",
       "10           Clinical_Drug    194  203  C1122962        [T109, T121]   \n",
       "11           Clinical_Drug    205  214  C1176020        [T109, T121]   \n",
       "12           Clinical_Drug    219  234  C1564892  [T116, T121, T129]   \n",
       "\n",
       "                               canonical            linker  confidence  \n",
       "0                      Recall phenomenon  [ngram, sapbert]    0.121586  \n",
       "1                            Pneumonitis  [ngram, sapbert]    0.129758  \n",
       "2                       Strahlentherapie         [sapbert]    0.116514  \n",
       "3                          Chemotherapie  [ngram, sapbert]    0.108146  \n",
       "4                          Immuntherapie  [ngram, sapbert]    0.125116  \n",
       "5                                 Taxane  [ngram, sapbert]    0.077322  \n",
       "6           2' Deoxy 2' Difluorocytidine  [ngram, sapbert]    0.135344  \n",
       "7                 Protein-Tyrosin-Kinase  [ngram, sapbert]    0.134931  \n",
       "8     Tyrosine Protein Kinase Inhibitors  [ngram, sapbert]    0.137750  \n",
       "9                              Erlotinib  [ngram, sapbert]    0.140089  \n",
       "10                             Gefitinib  [ngram, sapbert]    0.149970  \n",
       "11                             Sunitinib  [ngram, sapbert]    0.141609  \n",
       "12  Komplement-inaktivierende Substanzen  [ngram, sapbert]    0.063600  "
      ]
     },
     "metadata": {},
     "output_type": "display_data"
    }
   ],
   "source": [
    "res_before = linking_results['before_eccnp']['reranked']\n",
    "res_after = linking_results['after_eccnp']['reranked']\n",
    "\n",
    "assert len(res_sem) == len(res_no_sem)\n",
    "\n",
    "diff_text = 0\n",
    "diff_ents = 0\n",
    "for d_b, d_a in zip(res_before, res_after):\n",
    "    if d_b['passages'] != d_a['passages']: \n",
    "        diff_text += 1\n",
    "        if get_ent_texts(d_b) != get_ent_texts(d_a):\n",
    "            diff_ents += 1\n",
    "            t_a = d_a['passages'][0]['text'][0]\n",
    "            t_b = d_b['passages'][0]['text'][0]\n",
    "            print('Difference', diff_ents)\n",
    "            show_diff_single(t_b, t_a)\n",
    "            display(get_annotation_dataframe([d_b], linker.kb, 1, 0.0))\n",
    "            display(get_annotation_dataframe([d_a], linker.kb, 1, 0.0))"
   ]
  },
  {
   "cell_type": "code",
   "execution_count": null,
   "id": "a131d836-961d-4c5c-8da9-dd34393f095e",
   "metadata": {},
   "outputs": [],
   "source": []
  }
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