demo/knowledge_kernels_process.ipynb

{
 "cells": [
  {
   "cell_type": "code",
   "execution_count": 1,
   "metadata": {},
   "outputs": [
    {
     "name": "stderr",
     "output_type": "stream",
     "text": [
      "Found local copy...\n",
      "Found local copy...\n",
      "These perturbations are not in the GO graph and their perturbation can thus not be predicted\n",
      "['TMA7+ctrl' 'CCDC169+ctrl' 'NEDD8-MDP1+ctrl' 'FAM117A+ctrl'\n",
      " 'CCDC138+ctrl' 'C14orf178+ctrl' 'GOLGA6L1+ctrl' 'AHSA2+ctrl'\n",
      " 'C1orf61+ctrl' 'C12orf76+ctrl' 'C6orf52+ctrl' 'KRTAP4-7+ctrl'\n",
      " 'WDR89+ctrl' 'AC015871.1+ctrl' 'C16orf95+ctrl' 'C21orf58+ctrl'\n",
      " 'C7orf26+ctrl' 'CENPBD1+ctrl' 'UBALD2+ctrl' 'FAM104B+ctrl' 'ZBED6CL+ctrl'\n",
      " 'RTL8C+ctrl' 'RBM14-RBM4+ctrl' 'SZRD1+ctrl' 'CCDC71+ctrl' 'C8orf82+ctrl'\n",
      " 'CCDC18+ctrl' 'OXLD1+ctrl' 'C4orf36+ctrl' 'RPL17-C18orf32+ctrl'\n",
      " 'CSAG1+ctrl' 'C19orf53+ctrl' 'FAM131A+ctrl' 'C20orf96+ctrl'\n",
      " 'CCDC144NL+ctrl' 'WDR53+ctrl' 'LRRC42+ctrl' 'FAM160B2+ctrl'\n",
      " 'C19orf81+ctrl' 'OAF+ctrl' 'TTC13+ctrl' 'NME1-NME2+ctrl' 'TMEM99+ctrl'\n",
      " 'ARPC4-TTLL3+ctrl' 'C19orf54+ctrl' 'PBDC1+ctrl' 'FAM89A+ctrl'\n",
      " 'CCDC97+ctrl' 'ST20-MTHFS+ctrl' 'PROSER1+ctrl' 'IER5L+ctrl' 'PNMA8A+ctrl'\n",
      " 'C11orf96+ctrl' 'C6orf62+ctrl' 'ERV3-1+ctrl' 'C5orf34+ctrl'\n",
      " 'CCDC169-SOHLH2+ctrl' 'FAM200B+ctrl' 'MTRNR2L1+ctrl' 'H2AFY+ctrl'\n",
      " 'AC118549.1+ctrl' 'TRABD+ctrl' 'CXorf40B+ctrl' 'C11orf58+ctrl'\n",
      " 'FAM86C1+ctrl' 'C6orf136+ctrl' 'C1orf53+ctrl' 'MTRNR2L8+ctrl'\n",
      " 'CCDC142+ctrl' 'MORN1+ctrl' 'C8orf76+ctrl' 'ANKRD36+ctrl' 'KIAA0930+ctrl'\n",
      " 'FAM102B+ctrl' 'FAM193A+ctrl' 'FAU+ctrl' 'LRRC28+ctrl' 'CPXCR1+ctrl'\n",
      " 'TTC31+ctrl' 'LYSMD2+ctrl' 'ALG1L+ctrl' 'C16orf86+ctrl' 'FAM216A+ctrl'\n",
      " 'C9orf85+ctrl' 'LRRC58+ctrl' 'ANKRD33B+ctrl' 'DSCR4+ctrl'\n",
      " 'RPS10-NUDT3+ctrl' 'KBTBD3+ctrl' 'SEM1+ctrl' 'PAGE2B+ctrl'\n",
      " 'RBAK-RBAKDN+ctrl' 'FAM177A1+ctrl' 'ZNF286B+ctrl' 'TSTD3+ctrl'\n",
      " 'C19orf48+ctrl' 'GLOD5+ctrl' 'SNHG32+ctrl' 'FAM178B+ctrl' 'HHLA3+ctrl'\n",
      " 'OR4F4+ctrl' 'FBRS+ctrl' 'PRR14L+ctrl' 'GPALPP1+ctrl' 'METTL26+ctrl'\n",
      " 'FAM229A+ctrl' 'C22orf46+ctrl' 'C1orf122+ctrl' 'KRBA1+ctrl' 'KBTBD4+ctrl'\n",
      " 'ZNF781+ctrl' 'C9orf40+ctrl' 'GATD3A+ctrl' 'CCDC127+ctrl' 'GNB1L+ctrl'\n",
      " 'NFE4+ctrl' 'CCDC34+ctrl' 'C18orf21+ctrl' 'C8orf44+ctrl']\n",
      "Local copy of pyg dataset is detected. Loading...\n"
     ]
    },
    {
     "name": "stdout",
     "output_type": "stream",
     "text": [
      "batch info is available!\n"
     ]
    },
    {
     "name": "stderr",
     "output_type": "stream",
     "text": [
      "Done!\n"
     ]
    }
   ],
   "source": [
    "### if you have a new dataset and want to use the knowledge kernels, then use the following notebook to update it:\n",
    "### this is an example of processing using genome-wide K562\n",
    "### First download the knowledge embedding from: https://drive.google.com/file/d/16p9sQYkhpM-PBAcNWQdjL9pxDZ46krQX/view?usp=drive_link\n",
    "\n",
    "import sys\n",
    "sys.path.append('../GEARS/')\n",
    "\n",
    "path_to_emb = '/home/huangk28/scratch/knowledge_kernels/'\n",
    "\n",
    "from gears import PertData\n",
    "pert_data = PertData('/home/huangk28/scratch/perturb_seq_data/gears_data/') # specific saved folder\n",
    "pert_data.load(data_path = '/home/huangk28/scratch/perturb_seq_data/gears_data/replogle_k562_gw_1000hvg')"
   ]
  },
  {
   "cell_type": "code",
   "execution_count": 2,
   "metadata": {},
   "outputs": [],
   "source": [
    "adata = pert_data.adata\n",
    "unique_perts = [i.split('+')[0] for i in adata.obs.condition.unique()]"
   ]
  },
  {
   "cell_type": "code",
   "execution_count": 4,
   "metadata": {},
   "outputs": [],
   "source": [
    "import scanpy as sc\n",
    "from biothings_client import get_client\n",
    "mg = get_client('gene')\n",
    "adata_2 = sc.read_h5ad('/home/huangk28/scratch/perturb_seq_data/ReplogleWeissman2022_K562_gwps_processed_hvg1000.h5ad')\n",
    "cond2gene_id = dict(adata_2.obs[['condition', 'gene_id']].values)"
   ]
  },
  {
   "cell_type": "code",
   "execution_count": 5,
   "metadata": {},
   "outputs": [],
   "source": [
    "import pickle\n",
    "import os\n",
    "def save_kernel(folder_name, pert_list, kernel_npy, feat):\n",
    "    kernel_path = '/home/huangk28/scratch/knowledge_kernels_gw/'\n",
    "    if not os.path.exists(kernel_path + folder_name):\n",
    "        os.mkdir(kernel_path + folder_name)\n",
    "    with open(kernel_path + folder_name + '/pert_list.pkl', 'wb') as f:\n",
    "        pickle.dump(pert_list, f)\n",
    "    with open(kernel_path + folder_name + '/kernel.pkl', 'wb') as f:\n",
    "        pickle.dump(kernel_npy, f)\n",
    "    with open(kernel_path + folder_name + '/feat.pkl', 'wb') as f:\n",
    "        pickle.dump(feat, f)\n",
    "    \n"
   ]
  },
  {
   "cell_type": "code",
   "execution_count": null,
   "metadata": {},
   "outputs": [],
   "source": [
    "## get gold label upper bound kernels"
   ]
  },
  {
   "cell_type": "code",
   "execution_count": 6,
   "metadata": {},
   "outputs": [],
   "source": [
    "ctrl_effect = adata[adata.obs.condition == 'ctrl'].X.mean(axis = 0)\n",
    "mean_effect = adata[adata.obs.gene != 'ctrl'].X.mean(axis = 0)"
   ]
  },
  {
   "cell_type": "code",
   "execution_count": 7,
   "metadata": {},
   "outputs": [
    {
     "name": "stderr",
     "output_type": "stream",
     "text": [
      "100%|██████████| 9748/9748 [01:25<00:00, 113.66it/s]\n"
     ]
    }
   ],
   "source": [
    "from tqdm import tqdm\n",
    "pert2effect = {}\n",
    "pert2effect_delta = {}\n",
    "pert2effect_delta_mean_pert = {}\n",
    "\n",
    "for pert in tqdm(adata.obs.condition.unique()):\n",
    "    mean_pert = adata[adata.obs.condition == pert].X.mean(axis = 0)\n",
    "    pert2effect[pert] = mean_pert\n",
    "    pert2effect_delta[pert] = mean_pert - ctrl_effect\n",
    "    pert2effect_delta_mean_pert[pert] = mean_pert - mean_effect"
   ]
  },
  {
   "cell_type": "code",
   "execution_count": 8,
   "metadata": {},
   "outputs": [],
   "source": [
    "import numpy as np\n",
    "import pandas as pd\n",
    "df = pd.DataFrame(np.stack(list(pert2effect_delta.values())), index=list(pert2effect_delta.keys()))"
   ]
  },
  {
   "cell_type": "code",
   "execution_count": 9,
   "metadata": {},
   "outputs": [],
   "source": [
    "id2emb = dict(zip([i.split('+')[0] for i in df.index.values], df.values))"
   ]
  },
  {
   "cell_type": "code",
   "execution_count": 10,
   "metadata": {},
   "outputs": [],
   "source": [
    "pert_list = [i.split('+')[0] for i in df.index.values]\n",
    "pert_list_non_ctrl = [i for i in pert_list if i!= 'ctrl']\n",
    "truth_feat = np.stack([id2emb[i] for i in pert_list_non_ctrl])\n",
    "\n",
    "G = np.dot(truth_feat, truth_feat.T)"
   ]
  },
  {
   "cell_type": "code",
   "execution_count": 12,
   "metadata": {},
   "outputs": [
    {
     "data": {
      "text/plain": [
       "(9747, 1000)"
      ]
     },
     "execution_count": 12,
     "metadata": {},
     "output_type": "execute_result"
    }
   ],
   "source": [
    "truth_feat.shape"
   ]
  },
  {
   "cell_type": "code",
   "execution_count": 13,
   "metadata": {},
   "outputs": [],
   "source": [
    "save_kernel('ground_truth_delta', pert_list_non_ctrl, G, truth_feat)"
   ]
  },
  {
   "cell_type": "markdown",
   "metadata": {},
   "source": [
    "## Protein embedding"
   ]
  },
  {
   "cell_type": "markdown",
   "metadata": {},
   "source": []
  },
  {
   "cell_type": "code",
   "execution_count": 36,
   "metadata": {},
   "outputs": [],
   "source": [
    "import pickle\n",
    "with open('/home/huangk28/scratch/knowledge_kernels/esm_emb/gene2esm.pkl', 'rb') as f:\n",
    "    gene2esm = pickle.load(f)"
   ]
  },
  {
   "cell_type": "code",
   "execution_count": 37,
   "metadata": {},
   "outputs": [
    {
     "data": {
      "text/plain": [
       "9609"
      ]
     },
     "execution_count": 37,
     "metadata": {},
     "output_type": "execute_result"
    }
   ],
   "source": [
    "len(np.intersect1d(list(gene2esm.keys()), unique_perts))"
   ]
  },
  {
   "cell_type": "code",
   "execution_count": 44,
   "metadata": {},
   "outputs": [],
   "source": [
    "pert_list = [i.split('+')[0] for i in df.index.values]\n",
    "pert_list_non_ctrl = [i for i in pert_list if i!= 'ctrl']\n",
    "failed_genes = []\n",
    "gene2cond_name = {}\n",
    "for i in tqdm(np.setdiff1d(pert_list, list(gene2esm.keys()))):\n",
    "    if (i != 'ctrl'):\n",
    "        try:\n",
    "            gene2cond_name[i] = mg.getgenes(cond2gene_id[i+'+ctrl'])\n",
    "        except:\n",
    "            print(i)\n",
    "            failed_genes.append(i)\n",
    "fix_gene = {i: j[0]['symbol'] for i,j in gene2cond_name.items()}\n",
    "\n",
    "pert_list = [i.split('+')[0] for i in df.index.values]\n",
    "pert_list_non_ctrl = [i for i in pert_list if i!= 'ctrl']\n",
    "failed_genes = []\n",
    "gene2cond_name = {}\n",
    "for i in tqdm(np.setdiff1d(pert_list, list(gene2esm.keys()))):\n",
    "    if (i != 'ctrl'):\n",
    "        try:\n",
    "            gene2cond_name[i] = mg.getgenes(cond2gene_id[i+'+ctrl'])\n",
    "        except:\n",
    "            print(i)\n",
    "            failed_genes.append(i)\n",
    "fix_gene = {}\n",
    "for i,j in gene2cond_name.items():\n",
    "    if 'symbol' in j[0]:\n",
    "        fix_gene[i] = j[0]['symbol']\n",
    "    else:\n",
    "        failed_genes.append(i)\n",
    "        "
   ]
  },
  {
   "cell_type": "code",
   "execution_count": 54,
   "metadata": {},
   "outputs": [
    {
     "name": "stderr",
     "output_type": "stream",
     "text": [
      " 57%|█████▋    | 5547/9747 [00:00<00:00, 40070.48it/s]"
     ]
    },
    {
     "name": "stdout",
     "output_type": "stream",
     "text": [
      "HIST2H2AA3\n",
      "HIST3H2A\n",
      "FCGR2C\n"
     ]
    },
    {
     "name": "stderr",
     "output_type": "stream",
     "text": [
      "100%|██████████| 9747/9747 [00:00<00:00, 28407.81it/s]"
     ]
    },
    {
     "name": "stdout",
     "output_type": "stream",
     "text": [
      "HIST3H2BB\n",
      "ZNF883\n"
     ]
    },
    {
     "name": "stderr",
     "output_type": "stream",
     "text": [
      "\n"
     ]
    }
   ],
   "source": [
    "id2emb = {}\n",
    "for i in tqdm(pert_list_non_ctrl):\n",
    "    if i in gene2esm:\n",
    "        out = gene2esm[i]\n",
    "    elif (i in fix_gene) and (fix_gene[i] in gene2esm):\n",
    "        out = gene2esm[fix_gene[i]]\n",
    "    else:\n",
    "        print(i)\n",
    "        out = np.mean(list(gene2esm.values()), axis = 0)\n",
    "    id2emb[i] = out\n",
    "# {i: gene2esm[i] if i in gene2esm else gene2esm[fix_gene[i]] }"
   ]
  },
  {
   "cell_type": "code",
   "execution_count": 55,
   "metadata": {},
   "outputs": [],
   "source": [
    "esm_feat = np.stack([id2emb[i] for i in pert_list_non_ctrl])\n",
    "G = np.dot(esm_feat, esm_feat.T)"
   ]
  },
  {
   "cell_type": "code",
   "execution_count": 56,
   "metadata": {},
   "outputs": [],
   "source": [
    "save_kernel('esm_kernel', pert_list_non_ctrl, G, esm_feat)"
   ]
  },
  {
   "cell_type": "markdown",
   "metadata": {},
   "source": [
    "## PoPS embedding"
   ]
  },
  {
   "cell_type": "code",
   "execution_count": 58,
   "metadata": {},
   "outputs": [],
   "source": [
    "import pickle\n",
    "with open(path_to_emb + 'pops_emb/gene2pops_all.pkl', 'rb') as f:\n",
    "    gene2pops = pickle.load(f)"
   ]
  },
  {
   "cell_type": "code",
   "execution_count": 59,
   "metadata": {},
   "outputs": [
    {
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     "output_type": "stream",
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    },
    {
     "name": "stdout",
     "output_type": "stream",
     "text": [
      "FCGR2C\n"
     ]
    },
    {
     "name": "stderr",
     "output_type": "stream",
     "text": [
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      "INFO:biothings.client:done.\n",
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      "INFO:biothings.client:done.\n",
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      "INFO:biothings.client:done.\n",
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      "INFO:biothings.client:done.\n",
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      "INFO:biothings.client:done.\n",
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      "INFO:biothings.client:done.\n",
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      "INFO:biothings.client:done.\n",
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      "INFO:biothings.client:done.\n",
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      "INFO:biothings.client:done.\n",
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      "INFO:biothings.client:done.\n",
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      "INFO:biothings.client:done.\n",
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      "INFO:biothings.client:done.\n",
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      "INFO:biothings.client:done.\n",
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      "INFO:biothings.client:done.\n",
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      "INFO:biothings.client:done.\n",
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      "INFO:biothings.client:done.\n",
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      "INFO:biothings.client:done.\n",
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      "INFO:biothings.client:done.\n",
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      "INFO:biothings.client:done.\n",
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      "INFO:biothings.client:done.\n",
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      "INFO:biothings.client:done.\n",
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      "INFO:biothings.client:done.\n",
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      "INFO:biothings.client:done.\n",
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      "INFO:biothings.client:done.\n",
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      "INFO:biothings.client:done.\n",
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      "INFO:biothings.client:done.\n",
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      "INFO:biothings.client:done.\n",
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      "INFO:biothings.client:done.\n",
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      "INFO:biothings.client:done.\n",
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      "INFO:biothings.client:done.\n",
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      "INFO:biothings.client:done.\n",
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      "INFO:biothings.client:done.\n",
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      "INFO:biothings.client:done.\n",
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      "INFO:biothings.client:done.\n",
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      "INFO:biothings.client:done.\n",
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      "INFO:biothings.client:done.\n",
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      "INFO:biothings.client:done.\n",
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      "INFO:biothings.client:done.\n",
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      "INFO:biothings.client:done.\n",
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      "INFO:biothings.client:done.\n",
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      "INFO:biothings.client:done.\n",
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      "INFO:biothings.client:done.\n",
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      "INFO:biothings.client:done.\n",
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      "INFO:biothings.client:done.\n",
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      "INFO:biothings.client:done.\n",
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      "INFO:biothings.client:done.\n",
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      "INFO:biothings.client:done.\n",
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      "INFO:biothings.client:done.\n",
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      "INFO:biothings.client:done.\n",
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      "INFO:biothings.client:done.\n",
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      "INFO:biothings.client:done.\n",
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      "INFO:biothings.client:done.\n",
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      "INFO:biothings.client:done.\n",
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      "INFO:biothings.client:done.\n",
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      "INFO:biothings.client:done.\n",
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      "INFO:biothings.client:done.\n",
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      "INFO:biothings.client:done.\n",
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      "INFO:biothings.client:done.\n",
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      "INFO:biothings.client:done.\n",
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      "INFO:biothings.client:done.\n",
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      "INFO:biothings.client:done.\n",
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      "INFO:biothings.client:done.\n",
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      "INFO:biothings.client:done.\n",
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      "INFO:biothings.client:done.\n",
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      "INFO:biothings.client:done.\n",
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      "INFO:biothings.client:done.\n",
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      "INFO:biothings.client:done.\n",
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      "INFO:biothings.client:done.\n",
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      "INFO:biothings.client:done.\n",
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      "INFO:biothings.client:done.\n",
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      "INFO:biothings.client:done.\n",
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      "INFO:biothings.client:done.\n",
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      "INFO:biothings.client:done.\n",
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      "INFO:biothings.client:done.\n",
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      "INFO:biothings.client:done.\n",
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      "INFO:biothings.client:done.\n",
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      "INFO:biothings.client:done.\n",
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      "INFO:biothings.client:done.\n",
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      "INFO:biothings.client:done.\n",
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      "INFO:biothings.client:done.\n",
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      "INFO:biothings.client:done.\n",
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      "INFO:biothings.client:done.\n",
      " 67%|██████▋   | 419/627 [07:37<03:48,  1.10s/it]INFO:biothings.client:querying 1-1...\n",
      "INFO:biothings.client:done.\n",
      " 67%|██████▋   | 420/627 [07:38<03:47,  1.10s/it]INFO:biothings.client:querying 1-1...\n",
      "INFO:biothings.client:done.\n",
      " 67%|██████▋   | 421/627 [07:39<03:45,  1.10s/it]INFO:biothings.client:querying 1-1...\n",
      "INFO:biothings.client:done.\n",
      " 67%|██████▋   | 422/627 [07:41<03:44,  1.10s/it]INFO:biothings.client:querying 1-1...\n",
      "INFO:biothings.client:done.\n",
      " 67%|██████▋   | 423/627 [07:42<03:43,  1.10s/it]INFO:biothings.client:querying 1-1...\n",
      "INFO:biothings.client:done.\n",
      " 68%|██████▊   | 424/627 [07:43<03:42,  1.09s/it]INFO:biothings.client:querying 1-1...\n",
      "INFO:biothings.client:done.\n",
      " 68%|██████▊   | 425/627 [07:44<03:41,  1.09s/it]INFO:biothings.client:querying 1-1...\n",
      "INFO:biothings.client:done.\n",
      " 68%|██████▊   | 426/627 [07:45<03:40,  1.10s/it]INFO:biothings.client:querying 1-1...\n",
      "INFO:biothings.client:done.\n",
      " 68%|██████▊   | 427/627 [07:46<03:38,  1.09s/it]INFO:biothings.client:querying 1-1...\n",
      "INFO:biothings.client:done.\n",
      " 68%|██████▊   | 428/627 [07:47<03:37,  1.09s/it]INFO:biothings.client:querying 1-1...\n",
      "INFO:biothings.client:done.\n",
      " 68%|██████▊   | 429/627 [07:48<03:36,  1.09s/it]INFO:biothings.client:querying 1-1...\n",
      "INFO:biothings.client:done.\n",
      " 69%|██████▊   | 430/627 [07:49<03:35,  1.09s/it]INFO:biothings.client:querying 1-1...\n",
      "INFO:biothings.client:done.\n",
      " 69%|██████▊   | 431/627 [07:50<03:34,  1.10s/it]INFO:biothings.client:querying 1-1...\n",
      "INFO:biothings.client:done.\n",
      " 69%|██████▉   | 432/627 [07:52<03:33,  1.10s/it]INFO:biothings.client:querying 1-1...\n",
      "INFO:biothings.client:done.\n",
      " 69%|██████▉   | 433/627 [07:53<03:32,  1.10s/it]INFO:biothings.client:querying 1-1...\n",
      "INFO:biothings.client:done.\n",
      " 69%|██████▉   | 434/627 [07:54<03:31,  1.10s/it]INFO:biothings.client:querying 1-1...\n",
      "INFO:biothings.client:done.\n",
      " 69%|██████▉   | 435/627 [07:55<03:30,  1.09s/it]INFO:biothings.client:querying 1-1...\n",
      "INFO:biothings.client:done.\n",
      " 70%|██████▉   | 436/627 [07:56<03:29,  1.10s/it]INFO:biothings.client:querying 1-1...\n",
      "INFO:biothings.client:done.\n",
      " 70%|██████▉   | 437/627 [07:57<03:28,  1.10s/it]INFO:biothings.client:querying 1-1...\n",
      "INFO:biothings.client:done.\n",
      " 70%|██████▉   | 438/627 [07:58<03:27,  1.10s/it]INFO:biothings.client:querying 1-1...\n",
      "INFO:biothings.client:done.\n",
      " 70%|███████   | 439/627 [07:59<03:25,  1.10s/it]INFO:biothings.client:querying 1-1...\n",
      "INFO:biothings.client:done.\n",
      " 70%|███████   | 440/627 [08:00<03:24,  1.09s/it]INFO:biothings.client:querying 1-1...\n",
      "INFO:biothings.client:done.\n",
      " 70%|███████   | 441/627 [08:01<03:23,  1.09s/it]INFO:biothings.client:querying 1-1...\n",
      "INFO:biothings.client:done.\n",
      " 70%|███████   | 442/627 [08:02<03:22,  1.09s/it]INFO:biothings.client:querying 1-1...\n",
      "INFO:biothings.client:done.\n",
      " 71%|███████   | 443/627 [08:04<03:21,  1.09s/it]INFO:biothings.client:querying 1-1...\n",
      "INFO:biothings.client:done.\n",
      " 71%|███████   | 444/627 [08:05<03:20,  1.09s/it]INFO:biothings.client:querying 1-1...\n",
      "INFO:biothings.client:done.\n",
      " 71%|███████   | 445/627 [08:06<03:18,  1.09s/it]INFO:biothings.client:querying 1-1...\n",
      "INFO:biothings.client:done.\n",
      " 71%|███████   | 446/627 [08:07<03:17,  1.09s/it]INFO:biothings.client:querying 1-1...\n",
      "INFO:biothings.client:done.\n",
      " 71%|███████▏  | 447/627 [08:08<03:16,  1.09s/it]INFO:biothings.client:querying 1-1...\n",
      "INFO:biothings.client:done.\n",
      " 71%|███████▏  | 448/627 [08:09<03:15,  1.09s/it]INFO:biothings.client:querying 1-1...\n",
      "INFO:biothings.client:done.\n",
      " 72%|███████▏  | 449/627 [08:10<03:14,  1.09s/it]INFO:biothings.client:querying 1-1...\n",
      "INFO:biothings.client:done.\n",
      " 72%|███████▏  | 450/627 [08:11<03:13,  1.09s/it]INFO:biothings.client:querying 1-1...\n",
      "INFO:biothings.client:done.\n",
      " 72%|███████▏  | 451/627 [08:12<03:12,  1.09s/it]INFO:biothings.client:querying 1-1...\n",
      "INFO:biothings.client:done.\n",
      " 72%|███████▏  | 452/627 [08:13<03:11,  1.10s/it]INFO:biothings.client:querying 1-1...\n",
      "INFO:biothings.client:done.\n",
      " 72%|███████▏  | 453/627 [08:15<03:10,  1.10s/it]INFO:biothings.client:querying 1-1...\n",
      "INFO:biothings.client:done.\n",
      " 72%|███████▏  | 454/627 [08:16<03:09,  1.10s/it]INFO:biothings.client:querying 1-1...\n",
      "INFO:biothings.client:done.\n",
      " 73%|███████▎  | 455/627 [08:17<03:08,  1.09s/it]INFO:biothings.client:querying 1-1...\n",
      "INFO:biothings.client:done.\n",
      " 73%|███████▎  | 456/627 [08:18<03:06,  1.09s/it]INFO:biothings.client:querying 1-1...\n",
      "INFO:biothings.client:done.\n",
      " 73%|███████▎  | 457/627 [08:19<03:05,  1.09s/it]INFO:biothings.client:querying 1-1...\n",
      "INFO:biothings.client:done.\n",
      " 73%|███████▎  | 458/627 [08:20<03:04,  1.09s/it]INFO:biothings.client:querying 1-1...\n",
      "INFO:biothings.client:done.\n",
      " 73%|███████▎  | 459/627 [08:21<03:04,  1.10s/it]INFO:biothings.client:querying 1-1...\n",
      "INFO:biothings.client:done.\n",
      " 73%|███████▎  | 460/627 [08:22<03:02,  1.10s/it]INFO:biothings.client:querying 1-1...\n",
      "INFO:biothings.client:done.\n",
      " 74%|███████▎  | 461/627 [08:23<03:01,  1.09s/it]INFO:biothings.client:querying 1-1...\n",
      "INFO:biothings.client:done.\n",
      " 74%|███████▎  | 462/627 [08:24<03:00,  1.09s/it]INFO:biothings.client:querying 1-1...\n",
      "INFO:biothings.client:done.\n",
      " 74%|███████▍  | 463/627 [08:25<02:59,  1.09s/it]INFO:biothings.client:querying 1-1...\n",
      "INFO:biothings.client:done.\n",
      " 74%|███████▍  | 464/627 [08:27<02:58,  1.09s/it]INFO:biothings.client:querying 1-1...\n",
      "INFO:biothings.client:done.\n",
      " 74%|███████▍  | 465/627 [08:28<02:57,  1.09s/it]INFO:biothings.client:querying 1-1...\n",
      "INFO:biothings.client:done.\n",
      " 74%|███████▍  | 466/627 [08:29<02:55,  1.09s/it]INFO:biothings.client:querying 1-1...\n",
      "INFO:biothings.client:done.\n",
      " 74%|███████▍  | 467/627 [08:30<02:54,  1.09s/it]INFO:biothings.client:querying 1-1...\n",
      "INFO:biothings.client:done.\n",
      " 75%|███████▍  | 468/627 [08:31<02:53,  1.09s/it]INFO:biothings.client:querying 1-1...\n",
      "INFO:biothings.client:done.\n",
      " 75%|███████▍  | 469/627 [08:32<02:52,  1.09s/it]INFO:biothings.client:querying 1-1...\n",
      "INFO:biothings.client:done.\n",
      " 75%|███████▍  | 470/627 [08:33<02:51,  1.09s/it]INFO:biothings.client:querying 1-1...\n",
      "INFO:biothings.client:done.\n",
      " 75%|███████▌  | 471/627 [08:34<02:50,  1.09s/it]INFO:biothings.client:querying 1-1...\n",
      "INFO:biothings.client:done.\n",
      " 75%|███████▌  | 472/627 [08:35<02:49,  1.09s/it]INFO:biothings.client:querying 1-1...\n",
      "INFO:biothings.client:done.\n",
      " 75%|███████▌  | 473/627 [08:36<02:48,  1.09s/it]INFO:biothings.client:querying 1-1...\n",
      "INFO:biothings.client:done.\n",
      " 76%|███████▌  | 474/627 [08:37<02:47,  1.09s/it]INFO:biothings.client:querying 1-1...\n",
      "INFO:biothings.client:done.\n",
      " 76%|███████▌  | 475/627 [08:39<02:46,  1.09s/it]INFO:biothings.client:querying 1-1...\n",
      "INFO:biothings.client:done.\n",
      " 76%|███████▌  | 476/627 [08:40<02:45,  1.09s/it]INFO:biothings.client:querying 1-1...\n",
      "INFO:biothings.client:done.\n",
      " 76%|███████▌  | 477/627 [08:41<02:44,  1.09s/it]INFO:biothings.client:querying 1-1...\n",
      "INFO:biothings.client:done.\n",
      " 76%|███████▌  | 478/627 [08:42<02:43,  1.10s/it]INFO:biothings.client:querying 1-1...\n",
      "INFO:biothings.client:done.\n",
      " 76%|███████▋  | 479/627 [08:43<02:41,  1.09s/it]INFO:biothings.client:querying 1-1...\n",
      "INFO:biothings.client:done.\n",
      " 77%|███████▋  | 480/627 [08:44<02:40,  1.09s/it]INFO:biothings.client:querying 1-1...\n",
      "INFO:biothings.client:done.\n",
      " 77%|███████▋  | 481/627 [08:45<02:39,  1.09s/it]INFO:biothings.client:querying 1-1...\n",
      "INFO:biothings.client:done.\n",
      " 77%|███████▋  | 482/627 [08:46<02:38,  1.09s/it]INFO:biothings.client:querying 1-1...\n",
      "INFO:biothings.client:done.\n",
      " 77%|███████▋  | 483/627 [08:47<02:37,  1.09s/it]INFO:biothings.client:querying 1-1...\n",
      "INFO:biothings.client:done.\n",
      " 77%|███████▋  | 484/627 [08:48<02:36,  1.09s/it]INFO:biothings.client:querying 1-1...\n",
      "INFO:biothings.client:done.\n",
      " 77%|███████▋  | 485/627 [08:49<02:35,  1.09s/it]INFO:biothings.client:querying 1-1...\n",
      "INFO:biothings.client:done.\n",
      " 78%|███████▊  | 486/627 [08:51<02:34,  1.09s/it]INFO:biothings.client:querying 1-1...\n",
      "INFO:biothings.client:done.\n",
      " 78%|███████▊  | 487/627 [08:52<02:32,  1.09s/it]INFO:biothings.client:querying 1-1...\n",
      "INFO:biothings.client:done.\n",
      " 78%|███████▊  | 488/627 [08:53<02:32,  1.09s/it]INFO:biothings.client:querying 1-1...\n",
      "INFO:biothings.client:done.\n",
      " 78%|███████▊  | 489/627 [08:54<02:30,  1.09s/it]INFO:biothings.client:querying 1-1...\n",
      "INFO:biothings.client:done.\n",
      " 78%|███████▊  | 490/627 [08:55<02:29,  1.09s/it]INFO:biothings.client:querying 1-1...\n",
      "INFO:biothings.client:done.\n",
      " 78%|███████▊  | 491/627 [08:56<02:28,  1.09s/it]INFO:biothings.client:querying 1-1...\n",
      "INFO:biothings.client:done.\n",
      " 78%|███████▊  | 492/627 [08:57<02:27,  1.09s/it]INFO:biothings.client:querying 1-1...\n",
      "INFO:biothings.client:done.\n",
      " 79%|███████▊  | 493/627 [08:58<02:26,  1.09s/it]INFO:biothings.client:querying 1-1...\n",
      "INFO:biothings.client:done.\n",
      " 79%|███████▉  | 494/627 [08:59<02:25,  1.10s/it]INFO:biothings.client:querying 1-1...\n",
      "INFO:biothings.client:done.\n",
      " 79%|███████▉  | 495/627 [09:00<02:24,  1.09s/it]INFO:biothings.client:querying 1-1...\n",
      "INFO:biothings.client:done.\n",
      " 79%|███████▉  | 496/627 [09:02<02:23,  1.09s/it]INFO:biothings.client:querying 1-1...\n",
      "INFO:biothings.client:done.\n",
      " 79%|███████▉  | 497/627 [09:03<02:22,  1.10s/it]INFO:biothings.client:querying 1-1...\n",
      "INFO:biothings.client:done.\n",
      " 79%|███████▉  | 498/627 [09:04<02:21,  1.10s/it]INFO:biothings.client:querying 1-1...\n",
      "INFO:biothings.client:done.\n",
      " 80%|███████▉  | 499/627 [09:05<02:20,  1.09s/it]INFO:biothings.client:querying 1-1...\n",
      "INFO:biothings.client:done.\n",
      " 80%|███████▉  | 500/627 [09:06<02:18,  1.09s/it]INFO:biothings.client:querying 1-1...\n",
      "INFO:biothings.client:done.\n",
      " 80%|███████▉  | 501/627 [09:07<02:17,  1.09s/it]INFO:biothings.client:querying 1-1...\n",
      "INFO:biothings.client:done.\n",
      " 80%|████████  | 502/627 [09:08<02:16,  1.09s/it]INFO:biothings.client:querying 1-1...\n",
      "INFO:biothings.client:done.\n",
      " 80%|████████  | 503/627 [09:09<02:15,  1.09s/it]INFO:biothings.client:querying 1-1...\n",
      "INFO:biothings.client:done.\n",
      " 80%|████████  | 504/627 [09:10<02:14,  1.09s/it]INFO:biothings.client:querying 1-1...\n",
      "INFO:biothings.client:done.\n",
      " 81%|████████  | 505/627 [09:11<02:13,  1.09s/it]INFO:biothings.client:querying 1-1...\n",
      "INFO:biothings.client:done.\n",
      " 81%|████████  | 506/627 [09:12<02:12,  1.09s/it]INFO:biothings.client:querying 1-1...\n",
      "INFO:biothings.client:done.\n",
      " 81%|████████  | 507/627 [09:14<02:10,  1.09s/it]INFO:biothings.client:querying 1-1...\n",
      "INFO:biothings.client:done.\n",
      " 81%|████████  | 508/627 [09:15<02:10,  1.09s/it]INFO:biothings.client:querying 1-1...\n",
      "INFO:biothings.client:done.\n",
      " 81%|████████  | 509/627 [09:16<02:08,  1.09s/it]INFO:biothings.client:querying 1-1...\n",
      "INFO:biothings.client:done.\n",
      " 81%|████████▏ | 510/627 [09:17<02:07,  1.09s/it]INFO:biothings.client:querying 1-1...\n",
      "INFO:biothings.client:done.\n",
      " 81%|████████▏ | 511/627 [09:18<02:06,  1.09s/it]INFO:biothings.client:querying 1-1...\n",
      "INFO:biothings.client:done.\n",
      " 82%|████████▏ | 512/627 [09:19<02:05,  1.09s/it]INFO:biothings.client:querying 1-1...\n",
      "INFO:biothings.client:done.\n",
      " 82%|████████▏ | 513/627 [09:20<02:04,  1.09s/it]INFO:biothings.client:querying 1-1...\n",
      "INFO:biothings.client:done.\n",
      " 82%|████████▏ | 514/627 [09:21<02:03,  1.09s/it]INFO:biothings.client:querying 1-1...\n",
      "INFO:biothings.client:done.\n",
      " 82%|████████▏ | 515/627 [09:22<02:02,  1.09s/it]INFO:biothings.client:querying 1-1...\n",
      "INFO:biothings.client:done.\n",
      " 82%|████████▏ | 516/627 [09:23<02:01,  1.09s/it]INFO:biothings.client:querying 1-1...\n",
      "INFO:biothings.client:done.\n",
      " 82%|████████▏ | 517/627 [09:24<02:00,  1.09s/it]INFO:biothings.client:querying 1-1...\n",
      "INFO:biothings.client:done.\n",
      " 83%|████████▎ | 518/627 [09:26<01:59,  1.09s/it]INFO:biothings.client:querying 1-1...\n",
      "INFO:biothings.client:done.\n",
      " 83%|████████▎ | 519/627 [09:27<01:58,  1.09s/it]INFO:biothings.client:querying 1-1...\n",
      "INFO:biothings.client:done.\n",
      " 83%|████████▎ | 520/627 [09:28<01:58,  1.11s/it]INFO:biothings.client:querying 1-1...\n",
      "INFO:biothings.client:done.\n",
      " 83%|████████▎ | 521/627 [09:29<01:56,  1.10s/it]INFO:biothings.client:querying 1-1...\n",
      "INFO:biothings.client:done.\n",
      " 83%|████████▎ | 522/627 [09:30<01:55,  1.10s/it]INFO:biothings.client:querying 1-1...\n",
      "INFO:biothings.client:done.\n",
      " 83%|████████▎ | 523/627 [09:31<01:54,  1.10s/it]INFO:biothings.client:querying 1-1...\n",
      "INFO:biothings.client:done.\n",
      " 84%|████████▎ | 524/627 [09:32<01:53,  1.10s/it]INFO:biothings.client:querying 1-1...\n",
      "INFO:biothings.client:done.\n",
      " 84%|████████▎ | 525/627 [09:33<01:51,  1.10s/it]INFO:biothings.client:querying 1-1...\n",
      "INFO:biothings.client:done.\n",
      " 84%|████████▍ | 526/627 [09:34<01:50,  1.10s/it]INFO:biothings.client:querying 1-1...\n",
      "INFO:biothings.client:done.\n",
      " 84%|████████▍ | 527/627 [09:35<01:49,  1.10s/it]INFO:biothings.client:querying 1-1...\n",
      "INFO:biothings.client:done.\n",
      " 84%|████████▍ | 528/627 [09:37<01:51,  1.12s/it]INFO:biothings.client:querying 1-1...\n",
      "INFO:biothings.client:done.\n",
      " 84%|████████▍ | 529/627 [09:38<01:49,  1.11s/it]INFO:biothings.client:querying 1-1...\n",
      "INFO:biothings.client:done.\n",
      " 85%|████████▍ | 530/627 [09:39<01:47,  1.11s/it]INFO:biothings.client:querying 1-1...\n",
      "INFO:biothings.client:done.\n",
      " 85%|████████▍ | 531/627 [09:40<01:45,  1.10s/it]INFO:biothings.client:querying 1-1...\n",
      "INFO:biothings.client:done.\n",
      " 85%|████████▍ | 532/627 [09:41<01:44,  1.10s/it]INFO:biothings.client:querying 1-1...\n",
      "INFO:biothings.client:done.\n",
      " 85%|████████▌ | 533/627 [09:42<01:43,  1.10s/it]INFO:biothings.client:querying 1-1...\n",
      "INFO:biothings.client:done.\n",
      " 85%|████████▌ | 534/627 [09:43<01:42,  1.10s/it]INFO:biothings.client:querying 1-1...\n",
      "INFO:biothings.client:done.\n",
      " 85%|████████▌ | 535/627 [09:44<01:40,  1.10s/it]INFO:biothings.client:querying 1-1...\n",
      "INFO:biothings.client:done.\n",
      " 85%|████████▌ | 536/627 [09:45<01:39,  1.10s/it]INFO:biothings.client:querying 1-1...\n",
      "INFO:biothings.client:done.\n",
      " 86%|████████▌ | 537/627 [09:47<01:38,  1.09s/it]INFO:biothings.client:querying 1-1...\n",
      "INFO:biothings.client:done.\n",
      " 86%|████████▌ | 538/627 [09:48<01:37,  1.09s/it]INFO:biothings.client:querying 1-1...\n",
      "INFO:biothings.client:done.\n",
      " 86%|████████▌ | 539/627 [09:49<01:45,  1.20s/it]INFO:biothings.client:querying 1-1...\n",
      "INFO:biothings.client:done.\n",
      " 86%|████████▌ | 540/627 [09:50<01:41,  1.17s/it]INFO:biothings.client:querying 1-1...\n",
      "INFO:biothings.client:done.\n",
      " 86%|████████▋ | 541/627 [09:51<01:38,  1.15s/it]INFO:biothings.client:querying 1-1...\n",
      "INFO:biothings.client:done.\n",
      " 86%|████████▋ | 542/627 [09:52<01:36,  1.13s/it]INFO:biothings.client:querying 1-1...\n",
      "INFO:biothings.client:done.\n",
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      "INFO:biothings.client:done.\n",
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      "INFO:biothings.client:done.\n",
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      "INFO:biothings.client:done.\n",
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      "INFO:biothings.client:done.\n",
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      "INFO:biothings.client:done.\n",
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      "INFO:biothings.client:done.\n",
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      "INFO:biothings.client:done.\n",
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      "INFO:biothings.client:done.\n",
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      "INFO:biothings.client:done.\n",
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      "INFO:biothings.client:done.\n",
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      "INFO:biothings.client:done.\n",
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      "INFO:biothings.client:done.\n",
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      "INFO:biothings.client:done.\n",
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      "INFO:biothings.client:done.\n",
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      "INFO:biothings.client:done.\n",
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      "INFO:biothings.client:done.\n",
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      "INFO:biothings.client:done.\n",
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      "INFO:biothings.client:done.\n",
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      "INFO:biothings.client:done.\n",
      " 92%|█████████▏| 574/627 [10:27<00:57,  1.09s/it]INFO:biothings.client:querying 1-1...\n",
      "INFO:biothings.client:done.\n",
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      "INFO:biothings.client:done.\n",
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      "INFO:biothings.client:done.\n",
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      "INFO:biothings.client:done.\n",
      " 92%|█████████▏| 578/627 [10:32<00:53,  1.09s/it]INFO:biothings.client:querying 1-1...\n",
      "INFO:biothings.client:done.\n",
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      "INFO:biothings.client:done.\n",
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      "INFO:biothings.client:done.\n",
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      "INFO:biothings.client:done.\n",
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      "INFO:biothings.client:done.\n",
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      "INFO:biothings.client:done.\n",
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      "INFO:biothings.client:done.\n",
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      "INFO:biothings.client:done.\n",
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      "INFO:biothings.client:done.\n",
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      "INFO:biothings.client:done.\n",
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     ]
    }
   ],
   "source": [
    "pert_list = [i.split('+')[0] for i in df.index.values]\n",
    "pert_list_non_ctrl = [i for i in pert_list if i!= 'ctrl']\n",
    "failed_genes = []\n",
    "gene2cond_name = {}\n",
    "for i in tqdm(np.setdiff1d(pert_list, list(gene2pops.keys()))):\n",
    "    if (i != 'ctrl'):\n",
    "        try:\n",
    "            gene2cond_name[i] = mg.getgenes(cond2gene_id[i+'+ctrl'])\n",
    "        except:\n",
    "            print(i)\n",
    "            failed_genes.append(i)\n",
    "fix_gene = {}\n",
    "for i,j in gene2cond_name.items():\n",
    "    if 'symbol' in j[0]:\n",
    "        fix_gene[i] = j[0]['symbol']\n",
    "    else:\n",
    "        failed_genes.append(i)"
   ]
  },
  {
   "cell_type": "code",
   "execution_count": 60,
   "metadata": {},
   "outputs": [],
   "source": [
    "mean_pops = np.mean(np.stack(gene2pops.values()), axis = 0)"
   ]
  },
  {
   "cell_type": "code",
   "execution_count": 65,
   "metadata": {},
   "outputs": [
    {
     "name": "stderr",
     "output_type": "stream",
     "text": [
      "100%|██████████| 9747/9747 [00:00<00:00, 1420545.57it/s]"
     ]
    },
    {
     "name": "stdout",
     "output_type": "stream",
     "text": [
      "HIKESHI\n",
      "SELENOP\n",
      "NAXE\n",
      "TMEM131L\n",
      "PRPS2\n",
      "FUNDC2\n",
      "HDX\n",
      "HAUS7\n",
      "FOXI3\n",
      "NUP62CL\n",
      "HDAC8\n",
      "ETFRF1\n",
      "MCTS1\n",
      "HSFX1\n",
      "VIRMA\n",
      "MSN\n",
      "MORF4L2\n",
      "ZNF182\n",
      "RPS4X\n",
      "WDR13\n",
      "SSX4\n",
      "INTS14\n",
      "ALG13\n",
      "YY2\n",
      "TLCD3A\n",
      "FMR1NB\n",
      "DIPK1B\n",
      "TMEM273\n",
      "CYREN\n",
      "EPOP\n",
      "RXYLT1\n",
      "HPRT1\n",
      "CITED1\n",
      "SSX1\n",
      "ZUP1\n",
      "STAG2\n",
      "KYAT3\n",
      "PIP4P2\n",
      "NDUFAF8\n",
      "SELENOK\n",
      "MED14\n",
      "AR\n",
      "TBXT\n",
      "ABO\n",
      "FAM156B\n",
      "ITM2A\n",
      "FAM122B\n",
      "SLC25A6\n",
      "TMEM250\n",
      "MESD\n",
      "TXLNG\n",
      "TAZ\n",
      "TAF9B\n",
      "MAGEC1\n",
      "CENPS\n",
      "CNOT9\n",
      "PAGE1\n",
      "RPS6KA3\n",
      "SINHCAF\n",
      "ATRX\n",
      "PAGE5\n",
      "PRICKLE3\n",
      "KDM6A\n",
      "MBTPS2\n",
      "CFAP410\n",
      "ARHGAP45\n",
      "TMLHE\n",
      "RAMAC\n",
      "DUSP9\n",
      "DNASE1L1\n",
      "BCORL1\n",
      "SLC66A1\n",
      "PQBP1\n",
      "UBQLN2\n",
      "HSD17B10\n",
      "SLC66A3\n",
      "MSL3\n",
      "CTPS2\n",
      "DMAC2L\n",
      "MAGEB2\n",
      "SELENOM\n",
      "HSFY1\n",
      "COQ8A\n",
      "TEDC1\n",
      "USP11\n",
      "STARD8\n",
      "HTATSF1\n",
      "ELOA\n",
      "MAGED2\n",
      "TCEAL1\n",
      "NKAPD1\n",
      "MAGEA1\n",
      "SELENOT\n",
      "TMSB4X\n",
      "MID1IP1\n",
      "ACOT9\n",
      "SSR4\n",
      "RBMX\n",
      "TFDP3\n",
      "DKC1\n",
      "DENND10\n",
      "TIMP1\n",
      "ZNF280C\n",
      "FBH1\n",
      "BRCC3\n",
      "CD99\n",
      "RAB5IF\n",
      "HCFC1\n",
      "NR2E3\n",
      "MAIP1\n",
      "HPF1\n",
      "C11orf95\n",
      "ATP5F1D\n",
      "ATP5MD\n",
      "POGLUT2\n",
      "MMUT\n",
      "ELOB\n",
      "PLP2\n",
      "SAT1\n",
      "UPF3B\n",
      "NONO\n",
      "RO60\n",
      "GRIPAP1\n",
      "MAGEB1\n",
      "USP51\n",
      "CRYBG1\n",
      "CEMIP2\n",
      "LAMP2\n",
      "SEPTIN1\n",
      "SPINDOC\n",
      "IKBKG\n",
      "PDHA1\n",
      "ICE1\n",
      "COA8\n",
      "EIF1AX\n",
      "ATP5MC1\n",
      "ZNF630\n",
      "CDK16\n",
      "ZIC3\n",
      "PRUNE1\n",
      "SEPTIN7\n",
      "IDH3G\n",
      "WASHC5\n",
      "RHOXF2\n",
      "RIOX2\n",
      "MAGED1\n",
      "LNPK\n",
      "PDZD11\n",
      "NR0B1\n",
      "RPGR\n",
      "UBXN8\n",
      "SEPTIN6\n",
      "RPL36A\n",
      "IQSEC2\n",
      "FAM174C\n",
      "TCEAL8\n",
      "MMGT1\n",
      "ESS2\n",
      "TSPYL2\n",
      "SLC66A2\n",
      "EEF1AKMT1\n",
      "ARMCX3\n",
      "DCAF1\n",
      "ARAF\n",
      "ZNF674\n",
      "RIPOR3\n",
      "SEPTIN8\n",
      "OFD1\n",
      "FAM241A\n",
      "UHRF1\n",
      "ZBED1\n",
      "ZFP92\n",
      "PYCR3\n",
      "TRAPPC2\n",
      "QTRT2\n",
      "MCUB\n",
      "UBE2A\n",
      "TLNRD1\n",
      "ABITRAM\n",
      "GEMIN8\n",
      "PIP4P1\n",
      "MAP7D3\n",
      "POLA1\n",
      "MINDY3\n",
      "PCNX3\n",
      "SYP\n",
      "BAHCC1\n",
      "POGLUT3\n",
      "ARHGAP6\n",
      "CXorf56\n",
      "PAXX\n",
      "TUT4\n",
      "CCDC22\n",
      "RBMX2\n",
      "RPL10\n",
      "WASHC2C\n",
      "PRKX\n",
      "MAGEA2\n",
      "RBBP7\n",
      "CCNQ\n",
      "TOMM70\n",
      "ZNF718\n",
      "SPIN2B\n",
      "EIPR1\n",
      "FAM3A\n",
      "KHDC4\n",
      "JPT1\n",
      "UBL4A\n",
      "ARX\n",
      "CSTF2\n",
      "CSKMT\n",
      "SEBOX\n",
      "SELENOF\n",
      "FUNDC1\n",
      "SH3BGRL\n",
      "RTRAF\n",
      "ATP23\n",
      "TIMM8A\n",
      "GATA1\n",
      "GDI1\n",
      "WDR44\n",
      "HDAC6\n",
      "MPIG6B\n",
      "NAXD\n",
      "TENT4A\n",
      "SELENOI\n",
      "PIGA\n",
      "ARHGAP4\n",
      "LONRF3\n",
      "SLC25A53\n",
      "PCNX4\n",
      "GAB3\n",
      "PGRMC1\n",
      "SLC25A14\n",
      "CXorf38\n",
      "ILRUN\n",
      "WASHC2A\n",
      "XAGE1B\n",
      "ABCB7\n",
      "SMIM29\n",
      "ATP7A\n",
      "MCRIP2\n",
      "RHOXF1\n",
      "VBP1\n",
      "GK\n",
      "MTMR1\n",
      "IDS\n",
      "TFE3\n",
      "RPL39\n",
      "ESX1\n",
      "TLCD5\n",
      "DACH2\n",
      "VPS35L\n",
      "ABRAXAS1\n",
      "FLNA\n",
      "NXT2\n",
      "SLC9A6\n",
      "CUL4B\n",
      "NAA80\n",
      "DMAC2\n",
      "DHRSX\n",
      "TOGARAM1\n",
      "ERG28\n",
      "ATP6AP2\n",
      "WDCP\n",
      "VPS26C\n",
      "MAGEA9B\n",
      "BRWD3\n",
      "NDUFB11\n",
      "BCOR\n",
      "RHOXF2B\n",
      "ZMYM3\n",
      "RIPOR1\n",
      "RTL8A\n",
      "NECTIN2\n",
      "COX7B\n",
      "SELENOO\n",
      "FAM120C\n",
      "RBM10\n",
      "OTUD5\n",
      "ZNF275\n",
      "PIM2\n",
      "ZNF518A\n",
      "UQCRHL\n",
      "IRAK1\n",
      "GRK2\n",
      "ARMCX6\n",
      "FDX2\n",
      "FAM199X\n",
      "ARMCX5\n",
      "FOXO4\n",
      "SHFL\n",
      "TGIF2LY\n",
      "FAM92A\n",
      "ZFY\n",
      "PHF6\n",
      "RENBP\n",
      "HMGB3\n",
      "GNL3L\n",
      "ATP5PF\n",
      "FANCB\n",
      "PLCXD1\n",
      "MRNIP\n",
      "MACO1\n",
      "YIPF6\n",
      "CLIC2\n",
      "CAVIN1\n",
      "WAS\n",
      "SGO2\n",
      "PRELID3B\n",
      "SLC35A2\n",
      "KIF4A\n",
      "ZDHHC9\n",
      "RIOX1\n",
      "ATP5MPL\n",
      "MCRIP1\n",
      "SMARCA1\n",
      "ATP6AP1\n",
      "CETN2\n",
      "MRPL58\n",
      "ANTKMT\n",
      "TLE5\n",
      "ATP5MF\n",
      "APOOL\n",
      "GRK3\n",
      "ASMTL\n",
      "SELENOW\n",
      "GTPBP6\n",
      "KNL1\n",
      "GET3\n",
      "CERT1\n",
      "FAM50A\n",
      "RETREG3\n",
      "XIAP\n",
      "CIAO2B\n",
      "SYAP1\n",
      "KLF8\n",
      "ATP5PO\n",
      "ABRAXAS2\n",
      "WASHC4\n",
      "MAGEA6\n",
      "CYBC1\n",
      "CD24\n",
      "CZIB\n",
      "ATP11C\n",
      "ATP5MC3\n",
      "EEF1AKMT2\n",
      "AIFM1\n",
      "MRM2\n",
      "PIN4\n",
      "MRE11\n",
      "ATG4A\n",
      "TGIF2LX\n",
      "ZRSR2\n",
      "TBX22\n",
      "VCX\n",
      "UBA1\n",
      "FAM156A\n",
      "SLC38A5\n",
      "PCLAF\n",
      "BCAP31\n",
      "FOXP3\n",
      "ATP5MC2\n",
      "PASD1\n",
      "STMP1\n",
      "G6PD\n",
      "YJU2\n",
      "FGF13\n",
      "TAFA2\n",
      "WDR45\n",
      "INTS11\n",
      "GABRE\n",
      "SEPTIN11\n",
      "APOO\n",
      "DMD\n",
      "BUD23\n",
      "TRMT2B\n",
      "MTCP1\n",
      "TUT7\n",
      "BEX2\n",
      "RSKR\n",
      "DOCK11\n",
      "NSD3\n",
      "SMS\n",
      "NKRF\n",
      "SHOX\n",
      "SNX12\n",
      "ZNF875\n",
      "ATPSCKMT\n",
      "ZMAT1\n",
      "UFD1\n",
      "ZFX\n",
      "VMA21\n",
      "ZNRD2\n",
      "RESF1\n",
      "ATP5F1B\n",
      "PNPLA4\n",
      "ZXDB\n",
      "RTF2\n",
      "MRM3\n",
      "RBM3\n",
      "MTREX\n",
      "LAS1L\n",
      "MOSMO\n",
      "FMR1\n",
      "INTS13\n",
      "CASP8AP2\n",
      "ITPRID2\n",
      "COPS9\n",
      "TASOR2\n",
      "RNF113A\n",
      "EMD\n",
      "PACC1\n",
      "MINDY2\n",
      "IGBP1\n",
      "UPRT\n",
      "RLIM\n",
      "MFSD4B\n",
      "UTP11\n",
      "HNRNPH2\n",
      "MPP1\n",
      "SMIM10\n",
      "PSMD10\n",
      "SHLD1\n",
      "SAGE1\n",
      "PLPBP\n",
      "CT45A5\n",
      "SMC1A\n",
      "CMC4\n",
      "RBM41\n",
      "MAGEH1\n",
      "NSDHL\n",
      "SEC22B\n",
      "PRXL2A\n",
      "MED12\n",
      "CIAO2A\n",
      "NUP42\n",
      "RAB9A\n",
      "DDX3X\n",
      "VAMP7\n",
      "EBP\n",
      "TESMIN\n",
      "CHM\n",
      "ATP5PB\n",
      "MTRES1\n",
      "ARHGEF9\n",
      "SELENOS\n",
      "SPOUT1\n",
      "CD99L2\n",
      "NSD2\n",
      "C1GALT1C1\n",
      "PTPA\n",
      "TMEM164\n",
      "ZNF735\n",
      "RACK1\n",
      "SEPTIN9\n",
      "DYNLT3\n",
      "TSR2\n",
      "HCCS\n",
      "PPP2R3B\n",
      "WASHC3\n",
      "MAGEC2\n",
      "SLC25A5\n",
      "TBL1X\n",
      "FCGR2C\n",
      "PIR\n",
      "ECPAS\n",
      "RCC1L\n",
      "TAF1\n",
      "ELP1\n",
      "SPART\n",
      "AP1S2\n",
      "XK\n",
      "FNDC10\n",
      "DMAC1\n",
      "SCML2\n",
      "CCDC32\n",
      "PHKA2\n",
      "AKAP17A\n",
      "MAGT1\n",
      "RBIS\n",
      "SPPL2B\n",
      "SGO1\n",
      "ARHGEF6\n",
      "CIAO3\n",
      "FMC1\n",
      "FTSJ1\n",
      "FAM241B\n",
      "THOC2\n",
      "GON7\n",
      "SELENOH\n",
      "AMMECR1\n",
      "BTK\n",
      "MAGEA3\n",
      "NIPSNAP2\n",
      "HEXD\n",
      "POU3F4\n",
      "HDHD5\n",
      "GPKOW\n",
      "FOXR2\n",
      "CTAG2\n",
      "JRK\n",
      "SHLD2\n",
      "HMGN5\n",
      "SLC6A8\n",
      "TIMM17B\n",
      "UXT\n",
      "ZNF711\n",
      "TEDC2\n",
      "AOPEP\n",
      "ELF4\n",
      "TWNK\n",
      "TASOR\n",
      "F8A1\n",
      "OGA\n",
      "PRDX4\n",
      "KDM5C\n",
      "DIPK2A\n",
      "DGLUCY\n",
      "OBI1\n",
      "CDX4\n",
      "CFAP298\n",
      "HEPH\n",
      "SEPTIN5\n",
      "MICOS10\n",
      "ZNF761\n",
      "MTM1\n",
      "INKA2\n",
      "ACSL4\n",
      "ZNF75D\n",
      "IL13RA1\n",
      "YAE1\n",
      "RETREG2\n",
      "CENPI\n",
      "NKAP\n",
      "TENT4B\n",
      "USP9X\n",
      "ATP5IF1\n",
      "ODR4\n",
      "ZNF883\n",
      "ATP5F1A\n",
      "NDUFA1\n",
      "CXorf40A\n",
      "SPIN4\n",
      "REX1BD\n",
      "EIF2S3\n",
      "TMEM120A\n",
      "THAP12\n",
      "ERBIN\n",
      "ATP5MG\n",
      "JPT2\n",
      "C20orf203\n",
      "MIGA2\n",
      "NAA10\n",
      "ELK1\n",
      "GLA\n",
      "SRSF8\n",
      "HUWE1\n",
      "GLUD2\n",
      "ZNF81\n",
      "CIP2A\n",
      "PWWP3A\n",
      "TCEAL9\n",
      "SUV39H1\n",
      "COQ8B\n",
      "BABAM2\n",
      "LAGE3\n",
      "TAB3\n",
      "ZSCAN26\n",
      "SYTL4\n",
      "GET1\n",
      "PGK1\n",
      "ZNF41\n",
      "PRPS1\n",
      "ZNF888\n",
      "TMEM267\n",
      "ATP5F1C\n",
      "BEX4\n",
      "GATD1\n",
      "TIMM29\n",
      "SH3KBP1\n",
      "RAP2C\n",
      "PRXL2C\n",
      "NEPRO\n",
      "TRIR\n",
      "SOX3\n",
      "PHF8\n",
      "DELE1\n",
      "NOP53\n",
      "ZNF449\n",
      "ZXDA\n",
      "CBLL2\n",
      "APEX2\n",
      "RRAGB\n",
      "ZNF157\n",
      "MECP2\n",
      "ZBTB33\n",
      "OGT\n",
      "ENOX2\n",
      "ATP5PD\n",
      "PLSCR3\n",
      "MRTFA\n",
      "PRORP\n",
      "TEPSIN\n",
      "TENT2\n",
      "TYW1B\n",
      "SSX3\n",
      "ALAS2\n",
      "SLC10A3\n",
      "SRY\n",
      "RFLNB\n",
      "MICOS13\n",
      "LTO1\n",
      "MAGEA12\n",
      "ATP5F1E\n",
      "ENTR1\n",
      "LRMDA\n",
      "UTP25\n",
      "RTL10\n",
      "RIDA\n",
      "STN1\n",
      "UTP14A\n",
      "COP1\n",
      "CARMIL1\n",
      "SEPTIN2\n"
     ]
    },
    {
     "name": "stderr",
     "output_type": "stream",
     "text": [
      "\n"
     ]
    }
   ],
   "source": [
    "id2emb = {}\n",
    "for i in tqdm(pert_list_non_ctrl):\n",
    "    if i in gene2pops:\n",
    "        out = gene2pops[i]\n",
    "    elif (i in fix_gene) and (fix_gene[i] in gene2pops):\n",
    "        out = gene2pops[fix_gene[i]]\n",
    "    else:\n",
    "        print(i)\n",
    "        out = mean_pops\n",
    "    id2emb[i] = out"
   ]
  },
  {
   "cell_type": "code",
   "execution_count": 68,
   "metadata": {},
   "outputs": [],
   "source": [
    "pops_feat = np.stack([id2emb[i] for i in pert_list_non_ctrl])\n",
    "G = np.dot(pops_feat, pops_feat.T)"
   ]
  },
  {
   "cell_type": "code",
   "execution_count": 69,
   "metadata": {},
   "outputs": [],
   "source": [
    "save_kernel('pops_kernel', pert_list_non_ctrl, G, pops_feat)"
   ]
  },
  {
   "cell_type": "code",
   "execution_count": 70,
   "metadata": {},
   "outputs": [
    {
     "data": {
      "text/plain": [
       "9747"
      ]
     },
     "execution_count": 70,
     "metadata": {},
     "output_type": "execute_result"
    }
   ],
   "source": [
    "len(pert_list_non_ctrl)"
   ]
  },
  {
   "cell_type": "code",
   "execution_count": null,
   "metadata": {},
   "outputs": [],
   "source": []
  },
  {
   "cell_type": "markdown",
   "metadata": {},
   "source": [
    "## BioGPT kernel"
   ]
  },
  {
   "cell_type": "code",
   "execution_count": 71,
   "metadata": {},
   "outputs": [],
   "source": [
    "import pickle\n",
    "with open('/home/huangk28/scratch/knowledge_kernels/biogpt_emb/gene2biogpt.pkl', 'rb') as f:\n",
    "    gene2biogpt = pickle.load(f)"
   ]
  },
  {
   "cell_type": "code",
   "execution_count": 72,
   "metadata": {},
   "outputs": [],
   "source": [
    "pert_list = [i.split('+')[0] for i in df.index.values]\n",
    "pert_list_non_ctrl = [i for i in pert_list if i!= 'ctrl']\n",
    "biogpt_feat = np.stack([gene2biogpt[i] for i in pert_list_non_ctrl])\n",
    "G = np.dot(biogpt_feat, biogpt_feat.T)"
   ]
  },
  {
   "cell_type": "code",
   "execution_count": 73,
   "metadata": {},
   "outputs": [],
   "source": [
    "save_kernel('biogpt_kernel', pert_list_non_ctrl, G, biogpt_feat)"
   ]
  },
  {
   "cell_type": "markdown",
   "metadata": {},
   "source": []
  },
  {
   "cell_type": "markdown",
   "metadata": {},
   "source": [
    "# Node2Vec"
   ]
  },
  {
   "cell_type": "code",
   "execution_count": 74,
   "metadata": {},
   "outputs": [],
   "source": [
    "import pickle\n",
    "with open('/home/huangk28/scratch/knowledge_kernels/gears_emb/gene2gears_node2vec.pkl', 'rb') as f:\n",
    "    gene2node_vec = pickle.load(f)"
   ]
  },
  {
   "cell_type": "code",
   "execution_count": 75,
   "metadata": {},
   "outputs": [
    {
     "name": "stderr",
     "output_type": "stream",
     "text": [
      "100%|██████████| 1/1 [00:00<00:00, 21183.35it/s]\n"
     ]
    }
   ],
   "source": [
    "pert_list = [i.split('+')[0] for i in df.index.values]\n",
    "pert_list_non_ctrl = [i for i in pert_list if i!= 'ctrl']\n",
    "failed_genes = []\n",
    "gene2cond_name = {}\n",
    "for i in tqdm(np.setdiff1d(pert_list, list(gene2node_vec.keys()))):\n",
    "    if (i != 'ctrl'):\n",
    "        try:\n",
    "            gene2cond_name[i] = mg.getgenes(cond2gene_id[i+'+ctrl'])\n",
    "        except:\n",
    "            print(i)\n",
    "            failed_genes.append(i)\n",
    "fix_gene = {}\n",
    "for i,j in gene2cond_name.items():\n",
    "    if 'symbol' in j[0]:\n",
    "        fix_gene[i] = j[0]['symbol']\n",
    "    else:\n",
    "        failed_genes.append(i)"
   ]
  },
  {
   "cell_type": "code",
   "execution_count": 76,
   "metadata": {},
   "outputs": [],
   "source": [
    "mean_node2vec = np.mean(np.stack(gene2node_vec.values()), axis = 0)"
   ]
  },
  {
   "cell_type": "code",
   "execution_count": 77,
   "metadata": {},
   "outputs": [],
   "source": [
    "id2emb = {}\n",
    "for i in pert_list_non_ctrl:\n",
    "    if i in gene2node_vec:\n",
    "        id2emb[i] = gene2node_vec[i]\n",
    "    elif fix_gene[i] in gene2node_vec:\n",
    "        id2emb[i] = gene2node_vec[fix_gene[i]]\n",
    "    else:\n",
    "        print(i)\n",
    "        id2emb[i] = mean_node2vec"
   ]
  },
  {
   "cell_type": "code",
   "execution_count": 80,
   "metadata": {},
   "outputs": [],
   "source": [
    "node2vec_feat = np.stack([id2emb[i] for i in pert_list_non_ctrl])\n",
    "G = np.dot(node2vec_feat, node2vec_feat.T)\n",
    "save_kernel('node2vec_kernel', pert_list_non_ctrl, G, node2vec_feat)"
   ]
  },
  {
   "cell_type": "markdown",
   "metadata": {},
   "source": [
    "# Node2Vec on gears go-go graph"
   ]
  },
  {
   "cell_type": "code",
   "execution_count": 82,
   "metadata": {},
   "outputs": [
    {
     "name": "stderr",
     "output_type": "stream",
     "text": [
      "100%|██████████| 1/1 [00:00<00:00, 17924.38it/s]\n"
     ]
    }
   ],
   "source": [
    "import pickle\n",
    "with open('/home/huangk28/scratch/knowledge_kernels/gears_emb/gene2gears_node2vec.pkl', 'rb') as f:\n",
    "    gene2node_vec = pickle.load(f)\n",
    "pert_list = [i.split('+')[0] for i in df.index.values]\n",
    "pert_list_non_ctrl = [i for i in pert_list if i!= 'ctrl']\n",
    "\n",
    "gene2cond_name = {}\n",
    "for i in tqdm(np.setdiff1d(pert_list, list(gene2node_vec.keys()))):\n",
    "    if i != 'ctrl':\n",
    "        gene2cond_name[i] = mg.getgenes(cond2gene_id[i+'+ctrl'])\n",
    "fix_gene = {i: j[0]['symbol'] for i,j in gene2cond_name.items()}\n",
    "mean_node2vec = np.mean(np.stack(gene2node_vec.values()), axis = 0)\n",
    "id2emb = {}\n",
    "for i in pert_list_non_ctrl:\n",
    "    if i in gene2node_vec:\n",
    "        id2emb[i] = gene2node_vec[i]\n",
    "    elif fix_gene[i] in gene2node_vec:\n",
    "        id2emb[i] = gene2node_vec[fix_gene[i]]\n",
    "    else:\n",
    "        print(i)\n",
    "        id2emb[i] = mean_node2vec\n",
    "node2vec_feat = np.stack([id2emb[i] for i in pert_list_non_ctrl])\n",
    "G = np.dot(node2vec_feat, node2vec_feat.T)\n",
    "save_kernel('gears_kernel', pert_list_non_ctrl, G, node2vec_feat)"
   ]
  },
  {
   "cell_type": "code",
   "execution_count": null,
   "metadata": {},
   "outputs": [],
   "source": []
  },
  {
   "cell_type": "markdown",
   "metadata": {},
   "source": [
    "## OPS data"
   ]
  },
  {
   "cell_type": "code",
   "execution_count": 20,
   "metadata": {},
   "outputs": [
    {
     "name": "stderr",
     "output_type": "stream",
     "text": [
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      "INFO:biothings.client:done.\n",
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      "INFO:biothings.client:done.\n",
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      "INFO:biothings.client:done.\n",
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      "INFO:biothings.client:done.\n",
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      "INFO:biothings.client:done.\n",
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      "INFO:biothings.client:done.\n",
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      "INFO:biothings.client:done.\n",
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      "INFO:biothings.client:done.\n",
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      "INFO:biothings.client:done.\n",
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      "INFO:biothings.client:done.\n",
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      "INFO:biothings.client:done.\n",
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      "INFO:biothings.client:done.\n",
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      "INFO:biothings.client:done.\n",
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      "INFO:biothings.client:done.\n",
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      "INFO:biothings.client:done.\n",
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      "INFO:biothings.client:done.\n",
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      "INFO:biothings.client:done.\n",
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      "INFO:biothings.client:done.\n",
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      "INFO:biothings.client:done.\n",
      " 86%|████████▌ | 135/157 [02:27<00:25,  1.14s/it]INFO:biothings.client:querying 1-1...\n",
      "INFO:biothings.client:done.\n",
      " 87%|████████▋ | 136/157 [02:29<00:23,  1.13s/it]INFO:biothings.client:querying 1-1...\n",
      "INFO:biothings.client:done.\n",
      " 87%|████████▋ | 137/157 [02:30<00:22,  1.12s/it]INFO:biothings.client:querying 1-1...\n",
      "INFO:biothings.client:done.\n",
      " 88%|████████▊ | 138/157 [02:31<00:21,  1.11s/it]INFO:biothings.client:querying 1-1...\n",
      "INFO:biothings.client:done.\n",
      " 89%|████████▊ | 139/157 [02:32<00:19,  1.11s/it]INFO:biothings.client:querying 1-1...\n",
      "INFO:biothings.client:done.\n",
      " 89%|████████▉ | 140/157 [02:33<00:18,  1.10s/it]INFO:biothings.client:querying 1-1...\n",
      "INFO:biothings.client:done.\n",
      " 90%|████████▉ | 141/157 [02:34<00:17,  1.10s/it]INFO:biothings.client:querying 1-1...\n",
      "INFO:biothings.client:done.\n",
      " 90%|█████████ | 142/157 [02:35<00:16,  1.10s/it]INFO:biothings.client:querying 1-1...\n",
      "INFO:biothings.client:done.\n",
      " 91%|█████████ | 143/157 [02:36<00:15,  1.10s/it]INFO:biothings.client:querying 1-1...\n",
      "INFO:biothings.client:done.\n",
      " 92%|█████████▏| 144/157 [02:37<00:14,  1.10s/it]INFO:biothings.client:querying 1-1...\n",
      "INFO:biothings.client:done.\n",
      " 92%|█████████▏| 145/157 [02:38<00:13,  1.10s/it]INFO:biothings.client:querying 1-1...\n",
      "INFO:biothings.client:done.\n",
      " 93%|█████████▎| 146/157 [02:40<00:12,  1.10s/it]INFO:biothings.client:querying 1-1...\n",
      "INFO:biothings.client:done.\n",
      " 94%|█████████▎| 147/157 [02:41<00:10,  1.10s/it]INFO:biothings.client:querying 1-1...\n",
      "INFO:biothings.client:done.\n",
      " 94%|█████████▍| 148/157 [02:42<00:09,  1.10s/it]INFO:biothings.client:querying 1-1...\n",
      "INFO:biothings.client:done.\n",
      " 95%|█████████▍| 149/157 [02:43<00:08,  1.10s/it]INFO:biothings.client:querying 1-1...\n",
      "INFO:biothings.client:done.\n",
      " 96%|█████████▌| 150/157 [02:44<00:07,  1.10s/it]INFO:biothings.client:querying 1-1...\n",
      "INFO:biothings.client:done.\n",
      " 96%|█████████▌| 151/157 [02:45<00:06,  1.10s/it]INFO:biothings.client:querying 1-1...\n",
      "INFO:biothings.client:done.\n",
      " 97%|█████████▋| 152/157 [02:46<00:05,  1.10s/it]INFO:biothings.client:querying 1-1...\n",
      "INFO:biothings.client:done.\n",
      " 97%|█████████▋| 153/157 [02:47<00:04,  1.10s/it]INFO:biothings.client:querying 1-1...\n",
      "INFO:biothings.client:done.\n",
      " 98%|█████████▊| 154/157 [02:48<00:03,  1.10s/it]INFO:biothings.client:querying 1-1...\n",
      "INFO:biothings.client:done.\n",
      " 99%|█████████▊| 155/157 [02:49<00:02,  1.10s/it]INFO:biothings.client:querying 1-1...\n",
      "INFO:biothings.client:done.\n",
      "100%|██████████| 157/157 [02:51<00:00,  1.09s/it]\n"
     ]
    }
   ],
   "source": [
    "df = pd.read_csv('/home/huangk28/scratch/Profile_Aggregation/outputs/20200805_A549_WG_Screen_guide_normalized_feature_select_median_merged_ALLBATCHES___CP186___ALLWELLS_gene_aggregated.csv')\n",
    "df = df.set_index('Metadata_Foci_Barcode_MatchedTo_GeneCode')\n",
    "gene2ops = dict(zip(df.index.values,df.values))\n",
    "gene2cond_name = {}\n",
    "for i in tqdm(np.setdiff1d(pert_list, list(gene2ops.keys()))):\n",
    "    if i != 'ctrl':\n",
    "        try:\n",
    "            gene2cond_name[i] = mg.getgenes(cond2gene_id[i+'+ctrl'])\n",
    "        except:\n",
    "            gene2cond_name[i] = [{'symbol': i}]"
   ]
  },
  {
   "cell_type": "code",
   "execution_count": 21,
   "metadata": {},
   "outputs": [
    {
     "name": "stdout",
     "output_type": "stream",
     "text": [
      "ETFRF1\n",
      "VIRMA\n",
      "TLCD3A\n",
      "DIPK1B\n",
      "TMEM273\n",
      "CYREN\n",
      "PIP4P2\n",
      "NDUFAF8\n",
      "ATP5ME\n",
      "MESD\n",
      "SINHCAF\n",
      "CFAP410\n",
      "RAMAC\n",
      "SLC66A1\n",
      "SLC66A3\n",
      "DMAC2L\n",
      "TEDC1\n",
      "NKAPD1\n",
      "SELENOT\n",
      "DENND10\n",
      "RAB5IF\n",
      "ATP5F1D\n",
      "ATP5MD\n",
      "POGLUT2\n",
      "MMUT\n",
      "RO60\n",
      "CEMIP2\n",
      "SEPTIN1\n",
      "COA8\n",
      "SEPTIN7\n",
      "MARCH9\n",
      "SEPTIN6\n",
      "FAM174C\n",
      "SLC66A2\n",
      "SEPTIN8\n",
      "FAM241A\n",
      "TLNRD1\n",
      "ABITRAM\n",
      "PCNX3\n",
      "POGLUT3\n",
      "TUT4\n",
      "CCNQ\n",
      "EIPR1\n",
      "KHDC4\n",
      "MARCH3\n",
      "CSKMT\n",
      "SELENOF\n",
      "RTRAF\n",
      "ATP23\n",
      "MPIG6B\n",
      "TENT4A\n",
      "SELENOI\n",
      "ILRUN\n",
      "TLCD5\n",
      "VPS35L\n",
      "ABRAXAS1\n",
      "NAA80\n",
      "DMAC2\n",
      "MARCH6\n",
      "ERG28\n",
      "VPS26C\n",
      "GRK2\n",
      "FDX2\n",
      "SHFL\n",
      "ATP5PF\n",
      "MARCH7\n",
      "ATP5MPL\n",
      "MCRIP1\n",
      "ANTKMT\n",
      "TLE5\n",
      "ATP5MF\n",
      "SELENOW\n",
      "GET3\n",
      "CERT1\n",
      "CIAO2B\n",
      "ATP5PO\n",
      "CYBC1\n",
      "CZIB\n",
      "ATP5MC3\n",
      "PCLAF\n",
      "ATP5MC2\n",
      "STMP1\n",
      "TAFA2\n",
      "SEPTIN11\n",
      "TUT7\n",
      "RSKR\n",
      "ZNF875\n",
      "ATPSCKMT\n",
      "ZNRD2\n",
      "RESF1\n",
      "ATP5F1B\n",
      "MTREX\n",
      "MARCH8\n",
      "ITPRID2\n",
      "COPS9\n",
      "TASOR2\n",
      "PACC1\n",
      "UTP11\n",
      "SHLD1\n",
      "PLPBP\n",
      "PRXL2A\n",
      "CIAO2A\n",
      "NUP42\n",
      "ATP5PB\n",
      "MTRES1\n",
      "NSD2\n",
      "RACK1\n",
      "SEPTIN9\n",
      "FCGR2C\n",
      "ECPAS\n",
      "ELP1\n",
      "MARCH5\n",
      "RBIS\n",
      "CIAO3\n",
      "FAM241B\n",
      "GON7\n",
      "HEXD\n",
      "SHLD2\n",
      "AOPEP\n",
      "TASOR\n",
      "OGA\n",
      "DIPK2A\n",
      "DGLUCY\n",
      "OBI1\n",
      "CFAP298\n",
      "SEPTIN5\n",
      "MICOS10\n",
      "INKA2\n",
      "YAE1\n",
      "TENT4B\n",
      "ATP5IF1\n",
      "ODR4\n",
      "ATP5F1A\n",
      "REX1BD\n",
      "ATP5MG\n",
      "PWWP3A\n",
      "COQ8B\n",
      "GET1\n",
      "GATD1\n",
      "PRXL2C\n",
      "TRIR\n",
      "DELE1\n",
      "CBLL2\n",
      "ATP5PD\n",
      "MRTFA\n",
      "PRORP\n",
      "TEPSIN\n",
      "TENT2\n",
      "MICOS13\n",
      "LTO1\n",
      "ATP5F1E\n",
      "ENTR1\n",
      "UTP25\n",
      "RTL10\n",
      "SEPTIN2\n"
     ]
    }
   ],
   "source": [
    "fix_gene = {i: j[0]['symbol'] for i,j in gene2cond_name.items()}\n",
    "mean_ops = np.mean(np.stack(gene2ops.values()), axis = 0)\n",
    "id2emb = {}\n",
    "for i in pert_list_non_ctrl:\n",
    "    if i in gene2ops:\n",
    "        id2emb[i] = gene2ops[i]\n",
    "    elif fix_gene[i] in gene2ops:\n",
    "        id2emb[i] = gene2ops[fix_gene[i]]\n",
    "    else:\n",
    "        print(i)\n",
    "        id2emb[i] = mean_ops\n",
    "ops_feat = np.stack([id2emb[i] for i in pert_list_non_ctrl])\n",
    "G = np.dot(ops_feat, ops_feat.T)\n",
    "save_kernel('ops_A549_kernel', pert_list_non_ctrl, G, ops_feat)"
   ]
  },
  {
   "cell_type": "code",
   "execution_count": 12,
   "metadata": {},
   "outputs": [
    {
     "data": {
      "text/plain": [
       "{'CTSC+ctrl': 'ENSG00000109861',\n",
       " 'CWC25+ctrl': 'ENSG00000273559',\n",
       " 'PDE4DIP+ctrl': 'ENSG00000178104',\n",
       " 'ZZEF1+ctrl': 'ENSG00000074755',\n",
       " 'SNAPIN+ctrl': 'ENSG00000143553',\n",
       " 'RBM6+ctrl': 'ENSG00000004534',\n",
       " 'DHX33+ctrl': 'ENSG00000005100',\n",
       " 'KIF1C+ctrl': 'ENSG00000129250',\n",
       " 'XRCC2+ctrl': 'ENSG00000196584',\n",
       " 'BNIP2+ctrl': 'ENSG00000140299',\n",
       " 'HIKESHI+ctrl': 'ENSG00000149196',\n",
       " 'SELENOP+ctrl': 'ENSG00000250722',\n",
       " 'ZNF100+ctrl': 'ENSG00000197020',\n",
       " 'PRPSAP1+ctrl': 'ENSG00000161542',\n",
       " 'NUP98+ctrl': 'ENSG00000110713',\n",
       " 'FANCG+ctrl': 'ENSG00000221829',\n",
       " 'TMEM135+ctrl': 'ENSG00000166575',\n",
       " 'MEGF8+ctrl': 'ENSG00000105429',\n",
       " 'UPF2+ctrl': 'ENSG00000151461',\n",
       " 'FASTKD1+ctrl': 'ENSG00000138399',\n",
       " 'CYS1+ctrl': 'ENSG00000205795',\n",
       " 'GPS1+ctrl': 'ENSG00000169727',\n",
       " 'NAXE+ctrl': 'ENSG00000163382',\n",
       " 'NT5C3B+ctrl': 'ENSG00000141698',\n",
       " 'SNAPC4+ctrl': 'ENSG00000165684',\n",
       " 'MARS2+ctrl': 'ENSG00000247626',\n",
       " 'INO80B+ctrl': 'ENSG00000115274',\n",
       " 'VDAC2+ctrl': 'ENSG00000165637',\n",
       " 'ARG2+ctrl': 'ENSG00000081181',\n",
       " 'MFGE8+ctrl': 'ENSG00000140545',\n",
       " 'CMTR1+ctrl': 'ENSG00000137200',\n",
       " 'DNAJA1+ctrl': 'ENSG00000086061',\n",
       " 'TRAPPC13+ctrl': 'ENSG00000113597',\n",
       " 'MRPL52+ctrl': 'ENSG00000172590',\n",
       " 'CLEC11A+ctrl': 'ENSG00000105472',\n",
       " 'CUL3+ctrl': 'ENSG00000036257',\n",
       " 'PHRF1+ctrl': 'ENSG00000070047',\n",
       " 'ANO10+ctrl': 'ENSG00000160746',\n",
       " 'HCFC1R1+ctrl': 'ENSG00000103145',\n",
       " 'REST+ctrl': 'ENSG00000084093',\n",
       " 'GANAB+ctrl': 'ENSG00000089597',\n",
       " 'DCAF4+ctrl': 'ENSG00000119599',\n",
       " 'OR2A1+ctrl': 'ENSG00000221970',\n",
       " 'KEL+ctrl': 'ENSG00000197993',\n",
       " 'PLEKHA2+ctrl': 'ENSG00000169499',\n",
       " 'RHOC+ctrl': 'ENSG00000155366',\n",
       " 'ABCG1+ctrl': 'ENSG00000160179',\n",
       " 'TEAD2+ctrl': 'ENSG00000074219',\n",
       " 'KLC4+ctrl': 'ENSG00000137171',\n",
       " 'IRGQ+ctrl': 'ENSG00000167378',\n",
       " 'SOX8+ctrl': 'ENSG00000005513',\n",
       " 'ZNF677+ctrl': 'ENSG00000197928',\n",
       " 'FBF1+ctrl': 'ENSG00000188878',\n",
       " 'RHOG+ctrl': 'ENSG00000177105',\n",
       " 'TMEM127+ctrl': 'ENSG00000135956',\n",
       " 'TMEM131L+ctrl': 'ENSG00000121210',\n",
       " 'MYLIP+ctrl': 'ENSG00000007944',\n",
       " 'SEC14L1+ctrl': 'ENSG00000129657',\n",
       " 'TBX18+ctrl': 'ENSG00000112837',\n",
       " 'ADD1+ctrl': 'ENSG00000087274',\n",
       " 'ZBTB11+ctrl': 'ENSG00000066422',\n",
       " 'UBA5+ctrl': 'ENSG00000081307',\n",
       " 'RAD54L+ctrl': 'ENSG00000085999',\n",
       " 'FEV+ctrl': 'ENSG00000163497',\n",
       " 'ZNF440+ctrl': 'ENSG00000171295',\n",
       " 'TMEM150A+ctrl': 'ENSG00000168890',\n",
       " 'MAFK+ctrl': 'ENSG00000198517',\n",
       " 'FEZF2+ctrl': 'ENSG00000153266',\n",
       " 'TRMT2A+ctrl': 'ENSG00000099899',\n",
       " 'THOC7+ctrl': 'ENSG00000163634',\n",
       " 'PRPS2+ctrl': 'ENSG00000101911',\n",
       " 'PPP1R2+ctrl': 'ENSG00000184203',\n",
       " 'SLC25A12+ctrl': 'ENSG00000115840',\n",
       " 'ZBTB8A+ctrl': 'ENSG00000160062',\n",
       " 'TEF+ctrl': 'ENSG00000167074',\n",
       " 'LTV1+ctrl': 'ENSG00000135521',\n",
       " 'AHNAK+ctrl': 'ENSG00000124942',\n",
       " 'HOXB2+ctrl': 'ENSG00000173917',\n",
       " 'YBX1+ctrl': 'ENSG00000065978',\n",
       " 'GLCCI1+ctrl': 'ENSG00000106415',\n",
       " 'SRRM1+ctrl': 'ENSG00000133226',\n",
       " 'SNRPC+ctrl': 'ENSG00000124562',\n",
       " 'BTF3L4+ctrl': 'ENSG00000134717',\n",
       " 'PYCARD+ctrl': 'ENSG00000103490',\n",
       " 'PNP+ctrl': 'ENSG00000198805',\n",
       " 'SAR1A+ctrl': 'ENSG00000079332',\n",
       " 'FRYL+ctrl': 'ENSG00000075539',\n",
       " 'CEP85+ctrl': 'ENSG00000130695',\n",
       " 'FUNDC2+ctrl': 'ENSG00000165775',\n",
       " 'MKX+ctrl': 'ENSG00000150051',\n",
       " 'TAP2+ctrl': 'ENSG00000204267',\n",
       " 'ANKS6+ctrl': 'ENSG00000165138',\n",
       " 'ZNF813+ctrl': 'ENSG00000198346',\n",
       " 'KLF3+ctrl': 'ENSG00000109787',\n",
       " 'ALG5+ctrl': 'ENSG00000120697',\n",
       " 'ctrl': 'non-targeting',\n",
       " 'TSEN2+ctrl': 'ENSG00000154743',\n",
       " 'CERS4+ctrl': 'ENSG00000090661',\n",
       " 'FAM49B+ctrl': 'ENSG00000153310',\n",
       " 'PROSER2+ctrl': 'ENSG00000148426',\n",
       " 'VILL+ctrl': 'ENSG00000136059',\n",
       " 'ELP5+ctrl': 'ENSG00000170291',\n",
       " 'RELT+ctrl': 'ENSG00000054967',\n",
       " 'TTC33+ctrl': 'ENSG00000113638',\n",
       " 'RBM8A+ctrl': 'ENSG00000265241',\n",
       " 'MRPL18+ctrl': 'ENSG00000112110',\n",
       " 'EFNA3+ctrl': 'ENSG00000143590',\n",
       " 'HNRNPF+ctrl': 'ENSG00000169813',\n",
       " 'ZDHHC6+ctrl': 'ENSG00000023041',\n",
       " 'SCAF4+ctrl': 'ENSG00000156304',\n",
       " 'SFT2D1+ctrl': 'ENSG00000198818',\n",
       " 'HDX+ctrl': 'ENSG00000165259',\n",
       " 'PPP1R9B+ctrl': 'ENSG00000108819',\n",
       " 'PCCB+ctrl': 'ENSG00000114054',\n",
       " 'MOSPD3+ctrl': 'ENSG00000106330',\n",
       " 'BOLA1+ctrl': 'ENSG00000178096',\n",
       " 'PHF20L1+ctrl': 'ENSG00000129292',\n",
       " 'YWHAG+ctrl': 'ENSG00000170027',\n",
       " 'OLIG1+ctrl': 'ENSG00000184221',\n",
       " 'HAUS7+ctrl': 'ENSG00000213397',\n",
       " 'MTF1+ctrl': 'ENSG00000188786',\n",
       " 'ARF1+ctrl': 'ENSG00000143761',\n",
       " 'ARGLU1+ctrl': 'ENSG00000134884',\n",
       " 'RBM12B+ctrl': 'ENSG00000183808',\n",
       " 'CPD+ctrl': 'ENSG00000108582',\n",
       " 'PEPD+ctrl': 'ENSG00000124299',\n",
       " 'PINK1+ctrl': 'ENSG00000158828',\n",
       " 'YIF1A+ctrl': 'ENSG00000174851',\n",
       " 'WDFY3+ctrl': 'ENSG00000163625',\n",
       " 'CHMP6+ctrl': 'ENSG00000176108',\n",
       " 'SLC13A3+ctrl': 'ENSG00000158296',\n",
       " 'RIF1+ctrl': 'ENSG00000080345',\n",
       " 'MZT2B+ctrl': 'ENSG00000152082',\n",
       " 'MAK16+ctrl': 'ENSG00000198042',\n",
       " 'ARL6IP5+ctrl': 'ENSG00000144746',\n",
       " 'EIF2S2+ctrl': 'ENSG00000125977',\n",
       " 'OPLAH+ctrl': 'ENSG00000178814',\n",
       " 'ELP3+ctrl': 'ENSG00000134014',\n",
       " 'PEX6+ctrl': 'ENSG00000124587',\n",
       " 'COPG1+ctrl': 'ENSG00000181789',\n",
       " 'DYNLL1+ctrl': 'ENSG00000088986',\n",
       " 'CENPM+ctrl': 'ENSG00000100162',\n",
       " 'COL18A1+ctrl': 'ENSG00000182871',\n",
       " 'TFEB+ctrl': 'ENSG00000112561',\n",
       " 'ACSS2+ctrl': 'ENSG00000131069',\n",
       " 'LCE1E+ctrl': 'ENSG00000186226',\n",
       " 'ARVCF+ctrl': 'ENSG00000099889',\n",
       " 'METAP1+ctrl': 'ENSG00000164024',\n",
       " 'HSF1+ctrl': 'ENSG00000185122',\n",
       " 'USP48+ctrl': 'ENSG00000090686',\n",
       " 'FOXI3+ctrl': 'ENSG00000214336',\n",
       " 'ABCE1+ctrl': 'ENSG00000164163',\n",
       " 'CRY2+ctrl': 'ENSG00000121671',\n",
       " 'STAR+ctrl': 'ENSG00000147465',\n",
       " 'ERF+ctrl': 'ENSG00000105722',\n",
       " 'KPNA4+ctrl': 'ENSG00000186432',\n",
       " 'NSFL1C+ctrl': 'ENSG00000088833',\n",
       " 'MYO9B+ctrl': 'ENSG00000099331',\n",
       " 'GORASP1+ctrl': 'ENSG00000114745',\n",
       " 'SIX5+ctrl': 'ENSG00000177045',\n",
       " 'PIGV+ctrl': 'ENSG00000060642',\n",
       " 'DES+ctrl': 'ENSG00000175084',\n",
       " 'APH1B+ctrl': 'ENSG00000138613',\n",
       " 'ACOT13+ctrl': 'ENSG00000112304',\n",
       " 'KDM2B+ctrl': 'ENSG00000089094',\n",
       " 'PKN1+ctrl': 'ENSG00000123143',\n",
       " 'MGAT1+ctrl': 'ENSG00000131446',\n",
       " 'G6PC3+ctrl': 'ENSG00000141349',\n",
       " 'CIAO1+ctrl': 'ENSG00000144021',\n",
       " 'CCNG1+ctrl': 'ENSG00000113328',\n",
       " 'KIF3A+ctrl': 'ENSG00000131437',\n",
       " 'BRAF+ctrl': 'ENSG00000157764',\n",
       " 'TRIM13+ctrl': 'ENSG00000204977',\n",
       " 'OR2T29+ctrl': 'ENSG00000182783',\n",
       " 'SPATA22+ctrl': 'ENSG00000141255',\n",
       " 'DNAJC10+ctrl': 'ENSG00000077232',\n",
       " 'SLC19A2+ctrl': 'ENSG00000117479',\n",
       " 'NUP62CL+ctrl': 'ENSG00000198088',\n",
       " 'CENPC+ctrl': 'ENSG00000145241',\n",
       " 'FKRP+ctrl': 'ENSG00000181027',\n",
       " 'DYNC1LI2+ctrl': 'ENSG00000135720',\n",
       " 'CDKN2C+ctrl': 'ENSG00000123080',\n",
       " 'NFIX+ctrl': 'ENSG00000008441',\n",
       " 'MED22+ctrl': 'ENSG00000148297',\n",
       " 'FBXO4+ctrl': 'ENSG00000151876',\n",
       " 'APH1A+ctrl': 'ENSG00000117362',\n",
       " 'CD8B+ctrl': 'ENSG00000172116',\n",
       " 'TSR3+ctrl': 'ENSG00000007520',\n",
       " 'PTRH1+ctrl': 'ENSG00000187024',\n",
       " 'NUBP1+ctrl': 'ENSG00000103274',\n",
       " 'SERINC3+ctrl': 'ENSG00000132824',\n",
       " 'LYRM4+ctrl': 'ENSG00000214113',\n",
       " 'GET4+ctrl': 'ENSG00000239857',\n",
       " 'C2CD2L+ctrl': 'ENSG00000172375',\n",
       " 'RPUSD3+ctrl': 'ENSG00000156990',\n",
       " 'DDB2+ctrl': 'ENSG00000134574',\n",
       " 'FES+ctrl': 'ENSG00000182511',\n",
       " 'H2AFX+ctrl': 'ENSG00000188486',\n",
       " 'SREBF1+ctrl': 'ENSG00000072310',\n",
       " 'ETNK1+ctrl': 'ENSG00000139163',\n",
       " 'HDAC8+ctrl': 'ENSG00000147099',\n",
       " 'RAB40C+ctrl': 'ENSG00000197562',\n",
       " 'CCDC124+ctrl': 'ENSG00000007080',\n",
       " 'AIF1+ctrl': 'ENSG00000204472',\n",
       " 'MRTO4+ctrl': 'ENSG00000053372',\n",
       " 'CACYBP+ctrl': 'ENSG00000116161',\n",
       " 'CDK11B+ctrl': 'ENSG00000248333',\n",
       " 'ZNF460+ctrl': 'ENSG00000197714',\n",
       " 'PRRC2A+ctrl': 'ENSG00000204469',\n",
       " 'PTMA+ctrl': 'ENSG00000187514',\n",
       " 'TCEA2+ctrl': 'ENSG00000171703',\n",
       " 'ZNF300+ctrl': 'ENSG00000145908',\n",
       " 'MLX+ctrl': 'ENSG00000108788',\n",
       " 'CCDC61+ctrl': 'ENSG00000104983',\n",
       " 'PTPN11+ctrl': 'ENSG00000179295',\n",
       " 'NFRKB+ctrl': 'ENSG00000170322',\n",
       " 'TMEM170A+ctrl': 'ENSG00000166822',\n",
       " 'FBXO17+ctrl': 'ENSG00000269190',\n",
       " 'MBD3+ctrl': 'ENSG00000071655',\n",
       " 'AUP1+ctrl': 'ENSG00000115307',\n",
       " 'NUDT6+ctrl': 'ENSG00000170917',\n",
       " 'GGA3+ctrl': 'ENSG00000125447',\n",
       " 'TRAPPC11+ctrl': 'ENSG00000168538',\n",
       " 'UBR1+ctrl': 'ENSG00000159459',\n",
       " 'MYO16+ctrl': 'ENSG00000041515',\n",
       " 'ATXN3+ctrl': 'ENSG00000066427',\n",
       " 'MEIS2+ctrl': 'ENSG00000134138',\n",
       " 'ATXN7L3+ctrl': 'ENSG00000087152',\n",
       " 'STAU1+ctrl': 'ENSG00000124214',\n",
       " 'SALL3+ctrl': 'ENSG00000256463',\n",
       " 'NCOA7+ctrl': 'ENSG00000111912',\n",
       " 'TRIM37+ctrl': 'ENSG00000108395',\n",
       " 'ETFRF1+ctrl': 'ENSG00000205707',\n",
       " 'TMA7+ctrl': 'ENSG00000232112',\n",
       " 'SIGLEC14+ctrl': 'ENSG00000254415',\n",
       " 'OSGIN2+ctrl': 'ENSG00000164823',\n",
       " 'ZRANB2+ctrl': 'ENSG00000132485',\n",
       " 'N4BP2L2+ctrl': 'ENSG00000244754',\n",
       " 'CIR1+ctrl': 'ENSG00000138433',\n",
       " 'OGFOD3+ctrl': 'ENSG00000181396',\n",
       " 'TFAP2E+ctrl': 'ENSG00000116819',\n",
       " 'CABIN1+ctrl': 'ENSG00000099991',\n",
       " 'LIN28B+ctrl': 'ENSG00000187772',\n",
       " 'THUMPD3+ctrl': 'ENSG00000134077',\n",
       " 'MTOR+ctrl': 'ENSG00000198793',\n",
       " 'NOL9+ctrl': 'ENSG00000162408',\n",
       " 'USP13+ctrl': 'ENSG00000058056',\n",
       " 'FBXL14+ctrl': 'ENSG00000171823',\n",
       " 'SENP7+ctrl': 'ENSG00000138468',\n",
       " 'MCTS1+ctrl': 'ENSG00000232119',\n",
       " 'HSFX1+ctrl': 'ENSG00000171116',\n",
       " 'MYH9+ctrl': 'ENSG00000100345',\n",
       " 'NUP205+ctrl': 'ENSG00000155561',\n",
       " 'TSSK3+ctrl': 'ENSG00000162526',\n",
       " 'SIX2+ctrl': 'ENSG00000170577',\n",
       " 'SNAP47+ctrl': 'ENSG00000143740',\n",
       " 'ING2+ctrl': 'ENSG00000168556',\n",
       " 'VIRMA+ctrl': 'ENSG00000164944',\n",
       " 'SUN1+ctrl': 'ENSG00000164828',\n",
       " 'MRFAP1+ctrl': 'ENSG00000179010',\n",
       " 'CPNE1+ctrl': 'ENSG00000214078',\n",
       " 'FOXG1+ctrl': 'ENSG00000176165',\n",
       " 'CHMP2B+ctrl': 'ENSG00000083937',\n",
       " 'TTLL12+ctrl': 'ENSG00000100304',\n",
       " 'ZNF441+ctrl': 'ENSG00000197044',\n",
       " 'FBXW4+ctrl': 'ENSG00000107829',\n",
       " 'CHPF2+ctrl': 'ENSG00000033100',\n",
       " 'R3HDM2+ctrl': 'ENSG00000179912',\n",
       " 'MYCBP2+ctrl': 'ENSG00000005810',\n",
       " 'ZNF483+ctrl': 'ENSG00000173258',\n",
       " 'USP38+ctrl': 'ENSG00000170185',\n",
       " 'PCBD1+ctrl': 'ENSG00000166228',\n",
       " 'ACTB+ctrl': 'ENSG00000075624',\n",
       " 'PRADC1+ctrl': 'ENSG00000135617',\n",
       " 'SH3BP5L+ctrl': 'ENSG00000175137',\n",
       " 'EML2+ctrl': 'ENSG00000125746',\n",
       " 'ZBTB32+ctrl': 'ENSG00000011590',\n",
       " 'ZNF676+ctrl': 'ENSG00000196109',\n",
       " 'EZR+ctrl': 'ENSG00000092820',\n",
       " 'MRPS5+ctrl': 'ENSG00000144029',\n",
       " 'HSPA5+ctrl': 'ENSG00000044574',\n",
       " 'LTBP4+ctrl': 'ENSG00000090006',\n",
       " 'DMPK+ctrl': 'ENSG00000104936',\n",
       " 'ACER3+ctrl': 'ENSG00000078124',\n",
       " 'TMEM50A+ctrl': 'ENSG00000183726',\n",
       " 'IFITM1+ctrl': 'ENSG00000185885',\n",
       " 'TSPAN31+ctrl': 'ENSG00000135452',\n",
       " 'PCBP2+ctrl': 'ENSG00000197111',\n",
       " 'C9orf16+ctrl': 'ENSG00000171159',\n",
       " 'ZHX2+ctrl': 'ENSG00000178764',\n",
       " 'LBX1+ctrl': 'ENSG00000138136',\n",
       " 'ASF1B+ctrl': 'ENSG00000105011',\n",
       " 'NPAS4+ctrl': 'ENSG00000174576',\n",
       " 'ZNF816+ctrl': 'ENSG00000180257',\n",
       " 'COMMD10+ctrl': 'ENSG00000145781',\n",
       " 'CFL2+ctrl': 'ENSG00000165410',\n",
       " 'DLG5+ctrl': 'ENSG00000151208',\n",
       " 'COQ4+ctrl': 'ENSG00000167113',\n",
       " 'MSN+ctrl': 'ENSG00000147065',\n",
       " 'RPS24+ctrl': 'ENSG00000138326',\n",
       " 'ZNF853+ctrl': 'ENSG00000236609',\n",
       " 'SMAP2+ctrl': 'ENSG00000084070',\n",
       " 'LARP4+ctrl': 'ENSG00000161813',\n",
       " 'E2F7+ctrl': 'ENSG00000165891',\n",
       " 'ACAT2+ctrl': 'ENSG00000120437',\n",
       " 'DLX2+ctrl': 'ENSG00000115844',\n",
       " 'ADORA2B+ctrl': 'ENSG00000170425',\n",
       " 'TADA3+ctrl': 'ENSG00000171148',\n",
       " 'SLC2A3+ctrl': 'ENSG00000059804',\n",
       " 'RBMXL1+ctrl': 'ENSG00000213516',\n",
       " 'BRAT1+ctrl': 'ENSG00000106009',\n",
       " 'MORF4L2+ctrl': 'ENSG00000123562',\n",
       " 'SORBS3+ctrl': 'ENSG00000120896',\n",
       " 'ZNF182+ctrl': 'ENSG00000147118',\n",
       " 'VPS18+ctrl': 'ENSG00000104142',\n",
       " 'EPB41L2+ctrl': 'ENSG00000079819',\n",
       " 'PTPRF+ctrl': 'ENSG00000142949',\n",
       " 'CLPB+ctrl': 'ENSG00000162129',\n",
       " 'ID3+ctrl': 'ENSG00000117318',\n",
       " 'IFI30+ctrl': 'ENSG00000216490',\n",
       " 'PANK4+ctrl': 'ENSG00000157881',\n",
       " 'C9orf78+ctrl': 'ENSG00000136819',\n",
       " 'ZNF354A+ctrl': 'ENSG00000169131',\n",
       " 'TMEM242+ctrl': 'ENSG00000215712',\n",
       " 'DDA1+ctrl': 'ENSG00000130311',\n",
       " 'CXCL2+ctrl': 'ENSG00000081041',\n",
       " 'ITGB5+ctrl': 'ENSG00000082781',\n",
       " 'DDX55+ctrl': 'ENSG00000111364',\n",
       " 'ANP32E+ctrl': 'ENSG00000143401',\n",
       " 'NT5C2+ctrl': 'ENSG00000076685',\n",
       " 'RPS4X+ctrl': 'ENSG00000198034',\n",
       " 'C19orf25+ctrl': 'ENSG00000119559',\n",
       " 'CDK6+ctrl': 'ENSG00000105810',\n",
       " 'TMSB10+ctrl': 'ENSG00000034510',\n",
       " 'IPO9+ctrl': 'ENSG00000198700',\n",
       " 'HOXC4+ctrl': 'ENSG00000198353',\n",
       " 'CCDC169+ctrl': 'ENSG00000242715',\n",
       " 'CNN1+ctrl': 'ENSG00000130176',\n",
       " 'PHLDB1+ctrl': 'ENSG00000019144',\n",
       " 'LURAP1+ctrl': 'ENSG00000171357',\n",
       " 'GEMIN7+ctrl': 'ENSG00000142252',\n",
       " 'FZD5+ctrl': 'ENSG00000163251',\n",
       " 'VPS13D+ctrl': 'ENSG00000048707',\n",
       " 'ASF1A+ctrl': 'ENSG00000111875',\n",
       " 'AGAP1+ctrl': 'ENSG00000157985',\n",
       " 'SDHC+ctrl': 'ENSG00000143252',\n",
       " 'SH2D2A+ctrl': 'ENSG00000027869',\n",
       " 'C1orf109+ctrl': 'ENSG00000116922',\n",
       " 'SLC33A1+ctrl': 'ENSG00000169359',\n",
       " 'CAPG+ctrl': 'ENSG00000042493',\n",
       " 'ZNF304+ctrl': 'ENSG00000131845',\n",
       " 'WDR13+ctrl': 'ENSG00000101940',\n",
       " 'MCM2+ctrl': 'ENSG00000073111',\n",
       " 'PCID2+ctrl': 'ENSG00000126226',\n",
       " 'ZNF416+ctrl': 'ENSG00000083817',\n",
       " 'LRG1+ctrl': 'ENSG00000171236',\n",
       " 'WDR37+ctrl': 'ENSG00000047056',\n",
       " 'MRPL20+ctrl': 'ENSG00000242485',\n",
       " 'CSK+ctrl': 'ENSG00000103653',\n",
       " 'RASSF5+ctrl': 'ENSG00000266094',\n",
       " 'ERN1+ctrl': 'ENSG00000178607',\n",
       " 'CD3D+ctrl': 'ENSG00000167286',\n",
       " 'ZNF565+ctrl': 'ENSG00000196357',\n",
       " 'PRKD2+ctrl': 'ENSG00000105287',\n",
       " 'MCM8+ctrl': 'ENSG00000125885',\n",
       " 'PCM1+ctrl': 'ENSG00000078674',\n",
       " 'LIN37+ctrl': 'ENSG00000267796',\n",
       " 'OR7A10+ctrl': 'ENSG00000127515',\n",
       " 'MESP1+ctrl': 'ENSG00000166823',\n",
       " 'CORO1B+ctrl': 'ENSG00000172725',\n",
       " 'HOXC13+ctrl': 'ENSG00000123364',\n",
       " 'HIST1H4I+ctrl': 'ENSG00000276180',\n",
       " 'RYK+ctrl': 'ENSG00000163785',\n",
       " 'CAMKMT+ctrl': 'ENSG00000143919',\n",
       " 'ERI3+ctrl': 'ENSG00000117419',\n",
       " 'MTFR2+ctrl': 'ENSG00000146410',\n",
       " 'CENPV+ctrl': 'ENSG00000166582',\n",
       " 'KTN1+ctrl': 'ENSG00000126777',\n",
       " 'IGHMBP2+ctrl': 'ENSG00000132740',\n",
       " 'TMEM243+ctrl': 'ENSG00000135185',\n",
       " 'RPL3+ctrl': 'ENSG00000100316',\n",
       " 'DDX17+ctrl': 'ENSG00000100201',\n",
       " 'HMGB1+ctrl': 'ENSG00000189403',\n",
       " 'FAHD2A+ctrl': 'ENSG00000115042',\n",
       " 'B3GALNT2+ctrl': 'ENSG00000162885',\n",
       " 'METTL7A+ctrl': 'ENSG00000185432',\n",
       " 'GTF2F1+ctrl': 'ENSG00000125651',\n",
       " 'SSX4+ctrl': 'ENSG00000268009',\n",
       " 'RAP1GAP+ctrl': 'ENSG00000076864',\n",
       " 'INTS14+ctrl': 'ENSG00000138614',\n",
       " 'DBF4+ctrl': 'ENSG00000006634',\n",
       " 'FOLR3+ctrl': 'ENSG00000110203',\n",
       " 'ARHGEF18+ctrl': 'ENSG00000104880',\n",
       " 'OLFML3+ctrl': 'ENSG00000116774',\n",
       " 'PRRC1+ctrl': 'ENSG00000164244',\n",
       " 'SMARCD3+ctrl': 'ENSG00000082014',\n",
       " 'PLBD2+ctrl': 'ENSG00000151176',\n",
       " 'TMED5+ctrl': 'ENSG00000117500',\n",
       " 'WDR4+ctrl': 'ENSG00000160193',\n",
       " 'FLII+ctrl': 'ENSG00000177731',\n",
       " 'ZFAND2B+ctrl': 'ENSG00000158552',\n",
       " 'LARP1+ctrl': 'ENSG00000155506',\n",
       " 'KRR1+ctrl': 'ENSG00000111615',\n",
       " 'UBXN2A+ctrl': 'ENSG00000173960',\n",
       " 'ALG13+ctrl': 'ENSG00000101901',\n",
       " 'KIAA1522+ctrl': 'ENSG00000162522',\n",
       " 'FOXD3+ctrl': 'ENSG00000187140',\n",
       " 'EIF4EBP1+ctrl': 'ENSG00000187840',\n",
       " 'KCNH2+ctrl': 'ENSG00000055118',\n",
       " 'KIAA1143+ctrl': 'ENSG00000163807',\n",
       " 'ECI1+ctrl': 'ENSG00000167969',\n",
       " 'STRN+ctrl': 'ENSG00000115808',\n",
       " 'NEK2+ctrl': 'ENSG00000117650',\n",
       " 'WDHD1+ctrl': 'ENSG00000198554',\n",
       " 'SFXN5+ctrl': 'ENSG00000144040',\n",
       " 'GNG7+ctrl': 'ENSG00000176533',\n",
       " 'MAT2B+ctrl': 'ENSG00000038274',\n",
       " 'AGBL5+ctrl': 'ENSG00000084693',\n",
       " 'SNX33+ctrl': 'ENSG00000173548',\n",
       " 'ZNF507+ctrl': 'ENSG00000168813',\n",
       " 'YY2+ctrl': 'ENSG00000230797',\n",
       " 'TSTD2+ctrl': 'ENSG00000136925',\n",
       " 'MTMR9+ctrl': 'ENSG00000104643',\n",
       " 'TEAD3+ctrl': 'ENSG00000007866',\n",
       " 'FNIP1+ctrl': 'ENSG00000217128',\n",
       " 'MAP2K5+ctrl': 'ENSG00000137764',\n",
       " 'AEBP1+ctrl': 'ENSG00000106624',\n",
       " 'TLCD3A+ctrl': 'ENSG00000167695',\n",
       " 'POU5F1+ctrl': 'ENSG00000204531',\n",
       " 'HOXB8+ctrl': 'ENSG00000120068',\n",
       " 'SLC35F6+ctrl': 'ENSG00000213699',\n",
       " 'SRF+ctrl': 'ENSG00000112658',\n",
       " 'RARA+ctrl': 'ENSG00000131759',\n",
       " 'CSRP1+ctrl': 'ENSG00000159176',\n",
       " 'ST3GAL4+ctrl': 'ENSG00000110080',\n",
       " 'VPS36+ctrl': 'ENSG00000136100',\n",
       " 'ZNF773+ctrl': 'ENSG00000152439',\n",
       " 'FMR1NB+ctrl': 'ENSG00000176988',\n",
       " 'CHMP5+ctrl': 'ENSG00000086065',\n",
       " 'IFNGR2+ctrl': 'ENSG00000159128',\n",
       " 'ZNF207+ctrl': 'ENSG00000010244',\n",
       " 'PLD1+ctrl': 'ENSG00000075651',\n",
       " 'ZFP69+ctrl': 'ENSG00000187815',\n",
       " 'MRPS18C+ctrl': 'ENSG00000163319',\n",
       " 'JAK1+ctrl': 'ENSG00000162434',\n",
       " 'CDKN2AIPNL+ctrl': 'ENSG00000237190',\n",
       " 'ZKSCAN1+ctrl': 'ENSG00000106261',\n",
       " 'CDC14B+ctrl': 'ENSG00000081377',\n",
       " 'RASSF7+ctrl': 'ENSG00000099849',\n",
       " 'DIPK1B+ctrl': 'ENSG00000165716',\n",
       " 'INPP5E+ctrl': 'ENSG00000148384',\n",
       " 'ZFP82+ctrl': 'ENSG00000181007',\n",
       " 'MED28+ctrl': 'ENSG00000118579',\n",
       " 'G0S2+ctrl': 'ENSG00000123689',\n",
       " 'SMAD9+ctrl': 'ENSG00000120693',\n",
       " 'XPO1+ctrl': 'ENSG00000082898',\n",
       " 'NAA25+ctrl': 'ENSG00000111300',\n",
       " 'LHX3+ctrl': 'ENSG00000107187',\n",
       " 'DNTTIP1+ctrl': 'ENSG00000101457',\n",
       " 'FABP5+ctrl': 'ENSG00000164687',\n",
       " 'USP32+ctrl': 'ENSG00000170832',\n",
       " 'OGFOD1+ctrl': 'ENSG00000087263',\n",
       " 'NDUFA2+ctrl': 'ENSG00000131495',\n",
       " 'CLSTN1+ctrl': 'ENSG00000171603',\n",
       " 'CERS6+ctrl': 'ENSG00000172292',\n",
       " 'ZNF433+ctrl': 'ENSG00000197647',\n",
       " 'MAEA+ctrl': 'ENSG00000090316',\n",
       " 'SGTB+ctrl': 'ENSG00000197860',\n",
       " 'SLC31A1+ctrl': 'ENSG00000136868',\n",
       " 'ATP6V1D+ctrl': 'ENSG00000100554',\n",
       " 'TMEM273+ctrl': 'ENSG00000204161',\n",
       " 'LETM1+ctrl': 'ENSG00000168924',\n",
       " 'EEF1G+ctrl': 'ENSG00000254772',\n",
       " 'MRPS6+ctrl': 'ENSG00000243927',\n",
       " 'SMIM14+ctrl': 'ENSG00000163683',\n",
       " 'CD33+ctrl': 'ENSG00000105383',\n",
       " 'RPUSD4+ctrl': 'ENSG00000165526',\n",
       " 'SLC12A5+ctrl': 'ENSG00000124140',\n",
       " 'LSM2+ctrl': 'ENSG00000204392',\n",
       " 'CPT1A+ctrl': 'ENSG00000110090',\n",
       " 'CLSPN+ctrl': 'ENSG00000092853',\n",
       " 'CYREN+ctrl': 'ENSG00000122783',\n",
       " 'TMEM69+ctrl': 'ENSG00000159596',\n",
       " 'DEDD+ctrl': 'ENSG00000158796',\n",
       " 'RPL11+ctrl': 'ENSG00000142676',\n",
       " 'STRADB+ctrl': 'ENSG00000082146',\n",
       " 'KLF4+ctrl': 'ENSG00000136826',\n",
       " 'ENY2+ctrl': 'ENSG00000120533',\n",
       " 'YPEL1+ctrl': 'ENSG00000100027',\n",
       " 'FDFT1+ctrl': 'ENSG00000079459',\n",
       " 'YIPF1+ctrl': 'ENSG00000058799',\n",
       " 'ZNF251+ctrl': 'ENSG00000198169',\n",
       " 'TECPR1+ctrl': 'ENSG00000205356',\n",
       " 'POP4+ctrl': 'ENSG00000105171',\n",
       " 'NUCKS1+ctrl': 'ENSG00000069275',\n",
       " 'EPB41L5+ctrl': 'ENSG00000115109',\n",
       " 'DMWD+ctrl': 'ENSG00000185800',\n",
       " 'CACUL1+ctrl': 'ENSG00000151893',\n",
       " 'MKKS+ctrl': 'ENSG00000125863',\n",
       " 'TSPAN32+ctrl': 'ENSG00000064201',\n",
       " 'ZNF226+ctrl': 'ENSG00000167380',\n",
       " 'EPOP+ctrl': 'ENSG00000273604',\n",
       " 'RPP30+ctrl': 'ENSG00000148688',\n",
       " 'MRC2+ctrl': 'ENSG00000011028',\n",
       " 'ZFP42+ctrl': 'ENSG00000179059',\n",
       " 'ZFP30+ctrl': 'ENSG00000120784',\n",
       " 'PCTP+ctrl': 'ENSG00000141179',\n",
       " 'ACOT7+ctrl': 'ENSG00000097021',\n",
       " 'HBA2+ctrl': 'ENSG00000188536',\n",
       " 'PSMB7+ctrl': 'ENSG00000136930',\n",
       " 'GMPPB+ctrl': 'ENSG00000173540',\n",
       " 'NUMA1+ctrl': 'ENSG00000137497',\n",
       " 'HIPK2+ctrl': 'ENSG00000064393',\n",
       " 'RBL2+ctrl': 'ENSG00000103479',\n",
       " 'NCAPH+ctrl': 'ENSG00000121152',\n",
       " 'MXRA7+ctrl': 'ENSG00000182534',\n",
       " 'NKX2-6+ctrl': 'ENSG00000180053',\n",
       " 'RXYLT1+ctrl': 'ENSG00000118600',\n",
       " 'FAM193B+ctrl': 'ENSG00000146067',\n",
       " 'GALNT1+ctrl': 'ENSG00000141429',\n",
       " 'ZNF496+ctrl': 'ENSG00000162714',\n",
       " 'NMNAT1+ctrl': 'ENSG00000173614',\n",
       " 'TMEM214+ctrl': 'ENSG00000119777',\n",
       " 'STARD10+ctrl': 'ENSG00000214530',\n",
       " 'ZFYVE21+ctrl': 'ENSG00000100711',\n",
       " 'SNRNP25+ctrl': 'ENSG00000161981',\n",
       " 'CCNK+ctrl': 'ENSG00000090061',\n",
       " 'GPBP1L1+ctrl': 'ENSG00000159592',\n",
       " 'HOXA10+ctrl': 'ENSG00000253293',\n",
       " 'ITM2C+ctrl': 'ENSG00000135916',\n",
       " 'GSN+ctrl': 'ENSG00000148180',\n",
       " 'NSMCE2+ctrl': 'ENSG00000156831',\n",
       " 'RNF19A+ctrl': 'ENSG00000034677',\n",
       " 'SCAND1+ctrl': 'ENSG00000171222',\n",
       " 'ABCA7+ctrl': 'ENSG00000064687',\n",
       " 'RPL22+ctrl': 'ENSG00000116251',\n",
       " 'HPRT1+ctrl': 'ENSG00000165704',\n",
       " 'PGRMC2+ctrl': 'ENSG00000164040',\n",
       " 'HSF2+ctrl': 'ENSG00000025156',\n",
       " 'DENR+ctrl': 'ENSG00000139726',\n",
       " 'MRPL2+ctrl': 'ENSG00000112651',\n",
       " 'ARNTL2+ctrl': 'ENSG00000029153',\n",
       " 'SALL2+ctrl': 'ENSG00000165821',\n",
       " 'FADS2+ctrl': 'ENSG00000134824',\n",
       " 'HACE1+ctrl': 'ENSG00000085382',\n",
       " 'PTGES2+ctrl': 'ENSG00000148334',\n",
       " 'NEDD8-MDP1+ctrl': nan,\n",
       " 'PLEKHF2+ctrl': 'ENSG00000175895',\n",
       " 'ZNF555+ctrl': 'ENSG00000186300',\n",
       " 'CITED1+ctrl': 'ENSG00000125931',\n",
       " 'SSX1+ctrl': 'ENSG00000126752',\n",
       " 'HIST2H3D+ctrl': 'ENSG00000183598',\n",
       " 'DCTN6+ctrl': 'ENSG00000104671',\n",
       " 'CLEC16A+ctrl': 'ENSG00000038532',\n",
       " 'PDXK+ctrl': 'ENSG00000160209',\n",
       " 'USP5+ctrl': 'ENSG00000111667',\n",
       " 'PSTPIP2+ctrl': 'ENSG00000152229',\n",
       " 'CRYAB+ctrl': 'ENSG00000109846',\n",
       " 'ARF6+ctrl': 'ENSG00000165527',\n",
       " 'PMAIP1+ctrl': 'ENSG00000141682',\n",
       " 'ZNF865+ctrl': 'ENSG00000261221',\n",
       " 'LST1+ctrl': 'ENSG00000204482',\n",
       " 'APC+ctrl': 'ENSG00000134982',\n",
       " 'LRP5+ctrl': 'ENSG00000162337',\n",
       " 'PPM1G+ctrl': 'ENSG00000115241',\n",
       " 'SPATA33+ctrl': 'ENSG00000167523',\n",
       " 'RB1+ctrl': 'ENSG00000139687',\n",
       " 'LRP12+ctrl': 'ENSG00000147650',\n",
       " 'RPL12+ctrl': 'ENSG00000197958',\n",
       " 'POTEI+ctrl': 'ENSG00000196834',\n",
       " 'ZNF385A+ctrl': 'ENSG00000161642',\n",
       " 'ZUP1+ctrl': 'ENSG00000153975',\n",
       " 'SCO1+ctrl': 'ENSG00000133028',\n",
       " 'FAXDC2+ctrl': 'ENSG00000170271',\n",
       " 'MRPS30+ctrl': 'ENSG00000112996',\n",
       " 'CENPB+ctrl': 'ENSG00000125817',\n",
       " 'NCR3LG1+ctrl': 'ENSG00000188211',\n",
       " 'TJP1+ctrl': 'ENSG00000104067',\n",
       " 'ZNF528+ctrl': 'ENSG00000167555',\n",
       " 'METTL2A+ctrl': 'ENSG00000087995',\n",
       " 'GUF1+ctrl': 'ENSG00000151806',\n",
       " 'MRPL50+ctrl': 'ENSG00000136897',\n",
       " 'SLC40A1+ctrl': 'ENSG00000138449',\n",
       " 'ICMT+ctrl': 'ENSG00000116237',\n",
       " 'ICAM5+ctrl': 'ENSG00000105376',\n",
       " 'CREG1+ctrl': 'ENSG00000143162',\n",
       " 'RNF103+ctrl': 'ENSG00000239305',\n",
       " 'SIPA1+ctrl': 'ENSG00000213445',\n",
       " 'STAG2+ctrl': 'ENSG00000101972',\n",
       " 'COTL1+ctrl': 'ENSG00000103187',\n",
       " 'KYAT3+ctrl': 'ENSG00000137944',\n",
       " 'TNFAIP8L1+ctrl': 'ENSG00000185361',\n",
       " 'HECTD1+ctrl': 'ENSG00000092148',\n",
       " 'TSSC4+ctrl': 'ENSG00000184281',\n",
       " 'STIM2+ctrl': 'ENSG00000109689',\n",
       " 'APLP2+ctrl': 'ENSG00000084234',\n",
       " 'WDR20+ctrl': 'ENSG00000140153',\n",
       " 'SLC25A20+ctrl': 'ENSG00000178537',\n",
       " 'RFX8+ctrl': 'ENSG00000196460',\n",
       " 'POFUT2+ctrl': 'ENSG00000186866',\n",
       " 'UCHL5+ctrl': 'ENSG00000116750',\n",
       " 'FBXO7+ctrl': 'ENSG00000100225',\n",
       " 'SNRPA1+ctrl': 'ENSG00000131876',\n",
       " 'COX20+ctrl': 'ENSG00000203667',\n",
       " 'EID2+ctrl': 'ENSG00000176396',\n",
       " 'ATXN7+ctrl': 'ENSG00000163635',\n",
       " 'PIP4P2+ctrl': 'ENSG00000155099',\n",
       " 'STUB1+ctrl': 'ENSG00000103266',\n",
       " 'DDX50+ctrl': 'ENSG00000107625',\n",
       " 'NDUFAF8+ctrl': 'ENSG00000224877',\n",
       " 'SELENOK+ctrl': 'ENSG00000113811',\n",
       " 'UCKL1+ctrl': 'ENSG00000198276',\n",
       " 'ZNF358+ctrl': 'ENSG00000198816',\n",
       " 'CAPZA1+ctrl': 'ENSG00000116489',\n",
       " 'ZNF765+ctrl': 'ENSG00000196417',\n",
       " 'RNF141+ctrl': 'ENSG00000110315',\n",
       " 'CLIC1+ctrl': 'ENSG00000213719',\n",
       " 'FAM117A+ctrl': 'ENSG00000121104',\n",
       " 'ADRM1+ctrl': 'ENSG00000130706',\n",
       " 'IAH1+ctrl': 'ENSG00000134330',\n",
       " 'TAF1C+ctrl': 'ENSG00000103168',\n",
       " 'MED14+ctrl': 'ENSG00000180182',\n",
       " 'AR+ctrl': 'ENSG00000169083',\n",
       " 'ATP5ME+ctrl': 'ENSG00000169020',\n",
       " 'WBP1L+ctrl': 'ENSG00000166272',\n",
       " 'PMPCB+ctrl': 'ENSG00000105819',\n",
       " 'SRI+ctrl': 'ENSG00000075142',\n",
       " 'CCDC136+ctrl': 'ENSG00000128596',\n",
       " 'ZSCAN5B+ctrl': 'ENSG00000197213',\n",
       " 'MALSU1+ctrl': 'ENSG00000156928',\n",
       " 'ZFAT+ctrl': 'ENSG00000066827',\n",
       " 'TBXT+ctrl': 'ENSG00000164458',\n",
       " 'UNC13D+ctrl': 'ENSG00000092929',\n",
       " 'ESR1+ctrl': 'ENSG00000091831',\n",
       " 'HAGH+ctrl': 'ENSG00000063854',\n",
       " 'DNAJB9+ctrl': 'ENSG00000128590',\n",
       " 'ORC1+ctrl': 'ENSG00000085840',\n",
       " 'AMBRA1+ctrl': 'ENSG00000110497',\n",
       " 'DEPDC1+ctrl': 'ENSG00000024526',\n",
       " 'NELFB+ctrl': 'ENSG00000188986',\n",
       " 'TPR+ctrl': 'ENSG00000047410',\n",
       " 'FNBP4+ctrl': 'ENSG00000109920',\n",
       " 'PER3+ctrl': 'ENSG00000049246',\n",
       " 'C11orf1+ctrl': 'ENSG00000137720',\n",
       " 'FDXR+ctrl': 'ENSG00000161513',\n",
       " 'GEMIN2+ctrl': 'ENSG00000092208',\n",
       " 'PTK2B+ctrl': 'ENSG00000120899',\n",
       " 'KIF14+ctrl': 'ENSG00000118193',\n",
       " 'MIEN1+ctrl': 'ENSG00000141741',\n",
       " 'TYRO3+ctrl': 'ENSG00000092445',\n",
       " 'DUS2+ctrl': 'ENSG00000167264',\n",
       " 'MGAT3+ctrl': 'ENSG00000128268',\n",
       " 'HOXB4+ctrl': 'ENSG00000182742',\n",
       " 'ABO+ctrl': 'ENSG00000175164',\n",
       " 'CNOT2+ctrl': 'ENSG00000111596',\n",
       " 'STAU2+ctrl': 'ENSG00000040341',\n",
       " 'CPSF3+ctrl': 'ENSG00000119203',\n",
       " 'SLC35B4+ctrl': 'ENSG00000205060',\n",
       " 'PBX4+ctrl': 'ENSG00000105717',\n",
       " 'FCGRT+ctrl': 'ENSG00000104870',\n",
       " 'TP73+ctrl': 'ENSG00000078900',\n",
       " 'MOB4+ctrl': 'ENSG00000115540',\n",
       " 'IRF2BP2+ctrl': 'ENSG00000168264',\n",
       " 'NT5C3A+ctrl': 'ENSG00000122643',\n",
       " 'ATP13A2+ctrl': 'ENSG00000159363',\n",
       " 'FAM3C+ctrl': 'ENSG00000196937',\n",
       " 'DMRTA2+ctrl': 'ENSG00000142700',\n",
       " 'SHB+ctrl': 'ENSG00000107338',\n",
       " 'COCH+ctrl': 'ENSG00000100473',\n",
       " 'ABCF3+ctrl': 'ENSG00000161204',\n",
       " 'QRSL1+ctrl': 'ENSG00000130348',\n",
       " 'RAB3GAP1+ctrl': 'ENSG00000115839',\n",
       " 'CYP51A1+ctrl': 'ENSG00000001630',\n",
       " 'MAP1A+ctrl': 'ENSG00000166963',\n",
       " 'DNMT3B+ctrl': 'ENSG00000088305',\n",
       " 'MEIS1+ctrl': 'ENSG00000143995',\n",
       " 'FAM156B+ctrl': 'ENSG00000179304',\n",
       " 'DCAF15+ctrl': 'ENSG00000132017',\n",
       " 'RAN+ctrl': 'ENSG00000132341',\n",
       " 'SMIM19+ctrl': 'ENSG00000176209',\n",
       " 'PODXL2+ctrl': 'ENSG00000114631',\n",
       " 'RAB27A+ctrl': 'ENSG00000069974',\n",
       " 'SRP14+ctrl': 'ENSG00000140319',\n",
       " 'ALKBH6+ctrl': 'ENSG00000239382',\n",
       " 'NARF+ctrl': 'ENSG00000141562',\n",
       " 'AK3+ctrl': 'ENSG00000147853',\n",
       " 'FBXO38+ctrl': 'ENSG00000145868',\n",
       " 'EARS2+ctrl': 'ENSG00000103356',\n",
       " 'TWIST2+ctrl': 'ENSG00000233608',\n",
       " 'ZNF608+ctrl': 'ENSG00000168916',\n",
       " 'ZMYND8+ctrl': 'ENSG00000101040',\n",
       " 'ATP6V0B+ctrl': 'ENSG00000117410',\n",
       " 'ANKRD13B+ctrl': 'ENSG00000198720',\n",
       " 'GNL1+ctrl': 'ENSG00000204590',\n",
       " 'ETS1+ctrl': 'ENSG00000134954',\n",
       " 'KLHL12+ctrl': 'ENSG00000117153',\n",
       " 'CHAMP1+ctrl': 'ENSG00000198824',\n",
       " 'TMX4+ctrl': 'ENSG00000125827',\n",
       " 'CCDC138+ctrl': 'ENSG00000163006',\n",
       " 'AGPAT5+ctrl': 'ENSG00000155189',\n",
       " 'SAP130+ctrl': 'ENSG00000136715',\n",
       " 'PLD3+ctrl': 'ENSG00000105223',\n",
       " 'MBIP+ctrl': 'ENSG00000151332',\n",
       " 'MEIS3+ctrl': 'ENSG00000105419',\n",
       " 'ARHGAP5+ctrl': 'ENSG00000100852',\n",
       " 'SERTAD2+ctrl': 'ENSG00000179833',\n",
       " 'CPT1C+ctrl': 'ENSG00000169169',\n",
       " 'ARID2+ctrl': 'ENSG00000189079',\n",
       " 'WDR34+ctrl': 'ENSG00000119333',\n",
       " 'FAF2+ctrl': 'ENSG00000113194',\n",
       " 'KIAA0513+ctrl': 'ENSG00000135709',\n",
       " 'LSM6+ctrl': 'ENSG00000164167',\n",
       " 'ZNF84+ctrl': 'ENSG00000198040',\n",
       " 'POLA2+ctrl': 'ENSG00000014138',\n",
       " 'ITM2A+ctrl': 'ENSG00000078596',\n",
       " 'ALKBH8+ctrl': 'ENSG00000137760',\n",
       " 'CRTAP+ctrl': 'ENSG00000170275',\n",
       " 'FAM122B+ctrl': 'ENSG00000156504',\n",
       " 'INTS3+ctrl': 'ENSG00000143624',\n",
       " 'GOLGA8A+ctrl': 'ENSG00000175265',\n",
       " 'PPOX+ctrl': 'ENSG00000143224',\n",
       " 'TMEM141+ctrl': 'ENSG00000244187',\n",
       " 'SLC25A6+ctrl': 'ENSG00000169100',\n",
       " 'TMEM250+ctrl': 'ENSG00000238227',\n",
       " 'UBE2N+ctrl': 'ENSG00000177889',\n",
       " 'RNGTT+ctrl': 'ENSG00000111880',\n",
       " 'TSPAN18+ctrl': 'ENSG00000157570',\n",
       " 'MAP1B+ctrl': 'ENSG00000131711',\n",
       " 'MESD+ctrl': 'ENSG00000117899',\n",
       " 'GTF2E1+ctrl': 'ENSG00000153767',\n",
       " 'ZBTB45+ctrl': 'ENSG00000119574',\n",
       " 'SLC45A4+ctrl': 'ENSG00000022567',\n",
       " 'WDR11+ctrl': 'ENSG00000120008',\n",
       " 'TXLNG+ctrl': 'ENSG00000086712',\n",
       " 'TAZ+ctrl': 'ENSG00000102125',\n",
       " 'C2orf42+ctrl': 'ENSG00000115998',\n",
       " 'LRRC61+ctrl': 'ENSG00000127399',\n",
       " 'UBA52+ctrl': 'ENSG00000221983',\n",
       " 'RBL1+ctrl': 'ENSG00000080839',\n",
       " 'PLCD3+ctrl': 'ENSG00000161714',\n",
       " 'TAF9B+ctrl': 'ENSG00000187325',\n",
       " 'CDAN1+ctrl': 'ENSG00000140326',\n",
       " 'KANSL3+ctrl': 'ENSG00000114982',\n",
       " 'ACTN1+ctrl': 'ENSG00000072110',\n",
       " 'MTA1+ctrl': 'ENSG00000182979',\n",
       " 'SDHAF2+ctrl': 'ENSG00000167985',\n",
       " 'NBEAL1+ctrl': 'ENSG00000144426',\n",
       " 'GNG10+ctrl': 'ENSG00000242616',\n",
       " 'E4F1+ctrl': 'ENSG00000167967',\n",
       " 'JUN+ctrl': 'ENSG00000177606',\n",
       " 'RAC1+ctrl': 'ENSG00000136238',\n",
       " 'MAN1A1+ctrl': 'ENSG00000111885',\n",
       " 'MAGEC1+ctrl': 'ENSG00000155495',\n",
       " 'XPR1+ctrl': 'ENSG00000143324',\n",
       " 'CCAR1+ctrl': 'ENSG00000060339',\n",
       " 'MRPL22+ctrl': 'ENSG00000082515',\n",
       " 'ZNF519+ctrl': 'ENSG00000175322',\n",
       " 'NEXN+ctrl': 'ENSG00000162614',\n",
       " 'NHLRC3+ctrl': 'ENSG00000188811',\n",
       " 'CENPS+ctrl': 'ENSG00000175279',\n",
       " 'NEK1+ctrl': 'ENSG00000137601',\n",
       " 'LYZ+ctrl': 'ENSG00000090382',\n",
       " 'MTCH1+ctrl': 'ENSG00000137409',\n",
       " 'COG6+ctrl': 'ENSG00000133103',\n",
       " 'UBE2Q1+ctrl': 'ENSG00000160714',\n",
       " 'ZNF618+ctrl': 'ENSG00000157657',\n",
       " 'CNOT9+ctrl': 'ENSG00000144580',\n",
       " 'SNX5+ctrl': 'ENSG00000089006',\n",
       " 'NRIP3+ctrl': 'ENSG00000175352',\n",
       " 'DNAJC30+ctrl': 'ENSG00000176410',\n",
       " 'FAM32A+ctrl': 'ENSG00000105058',\n",
       " 'MRPL46+ctrl': 'ENSG00000259494',\n",
       " 'NAV1+ctrl': 'ENSG00000134369',\n",
       " 'INSIG2+ctrl': 'ENSG00000125629',\n",
       " 'DRG1+ctrl': 'ENSG00000185721',\n",
       " 'APOBEC3B+ctrl': 'ENSG00000179750',\n",
       " 'PITPNM1+ctrl': 'ENSG00000110697',\n",
       " 'GTPBP4+ctrl': 'ENSG00000107937',\n",
       " 'PAGE1+ctrl': 'ENSG00000068985',\n",
       " 'ZNF721+ctrl': 'ENSG00000182903',\n",
       " 'RNF187+ctrl': 'ENSG00000168159',\n",
       " 'UNC119+ctrl': 'ENSG00000109103',\n",
       " 'ABHD14B+ctrl': 'ENSG00000114779',\n",
       " 'RPS6KA3+ctrl': 'ENSG00000177189',\n",
       " 'SMTN+ctrl': 'ENSG00000183963',\n",
       " 'NBPF12+ctrl': 'ENSG00000268043',\n",
       " 'EXOSC4+ctrl': 'ENSG00000178896',\n",
       " 'BRD1+ctrl': 'ENSG00000100425',\n",
       " 'ACAT1+ctrl': 'ENSG00000075239',\n",
       " 'BANF1+ctrl': 'ENSG00000175334',\n",
       " 'YWHAQ+ctrl': 'ENSG00000134308',\n",
       " 'ERLIN2+ctrl': 'ENSG00000147475',\n",
       " 'C17orf75+ctrl': 'ENSG00000108666',\n",
       " 'DNAJC3+ctrl': 'ENSG00000102580',\n",
       " 'RNF8+ctrl': 'ENSG00000112130',\n",
       " 'DGCR6L+ctrl': 'ENSG00000128185',\n",
       " 'CFDP1+ctrl': 'ENSG00000153774',\n",
       " 'QPRT+ctrl': 'ENSG00000103485',\n",
       " 'ADO+ctrl': 'ENSG00000181915',\n",
       " 'VIPAS39+ctrl': 'ENSG00000151445',\n",
       " 'INPPL1+ctrl': 'ENSG00000165458',\n",
       " 'CDK13+ctrl': 'ENSG00000065883',\n",
       " 'NFYA+ctrl': 'ENSG00000001167',\n",
       " 'UBE2M+ctrl': 'ENSG00000130725',\n",
       " 'ZNF256+ctrl': 'ENSG00000152454',\n",
       " 'TBK1+ctrl': 'ENSG00000183735',\n",
       " 'STRBP+ctrl': 'ENSG00000165209',\n",
       " 'SINHCAF+ctrl': 'ENSG00000139146',\n",
       " 'VTI1B+ctrl': 'ENSG00000100568',\n",
       " 'GTPBP10+ctrl': 'ENSG00000105793',\n",
       " 'ELMSAN1+ctrl': 'ENSG00000156030',\n",
       " 'AARS+ctrl': 'ENSG00000090861',\n",
       " 'C14orf178+ctrl': 'ENSG00000197734',\n",
       " 'OXNAD1+ctrl': 'ENSG00000154814',\n",
       " 'DNAJC14+ctrl': 'ENSG00000135392',\n",
       " 'DNAJC25+ctrl': 'ENSG00000059769',\n",
       " 'SMYD3+ctrl': 'ENSG00000185420',\n",
       " 'PGP+ctrl': 'ENSG00000184207',\n",
       " 'MAGOH+ctrl': 'ENSG00000162385',\n",
       " 'MYEOV+ctrl': 'ENSG00000172927',\n",
       " 'TLCD1+ctrl': 'ENSG00000160606',\n",
       " 'TBX19+ctrl': 'ENSG00000143178',\n",
       " 'ZNF85+ctrl': 'ENSG00000105750',\n",
       " 'WNT5B+ctrl': 'ENSG00000111186',\n",
       " 'SPRTN+ctrl': 'ENSG00000010072',\n",
       " 'ATRX+ctrl': 'ENSG00000085224',\n",
       " 'KLHDC8B+ctrl': 'ENSG00000185909',\n",
       " 'ZC3H15+ctrl': 'ENSG00000065548',\n",
       " 'SFT2D3+ctrl': 'ENSG00000173349',\n",
       " 'PAGE5+ctrl': 'ENSG00000158639',\n",
       " 'MAP3K11+ctrl': 'ENSG00000173327',\n",
       " 'SEC23B+ctrl': 'ENSG00000101310',\n",
       " 'MBLAC2+ctrl': 'ENSG00000176055',\n",
       " 'ZNF764+ctrl': 'ENSG00000169951',\n",
       " 'DSTN+ctrl': 'ENSG00000125868',\n",
       " 'SLC7A5+ctrl': 'ENSG00000103257',\n",
       " 'TNNI3+ctrl': 'ENSG00000129991',\n",
       " 'HDLBP+ctrl': 'ENSG00000115677',\n",
       " 'PRICKLE3+ctrl': 'ENSG00000012211',\n",
       " 'INTS1+ctrl': 'ENSG00000164880',\n",
       " 'GATA6+ctrl': 'ENSG00000141448',\n",
       " 'RASGEF1A+ctrl': 'ENSG00000198915',\n",
       " 'INF2+ctrl': 'ENSG00000203485',\n",
       " 'BCR+ctrl': 'ENSG00000186716',\n",
       " 'PIK3R4+ctrl': 'ENSG00000196455',\n",
       " 'ASB1+ctrl': 'ENSG00000065802',\n",
       " 'TRAF3IP2+ctrl': 'ENSG00000056972',\n",
       " 'ZNF747+ctrl': 'ENSG00000169955',\n",
       " 'IRF3+ctrl': 'ENSG00000126456',\n",
       " 'GPCPD1+ctrl': 'ENSG00000125772',\n",
       " 'FAM89B+ctrl': 'ENSG00000176973',\n",
       " 'YIPF2+ctrl': 'ENSG00000130733',\n",
       " 'SLC39A11+ctrl': 'ENSG00000133195',\n",
       " 'DVL2+ctrl': 'ENSG00000004975',\n",
       " 'EXOC5+ctrl': 'ENSG00000070367',\n",
       " 'C22orf39+ctrl': 'ENSG00000242259',\n",
       " 'KDM6A+ctrl': 'ENSG00000147050',\n",
       " 'IRAK4+ctrl': 'ENSG00000198001',\n",
       " 'DMRTB1+ctrl': 'ENSG00000143006',\n",
       " 'ZNF132+ctrl': 'ENSG00000131849',\n",
       " 'GRAMD4+ctrl': 'ENSG00000075240',\n",
       " 'ETV3+ctrl': 'ENSG00000117036',\n",
       " 'DYNLRB1+ctrl': 'ENSG00000125971',\n",
       " 'FIGNL1+ctrl': 'ENSG00000132436',\n",
       " 'MBTPS2+ctrl': 'ENSG00000012174',\n",
       " 'CFAP410+ctrl': 'ENSG00000160226',\n",
       " 'MAST4+ctrl': 'ENSG00000069020',\n",
       " 'TNFAIP8+ctrl': 'ENSG00000145779',\n",
       " 'MGA+ctrl': 'ENSG00000174197',\n",
       " 'PEA15+ctrl': 'ENSG00000162734',\n",
       " 'GOLGA6L1+ctrl': 'ENSG00000273976',\n",
       " 'HP1BP3+ctrl': 'ENSG00000127483',\n",
       " 'ARHGAP45+ctrl': 'ENSG00000180448',\n",
       " 'ZNF92+ctrl': 'ENSG00000146757',\n",
       " 'GFM1+ctrl': 'ENSG00000168827',\n",
       " 'ENDOD1+ctrl': 'ENSG00000149218',\n",
       " 'DPY19L3+ctrl': 'ENSG00000178904',\n",
       " 'TMEM109+ctrl': 'ENSG00000110108',\n",
       " 'CCNY+ctrl': 'ENSG00000108100',\n",
       " 'GTF2H3+ctrl': 'ENSG00000111358',\n",
       " 'KNOP1+ctrl': 'ENSG00000103550',\n",
       " 'RASGRP2+ctrl': 'ENSG00000068831',\n",
       " 'PSMG3+ctrl': 'ENSG00000157778',\n",
       " 'ZNF282+ctrl': 'ENSG00000170265',\n",
       " 'RBFOX2+ctrl': 'ENSG00000100320',\n",
       " 'C6orf15+ctrl': 'ENSG00000204542',\n",
       " 'IQSEC1+ctrl': 'ENSG00000144711',\n",
       " 'CD276+ctrl': 'ENSG00000103855',\n",
       " 'MED13+ctrl': 'ENSG00000108510',\n",
       " 'CLN6+ctrl': 'ENSG00000128973',\n",
       " 'EAF1+ctrl': 'ENSG00000144597',\n",
       " 'AHSA2+ctrl': nan,\n",
       " 'TRIM16+ctrl': 'ENSG00000221926',\n",
       " 'UBL3+ctrl': 'ENSG00000122042',\n",
       " 'NAA30+ctrl': 'ENSG00000139977',\n",
       " 'ZMAT5+ctrl': 'ENSG00000100319',\n",
       " 'TMLHE+ctrl': 'ENSG00000185973',\n",
       " 'MAP3K7+ctrl': 'ENSG00000135341',\n",
       " 'C1orf61+ctrl': 'ENSG00000125462',\n",
       " 'FEZ2+ctrl': 'ENSG00000171055',\n",
       " 'FAF1+ctrl': 'ENSG00000185104',\n",
       " 'RMI2+ctrl': 'ENSG00000175643',\n",
       " 'PKIB+ctrl': 'ENSG00000135549',\n",
       " 'FASTK+ctrl': 'ENSG00000164896',\n",
       " 'NUDC+ctrl': 'ENSG00000090273',\n",
       " 'KCNE3+ctrl': 'ENSG00000175538',\n",
       " 'SPTY2D1+ctrl': 'ENSG00000179119',\n",
       " 'AMPD3+ctrl': 'ENSG00000133805',\n",
       " 'LTBP3+ctrl': 'ENSG00000168056',\n",
       " 'CARM1+ctrl': 'ENSG00000142453',\n",
       " 'NIPBL+ctrl': 'ENSG00000164190',\n",
       " 'OR51B5+ctrl': 'ENSG00000167355',\n",
       " 'BRIX1+ctrl': 'ENSG00000113460',\n",
       " 'TTC5+ctrl': 'ENSG00000136319',\n",
       " 'FBXL19+ctrl': 'ENSG00000099364',\n",
       " 'UBQLN4+ctrl': 'ENSG00000160803',\n",
       " 'SRSF10+ctrl': 'ENSG00000188529',\n",
       " 'METRN+ctrl': 'ENSG00000103260',\n",
       " 'C4orf46+ctrl': 'ENSG00000205208',\n",
       " 'KRT8+ctrl': 'ENSG00000170421',\n",
       " 'KIF1B+ctrl': 'ENSG00000054523',\n",
       " 'ANKRD49+ctrl': 'ENSG00000168876',\n",
       " 'HRAS+ctrl': 'ENSG00000174775',\n",
       " 'FBXO44+ctrl': 'ENSG00000132879',\n",
       " 'KTI12+ctrl': 'ENSG00000198841',\n",
       " 'DUS1L+ctrl': 'ENSG00000169718',\n",
       " 'CCDC137+ctrl': 'ENSG00000185298',\n",
       " 'RAMAC+ctrl': 'ENSG00000169612',\n",
       " 'IKZF5+ctrl': 'ENSG00000095574',\n",
       " 'LSM10+ctrl': 'ENSG00000181817',\n",
       " 'ERMAP+ctrl': 'ENSG00000164010',\n",
       " 'CLK4+ctrl': 'ENSG00000113240',\n",
       " 'DUSP9+ctrl': 'ENSG00000130829',\n",
       " 'EIF4B+ctrl': 'ENSG00000063046',\n",
       " 'CASC3+ctrl': 'ENSG00000108349',\n",
       " 'TRMU+ctrl': 'ENSG00000100416',\n",
       " 'DNASE1L1+ctrl': 'ENSG00000013563',\n",
       " 'POLR3E+ctrl': 'ENSG00000058600',\n",
       " 'LLGL2+ctrl': 'ENSG00000073350',\n",
       " 'EHBP1+ctrl': 'ENSG00000115504',\n",
       " 'ZNF566+ctrl': 'ENSG00000186017',\n",
       " 'BCORL1+ctrl': 'ENSG00000085185',\n",
       " 'USP16+ctrl': 'ENSG00000156256',\n",
       " 'NFIA+ctrl': 'ENSG00000162599',\n",
       " 'ZNF43+ctrl': 'ENSG00000198521',\n",
       " 'ABL2+ctrl': 'ENSG00000143322',\n",
       " 'LRP6+ctrl': 'ENSG00000070018',\n",
       " 'ATP6V1B2+ctrl': 'ENSG00000147416',\n",
       " 'COQ2+ctrl': 'ENSG00000173085',\n",
       " 'ST6GALNAC4+ctrl': 'ENSG00000136840',\n",
       " 'NAF1+ctrl': 'ENSG00000145414',\n",
       " 'SRSF6+ctrl': 'ENSG00000124193',\n",
       " 'TNFRSF10B+ctrl': 'ENSG00000120889',\n",
       " 'PIGT+ctrl': 'ENSG00000124155',\n",
       " 'HINT1+ctrl': 'ENSG00000169567',\n",
       " 'OVOL2+ctrl': 'ENSG00000125850',\n",
       " 'HIPK3+ctrl': 'ENSG00000110422',\n",
       " 'SRSF4+ctrl': 'ENSG00000116350',\n",
       " 'SPAST+ctrl': 'ENSG00000021574',\n",
       " 'C12orf76+ctrl': 'ENSG00000174456',\n",
       " 'AFTPH+ctrl': 'ENSG00000119844',\n",
       " 'INO80+ctrl': 'ENSG00000128908',\n",
       " 'DOK4+ctrl': 'ENSG00000125170',\n",
       " 'MND1+ctrl': 'ENSG00000121211',\n",
       " 'FEZF1+ctrl': 'ENSG00000128610',\n",
       " 'DHX40+ctrl': 'ENSG00000108406',\n",
       " 'SMG5+ctrl': 'ENSG00000198952',\n",
       " 'SLC66A1+ctrl': 'ENSG00000040487',\n",
       " 'GMEB2+ctrl': 'ENSG00000101216',\n",
       " 'AQP3+ctrl': 'ENSG00000165272',\n",
       " 'CYB5R4+ctrl': 'ENSG00000065615',\n",
       " 'PQBP1+ctrl': 'ENSG00000102103',\n",
       " 'DCAF16+ctrl': 'ENSG00000163257',\n",
       " 'CNTRL+ctrl': 'ENSG00000119397',\n",
       " 'PPP1R7+ctrl': 'ENSG00000115685',\n",
       " 'UBQLN2+ctrl': 'ENSG00000188021',\n",
       " 'RFXAP+ctrl': 'ENSG00000133111',\n",
       " 'OSBPL8+ctrl': 'ENSG00000091039',\n",
       " 'NAA40+ctrl': 'ENSG00000110583',\n",
       " 'HSD17B10+ctrl': 'ENSG00000072506',\n",
       " 'PITX2+ctrl': 'ENSG00000164093',\n",
       " 'MYL6B+ctrl': 'ENSG00000196465',\n",
       " 'PHPT1+ctrl': 'ENSG00000054148',\n",
       " 'MAPK3+ctrl': 'ENSG00000102882',\n",
       " 'TBX2+ctrl': 'ENSG00000121068',\n",
       " 'SHOX2+ctrl': 'ENSG00000168779',\n",
       " 'SPATS2L+ctrl': 'ENSG00000196141',\n",
       " 'FAM53B+ctrl': 'ENSG00000189319',\n",
       " 'TMEM52+ctrl': 'ENSG00000178821',\n",
       " 'INTS6+ctrl': 'ENSG00000102786',\n",
       " 'HIST1H2BF+ctrl': 'ENSG00000277224',\n",
       " 'SLC66A3+ctrl': 'ENSG00000162976',\n",
       " 'FAM120A+ctrl': 'ENSG00000048828',\n",
       " 'DPYSL2+ctrl': 'ENSG00000092964',\n",
       " 'MSL3+ctrl': 'ENSG00000005302',\n",
       " 'RPS10+ctrl': 'ENSG00000124614',\n",
       " 'PRR5+ctrl': 'ENSG00000186654',\n",
       " 'ASAH1+ctrl': 'ENSG00000104763',\n",
       " 'TMX3+ctrl': 'ENSG00000166479',\n",
       " 'SH3GLB1+ctrl': 'ENSG00000097033',\n",
       " ...}"
      ]
     },
     "execution_count": 12,
     "metadata": {},
     "output_type": "execute_result"
    }
   ],
   "source": [
    "\n",
    "df = pd.read_csv('/home/huangk28/scratch/Profile_Aggregation/outputs/20210422_6W_CP257_guide_normalized_feature_select_median_merged_ALLBATCHES___HPLM___ALLWELLS_gene_aggregated.csv')\n",
    "df = df.set_index('Metadata_Foci_Barcode_MatchedTo_GeneCode')\n",
    "gene2ops = dict(zip(df.index.values,df.values))\n",
    "gene2cond_name = {}\n",
    "for i in tqdm(np.setdiff1d(pert_list, list(gene2ops.keys()))):\n",
    "    if i != 'ctrl':\n",
    "        try:\n",
    "            gene2cond_name[i] = mg.getgenes(cond2gene_id[i+'+ctrl'])\n",
    "        except:\n",
    "            gene2cond_name[i] = [{'symbol': i}]\n",
    "fix_gene = {i: j[0]['symbol'] for i,j in gene2cond_name.items()}\n",
    "mean_ops = np.mean(np.stack(gene2ops.values()), axis = 0)\n",
    "id2emb = {}\n",
    "for i in pert_list_non_ctrl:\n",
    "    if i in gene2ops:\n",
    "        id2emb[i] = gene2ops[i]\n",
    "    elif fix_gene[i] in gene2ops:\n",
    "        id2emb[i] = gene2ops[fix_gene[i]]\n",
    "    else:\n",
    "        print(i)\n",
    "        id2emb[i] = mean_ops\n",
    "ops_feat = np.stack([id2emb[i] for i in pert_list_non_ctrl])\n",
    "G = np.dot(ops_feat, ops_feat.T)\n",
    "save_kernel('ops_HeLa_HPLM_kernel', pert_list_non_ctrl, G, ops_feat)\n",
    "\n",
    "\n",
    "df = pd.read_csv('/home/huangk28/scratch/Profile_Aggregation/outputs/20210422_6W_CP257_guide_normalized_feature_select_median_merged_ALLBATCHES___DMEM___ALLWELLS_gene_aggregated.csv')\n",
    "df = df.set_index('Metadata_Foci_Barcode_MatchedTo_GeneCode')\n",
    "gene2ops = dict(zip(df.index.values,df.values))\n",
    "gene2cond_name = {}\n",
    "for i in tqdm(np.setdiff1d(pert_list, list(gene2ops.keys()))):\n",
    "    if i != 'ctrl':\n",
    "        try:\n",
    "            gene2cond_name[i] = mg.getgenes(cond2gene_id[i+'+ctrl'])\n",
    "        except:\n",
    "            gene2cond_name[i] = [{'symbol': i}]\n",
    "fix_gene = {i: j[0]['symbol'] for i,j in gene2cond_name.items()}\n",
    "mean_ops = np.mean(np.stack(gene2ops.values()), axis = 0)\n",
    "id2emb = {}\n",
    "for i in pert_list_non_ctrl:\n",
    "    if i in gene2ops:\n",
    "        id2emb[i] = gene2ops[i]\n",
    "    elif fix_gene[i] in gene2ops:\n",
    "        id2emb[i] = gene2ops[fix_gene[i]]\n",
    "    else:\n",
    "        print(i)\n",
    "        id2emb[i] = mean_ops\n",
    "ops_feat = np.stack([id2emb[i] for i in pert_list_non_ctrl])\n",
    "G = np.dot(ops_feat, ops_feat.T)\n",
    "save_kernel('ops_HeLa_DMEM_kernel', pert_list_non_ctrl, G, ops_feat)"
   ]
  },
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