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Contijoch Research Laboratory

Research Website for Contijoch Research Lab at UC San Diego
README.md

Contijoch Research Laboratory

Introduction

This site serves as the home for software development by the laboratory. If you are a lab member, ask Dr. Contijoch for access to private repositories. Otherwise, this site will host code made public.

Public Repositories (reverse chronological order)

  1. Gupta, Kunal et al. "DiFiR-CT: Distance field representation to resolve motion artifacts in computed tomography." Medical Physics. In Press; PMID: 36515381.

  2. Li, Hui et al. "Deep learning automates detection of wall motion abnormalities via measurement of longitudinal strain from ECG-gated CT images." Front Cardiovasc Med. 2022 Dec 15;9:1009445, doi: 10.3389/fcvm.2022.1009445.

  3. Chen, Zhennong et al. "Detection of Left Ventricular Wall Motion Abnormalities from Volume Rendering of 4DCT Cardiac Angiograms Using Deep Learning." Front Cardiovasc Med. 2022 Jul 28;9:919751. doi: 10.3389/fcvm.2022.919751.

  4. Gupta, Kunal et al. “Octree Representation Improves Data Fidelity of Cardiac CT Images and Convolutional Neural Network Semantic Segmentation of Left Atrial and Ventricular Chambers.” Radiology. Artificial intelligence vol. 3,6 e210036. 29 Sep. 2021, doi:10.1148/ryai.2021210036

  5. Colvert, Brendan et al. “Heart-centered positioning and tailored beam-shaping filtration for reduced radiation dose in coronary artery calcium imaging: A Multi-Ethnic Study of Atherosclerosis (MESA) Study.” Medical physics vol. 48,9 (2021): 4966-4977. doi:10.1002/mp.15106

  6. Chen, Zhennong et al. “Automated cardiac volume assessment and cardiac long- and short-axis imaging plane prediction from electrocardiogram-gated computed tomography volumes enabled by deep learning.” European heart journal. Digital health vol. 2,2 311-322. 22 Mar. 2021, doi:10.1093/ehjdh/ztab033

Popular repositories Loading

  1. AI_chamber_segmentation_plane_re-slicing AI_chamber_segmentation_plane_re-slicing Public

    A deep learning (DL) pipeline to simultaneously predict multi-chamber segmentation and all cardiac imaging planes. Author: Zhennong Chen, PhD

    Python 3

  2. 2DUNet_CT_Seg_Final_v_ZC 2DUNet_CT_Seg_Final_v_ZC Public

    a 2D U-Net pipeline to segment heart chambers in CT 3D volumes. Author: Zhennong Chen, PhD.

    Python 2

  3. DL_WMA_by_VR_Final_v_ZC DL_WMA_by_VR_Final_v_ZC Public

    A deep learning pipeline to detect Left Ventricle Wall Motion Abnormality from volume-rendered 4DCT data. Author: Zhennong Chen, PhD

    MATLAB 2

  4. med-img-octnet-adaptation med-img-octnet-adaptation Public

    Forked from griegler/octnet

    Adaptation of OctNet for use in Medical Images

    C++ 1

  5. NeuralCT_new_seg_Final_v_ZC NeuralCT_new_seg_Final_v_ZC Public

    An implicit neural representation framework to correct motion artifacts from CT. Author: Zhennong Chen, PhD

    Jupyter Notebook 1

  6. dv-commandline-utils dv-commandline-utils Public

    Forked from sudomakeinstall/dv-commandline-utils

    C++

Repositories

Showing 10 of 20 repositories
  • PSM-Work-Mapping Public

    Patient-specific modeling assessment of myocardial work with simple and robust clinical datasets

    ucsd-fcrl/PSM-Work-Mapping’s past year of commit activity
    MATLAB 0 0 0 0 Updated Nov 14, 2024
  • fcrl-filt-back-proj Public Forked from csheaff/filt-back-proj

    Filtered backprojection in python without explicit use of Radon transform functions

    ucsd-fcrl/fcrl-filt-back-proj’s past year of commit activity
    Python 0 10 0 0 Updated Nov 10, 2023
  • rv-rmwct-study Public

    Data and analysis scripts for MWCT paper

    ucsd-fcrl/rv-rmwct-study’s past year of commit activity
    MATLAB 0 0 0 0 Updated Nov 6, 2023
  • .github Public
    ucsd-fcrl/.github’s past year of commit activity
    0 0 0 0 Updated Feb 21, 2023
  • DL_CT_GLS_Final Public

    Code used to measure GLS from long-axis segmentations

    ucsd-fcrl/DL_CT_GLS_Final’s past year of commit activity
    MATLAB 0 0 0 0 Updated Oct 21, 2022
  • UNet_image_to_image Public

    A image-to-image UNet, tensorflow 2.4.1

    ucsd-fcrl/UNet_image_to_image’s past year of commit activity
    Python 0 0 0 0 Updated Oct 14, 2022
  • DL_WMA_by_VR_Final_v_ZC Public

    A deep learning pipeline to detect Left Ventricle Wall Motion Abnormality from volume-rendered 4DCT data. Author: Zhennong Chen, PhD

    ucsd-fcrl/DL_WMA_by_VR_Final_v_ZC’s past year of commit activity
    MATLAB 2 0 0 0 Updated Aug 5, 2022
  • 2DUNet_CT_Seg_Final_v_ZC Public

    a 2D U-Net pipeline to segment heart chambers in CT 3D volumes. Author: Zhennong Chen, PhD.

    ucsd-fcrl/2DUNet_CT_Seg_Final_v_ZC’s past year of commit activity
    Python 2 0 0 0 Updated Jun 23, 2022
  • NeuralCT_new_seg_Final_v_ZC Public

    An implicit neural representation framework to correct motion artifacts from CT. Author: Zhennong Chen, PhD

    ucsd-fcrl/NeuralCT_new_seg_Final_v_ZC’s past year of commit activity
    Jupyter Notebook 1 0 0 0 Updated Jun 17, 2022
  • DL_CT_Seg-Plane_Prediction_Final_v_ZC Public

    Use trained deep learning (DL) model (modified 3D U-Net) to predict chamber segmentation and cardiac imaging planes on new cases. Author: Zhennong Chen, PhD

    ucsd-fcrl/DL_CT_Seg-Plane_Prediction_Final_v_ZC’s past year of commit activity
    Python 0 0 0 0 Updated Jun 15, 2022
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