Ping CV Data Science Training

Cardio-MeSH2Pgraph

Ping Lab Intern Project, Summar, 2022: :octocat: Mapping MeSH (ICD codes) to molecular mechanism through protein-protein co-occurance graph -toward high precission medicine

Cardio-NER-BioBERT

Ping Lab Intern Project, Summar, 2022: :octocat: Building Named Entity Recognition model with fine tuning BioBERT - a data engineering approach

CardioKG

Ping Lab Intern Project, Summar, 2022: :octocat: Link prediction through Graph Neural Network (GNN) model over the Knowledgegraph in the interface of Cardiovascular Disease (CVD) and Drugs.

covidGraph-cvd-age

Introduction to the project "Exploration of Covid Graph with CVD association" and important references (Summer and Fall of 2020)

covidGraph-cvdEntities

:rocket: COVID19 Knowledgegraph Exploration with CV Entities (e.g., ICD, MeSH, Pathways, Proteins, Genes) by Maya Gupta (Summer and Fall 2020) :mortar_board:

drug-target-graph

:octocat: Documentation and starter code for drug-target-graph implementing CompoundDB4j.

engineering-protein-graph-data

By Irsyad: :octocat: The project documentation and codes in the study of ion-channel in OS-CVD categories implementing graph data API. Summer 2021.

mesh2molecules

:rocket: Exploration of Molecular Mechanism following MeSH Descriptors by JASON (Wangjie Zheng), (Summer and Fall 2020) :mortar_board:

pig-proteomics-database

Building a bioinformatics tool for generating a more reliable protein sequence database for Sus scrofa cardiac proteomics studies

semRep-starter

Knowledge Graph Exploration with NLM semrep

pinglab-intern/mesh2molecules

:rocket: Exploration of Molecular Mechanism following MeSH Descriptors by JASON (Wangjie Zheng), (Summer and Fall 2020) :mortar_board:

pinglab-intern/Cardio-NER-BioBERT

Ping Lab Intern Project, Summar, 2022: :octocat: Building Named Entity Recognition model with fine tuning BioBERT - a data engineering approach

pinglab-intern/covidGraph-cvd-age

Introduction to the project "Exploration of Covid Graph with CVD association" and important references (Summer and Fall of 2020)

pinglab-intern/covidGraph-cvdEntities

:rocket: COVID19 Knowledgegraph Exploration with CV Entities (e.g., ICD, MeSH, Pathways, Proteins, Genes) by Maya Gupta (Summer and Fall 2020) :mortar_board:

pinglab-intern/drug-target-graph

:octocat: Documentation and starter code for drug-target-graph implementing CompoundDB4j.

pinglab-intern/engineering-protein-graph-data

By Irsyad: :octocat: The project documentation and codes in the study of ion-channel in OS-CVD categories implementing graph data API. Summer 2021.

pinglab-intern/project-docs

By Anirudh: :octocat: A study of Network and Graph in DRKG for the association of Cardiovascular Disease with Drugs and Pathways by Anirudh Eranki (Fall 2020)

pinglab-intern/Cardio-MeSH2Pgraph

Ping Lab Intern Project, Summar, 2022: :octocat: Mapping MeSH (ICD codes) to molecular mechanism through protein-protein co-occurance graph -toward high precission medicine

pinglab-intern/CardioKG

Ping Lab Intern Project, Summar, 2022: :octocat: Link prediction through Graph Neural Network (GNN) model over the Knowledgegraph in the interface of Cardiovascular Disease (CVD) and Drugs.

pinglab-intern/Multi-Omics-Proteomics-Integration

This repository contains the code and input data for the multi-omics proteomics integration project.

pinglab-intern/pig-proteomics-database

Building a bioinformatics tool for generating a more reliable protein sequence database for Sus scrofa cardiac proteomics studies

pinglab-intern/PTC_Data_Extraction

Extract disease data from PubTator Central for a given query (in this case, 'heart failure'). Link each disease with PMID and MESH ID for use in later projects.

pinglab-intern/Uniprot_to_DrugBank_CVD_CSV

pinglab-intern/caseolap-pipeline

Samir (akre96): Implementation of the caseOLAP pipeline for mapping relationships between oxidative stress and drugs.

pinglab-intern/caseolap-protein-to-CVD-categories

Match UnitRef Protein IDs to CVD disease categories with their corresponding CaseOLAP scores

pinglab-intern/cvd-pathway-map-KG

pinglab-intern/Drugbank-to-Node-List-CSV

creates a csv file with all of the cardiovascular drugs and all of their respective categories

pinglab-intern/engineering_chemical_graph_data

BY Joseph: :octocat: The project documentation and codes in study of ion-channels over CVD and OS categories.

pinglab-intern/heart_caseolap_EDA

Exploratory data analysis of CaseOLAP scores of cardiac proteins.

pinglab-intern/NLP-Congenital_Heart_Defects

A Natural Language Processing project for automatically identifying which type of congenital heart defect is being described in a clinical case report. Created by Jun Bae in Summer 2020 while working with the Ping Lab (UCLA).

pinglab-intern/os_cvd_project

By Aaruchi: :octocat: A documentation for Oxidative Stress and CVD

pinglab-intern/Oxidative-Stress-Knowledge-Graph

pinglab-intern/project-docs-by-nick

Exploration of covidgraph for the association of Covid-19 with Cardiovascular Diseases and Age Group by Nic Chung (Fall 2020)

pinglab-intern/PubTator-API-Wrapper

Functions to retrieve and process annotations with PubTator API

pinglab-intern/RaghavaDocs

:octocat: Documentation by Raghava

pinglab-intern/Spark-tutorials

Kevin Chen: Spark tutorials by Kevin :rocket:

pinglab-intern/Textmining

pinglab-intern/Textmining_caseOLAP

pinglab-intern/topic_modeling_imputation

This repository contains the code associated with the project "Improving Disease Document Labeling in CaseOLAP LIFT via Topic Modeling" Joanne Qiu Alexander Pelletier Ping Lab UCLA Cardiovascular Data Science Summer Internship Program September 15, 2023

pinglab-intern/WQE_proteomics_WGCNA

Code and results for WQE, using WGCNA analyzing proteomics data