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Dataset Details

Superfund Research Program

Title: The Carcinogenome Project_Liver Carcinogenicity_HEPG2 Portal

Accession Number: Not available

Link to Dataset: https://carcinogenome.org/HEPG2/

Repository: The Carcinogenome Project

Data Type(s): Carcinogenicity

Experiment Type(s): High-throughput Transcriptomic Assays

Organism(s): Homo sapiens

Summary: The Carcinogenome Project is a database of chemical carcinogenicity screens based on in-vitro human models profiled on the L1000 gene expression assay. The HEPG2 dataset uses 330 selected chemicals for in-vivo liver carcinogenicity testing, including 128 liver carcinogens, 168 non-carcinogens, and 34 miscellaneous chemicals (e.g. nuclear receptor ligands). Chemical carcinogenicity and genotoxicity annotations are based on the Carcinogenicity Potency Database (CPDB), which is the result of tissue-specific long-term animal cancer tests in rodents. In the liver carcinogenome project, HepG2 (liver) cells are exposed to each individual chemical for 24 hours and their gene expression is profiled on the L1000 platform. Each chemical is assayed at 6 doses (2 fold dilutions starting from the highest concentration of 40uM or 20uM) with triplicate profiles generated for each dose. For each chemical and dose profile, the gene expression of 1000 landmark genes is calculated as a moderated z-score (weighted collapsed z-score of the 3 replicate perturbational profiles with respect to the entire plate).

Project(s) associated with this dataset:
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