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Dataset Details

Superfund Research Program

Title: The Carcinogenome Project_Breast Carcinogenicity_MCF10A Portal

Accession Number: Not available

Link to Dataset:

Repository: The Carcinogenome Project

Data Type(s): Carcinogenicity

Experiment Type(s): High-throughput Transcriptomic Assays

Organism(s): Homo sapiens

Summary: MCF10A Portal is an interactive portal for retrieving and visualizing data from mammary cell carcinogenome project. Dataset details: This experiment uses 345 selected chemicals for breast carcinogenicity testing, including 120 breast carcinogens, 114 non-carcinogens, and 68 miscellaneous chemicals (e.g. nuclear receptor ligands, BU SRP chemicals, lung carcinogens). 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, or breast carcinogens published from Rudel et. al., 2007. In the CRCGN project, MCF10A (breast epithelial) 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 3 doses (3 fold dilutions starting from the highest concentration of 100uM, with the exception of selected BUSRP chemicals, which had custom chosen starting concentrations) with triplicate profiles generated for each dose. This experiment is repeated also on MCF10A TP53-/- cells. 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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