Superfund Research Program
Title: Applying genome-wide CRISPR to identify known and novel genes and pathways that modulate formaldehyde toxicity
Accession Number: Not Available
Link to Dataset: https://osf.io/ac6j3/
Repository: Open Science Framework (OSF)
Data Type(s): CRISPR Screen Data, Source code, Underlying data from publication
Organism(s): Homo sapiens
Summary: Description of contents This repository contains data and code for the manuscript Applying genome-wide CRISPR to identify known and novel genes and pathways that modulate formaldehyde toxicity by Yun Zhao et al. available at https://doi.org/10.1016/j.chemosphere.2020.128701. Raw data: Next generation sequencing count data for various CRISPR probes after 8 or 20 days of exposure to 40, 100, or 150 M formaldehyde edgeR results: Test statistics produced by using BioConductor's edgeR package to detect significant differences between control and exposed cell populations Code: Example code to produce results in the edgeR results folder from the count data in the Raw data folder Select CRISPR screen datasets are also available on BioGRID ORCS: 8 days 100 M Formaldehyde 8 days 150 M Formaldehyde
Publication(s) associated with this dataset:- Zhao Y, Wei L, Tagmount A, Loguinov AV, Sobh A, Hubbard AE, McHale CM, Chang C, Vulpe CD, Zhang L. 2021. Applying genome-wide CRISPR to identify known and novel genes and pathways that modulate formaldehyde toxicity. Chemosphere 269:128701. doi:10.1016/j.chemosphere.2020.128701 PMID:33189395 PMCID:PMC7904579
- University of California-Berkeley: Data Science and Laboratory Core
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- University of California-Berkeley: Using Adductomic Signatures to Evaluate Risks of Superfund Chemicals