Description of Bovine ATAC-seq dataset using the data cards Playbook
Date
2024
Authors
Samuel, Beulah Esther Rani
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Abstract
This report describes the Bovine ATAC-seq dataset using the data cards Playbook. BCG vaccine induces innate immune training, which trains innate immune cells to have memory and keep them poised to respond to pathogens. The underlying mechanism of innate immune training has been demonstrated as epigenetic reprogramming, increasing the accessibility of the chromatin in the cells that exhibit innate immune training. In the current study, we explore the altered chromatin accessibility in bovine gamma delta (γδ) T cells that display a trained immune phenotype after subcutaneous BCG administration. The Assay for Transposase Accessible chromatin sequencing (ATAC-seq) was performed on γδ T cells from subcutaneous BCG immunized or nonimmunized pre-weaned calves 3 weeks after immunization. The DNA libraries were sequenced using the Illumina Nova 6000 sequencer. The dataset consists of DNA sequence data from 12 calves (6 BCG-immunized and 6 control calves) in the fast QC format.
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report
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This report was written as part of the Dependable Data Driven Discovery (D4) National Research Traineeship.
Dataset Link: https://www.ncbi.nlm.nih.gov/bioproject/?term=PRJNA1135310 SRA - SRR29811650 to SRR29811661 Library 1 to Library 12 (each library has 2 entries – R1 and R2)
Dataset Link: https://www.ncbi.nlm.nih.gov/bioproject/?term=PRJNA1135310 SRA - SRR29811650 to SRR29811661 Library 1 to Library 12 (each library has 2 entries – R1 and R2)
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The D4 traineeship is funded by National Science Foundation Award No. 2152117. Any opinions, findings, and conclusions or recommendations expressed in this material are those of the author(s) and do not necessarily reflect the views of the National Science Foundation.