Transcriptomics

Dataset Information

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ATAC-seq of definitive endoderm differentiation of human embryonic stem cells in early G1 phase of the cell cycle


ABSTRACT: The experiment was designed to look into chromatin accessibility changes during cell cycle progression in human embryonic stem cells (hESCs) during definitive endoderm differentiation. For this, FUCCI hESCs were sorted in Early G1 (EG1), and differentiation into endoderm was performed for up to 72 hours with a combination of cytokines as described in Pauklin and Vallier (2013) and Pauklin et al. (2016). Samples at 0, 12, 24, 36, 48 and 72 hours were generated from two independent experiments, with 100,000 cells per sample, as previously described in Kumasaka et al. (2016). Library preparation and sequencing were performed at the Wellcome Sanger Institute next-generation sequencing facility. ATAC-seq libraries were prepared with one of i5 and i7 Nextera tags combination (see protocol details), and pooled equimolarly. Sequencing was performed on Illumina HiSeq 2000, 2 x 75bp paired-end reads.

INSTRUMENT(S): Illumina HiSeq 2000

ORGANISM(S): Homo sapiens  

SUBMITTER: Pedro Madrigal   Ludovic Vallier   Siim Pauklin  

PROVIDER: E-MTAB-9124 | ArrayExpress | 2020-09-07

SECONDARY ACCESSION(S): ERP121959

REPOSITORIES: ArrayExpress, ENA

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