Metabolomics,Unknown,Transcriptomics,Genomics,Proteomics

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ATAC-seq on endocardial cells from E12.5 mouse hearts in Tbx20 knockouts and wild type counterparts

ABSTRACT: We used ATAC-seq (Buenrostro et al, 2013) to identify regions of open chromatin in FACS sorted mouse endothelial cells from E12.5 hearts. Please note that the animals were injected at different dates, which resulted in different effects of the knockout, as indicated in the batch attribute of the samples. This data set is part of the study \Endocardial Tbx20 is essential for mesenchymal and myocardial cell movements required for cardiac septation\. Peaks were called using HOMER (-gsize 1.87e9 -region -tbp 1). Replicate 1: -fdr 1e-8, replicate 2: default parameters. Buenrostro JD, Giresi PG, Zaba LC, Chang HY, Greenleaf WJ. 2013. Transposition of native chromatin for fast and sensitive epigenomic profiling of open chromatin, DNA-binding proteins and nucleosome position. Nat Methods 10: 12138.

INSTRUMENT(S): FACS, Illumina HiSeq 2000

ORGANISM(S): Mus musculus

SUBMITTER: Kees Boogerd 

PROVIDER: E-MTAB-3972 | biostudies-arrayexpress |

REPOSITORIES: biostudies-arrayexpress

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Publications

Probing chromatin landscape reveals roles of endocardial TBX20 in septation.

Boogerd Cornelis J CJ   Aneas Ivy I   Sakabe Noboru N   Dirschinger Ralph J RJ   Cheng Quen J QJ   Zhou Bin B   Chen Ju J   Nobrega Marcelo A MA   Evans Sylvia M SM  

The Journal of clinical investigation 20160627 8

Mutations in the T-box transcription factor TBX20 are associated with multiple forms of congenital heart defects, including cardiac septal abnormalities, but our understanding of the contributions of endocardial TBX20 to heart development remains incomplete. Here, we investigated how TBX20 interacts with endocardial gene networks to drive the mesenchymal and myocardial movements that are essential for outflow tract and atrioventricular septation. Selective ablation of Tbx20 in murine endocardial  ...[more]

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