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TranscriptomicsRNA-seq of wild-type and Tbx20 homozygous knockout E11.5 mouse cardiomyocytes to study Tbx20's roles in embryonic and adult mouse heart function
Tbx20 is a transcription factor known to play important roles in embryonic and adult mouse heart function. Our goal in this work was to better understand the function of this gene in embryonic (E11.5) mouse cardiomyocytes that form the developing chambers, expanding our knowledge of its role in hear...
ORGANISM(S): Mus musculus 
2018-06-14 | E-MTAB-5596 | biostudies-arrayexpress
TranscriptomicsATAC-seq on endocardial cells from E12.5 mouse hearts in Tbx20 knockouts and wild type counterparts
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 s...
ORGANISM(S): Mus musculus 
2017-06-02 | E-MTAB-3972 | biostudies-arrayexpress
TranscriptomicsCircular chromatin conformation capture (4C-seq) experiments for viewpoints on the promoters of Rpgrip1l/Fto, Irx3, Irx5 and Irx6 in mouse hypothalamus
We performed 4C to analyze long-range interactions between the promoters of Rpgrip1l/Fto, Irx3, Irx5 and Irx6 and a region in the first intron of the FTO gene that has been associated with obesity. 3 whole mouse hypothalami were used to obtain the data.
ORGANISM(S): Mus musculus 
2021-03-20 | E-MTAB-10195 | biostudies-arrayexpress
TranscriptomicsPromoter capture and whole genome in situ Hi-C of human iPSC and iPSC-derived cardiomyocytes from an Yoruban individual (NA19101)
We generated Hi-C interaction maps of iPSC and iPSC-derived cardiomyocytes as a resource to help identifying regulatory elements and their target genes in these tissues.
ORGANISM(S): Homo sapiens 
2018-07-11 | E-MTAB-6014 | biostudies-arrayexpress
TranscriptomicsGene expression profiling by RNA-seq of human iPSC and iPSC-derived cardiomyocytes from an Yoruban individual (NA19101)
We generated triplicate iPSC and iPSC-derived cardiomyocytes for analysis of differential expression paired with Hi-C data
ORGANISM(S): Homo sapiens 
2018-07-11 | E-MTAB-6013 | biostudies-arrayexpress
TranscriptomicsOpen chromatin profiling (ATAC-seq) of SGBS human preadipocytes (days 0, 2, 8 and 16 of differentiation to adipocytes) and iPSC-derived hypothalamic neurons (days 12, 16 and 27 of differentiation)
Human SGBS preadipocytes were differentiated into adipocytes, and human iPSCs were differentiated into hypothalamic neurons. Cells were collected for ATAC-seq at several differentiation stages. The differentiations were performed in one biological replicate, with two technical replicates (different ...
ORGANISM(S): Homo sapiens 
2021-05-22 | E-MTAB-10462 | biostudies-arrayexpress
TranscriptomicsGene expression profiling (RNA-seq) of SGBS human preadipocytes (days 0, 2, 8 and 16 of differentiation to adipocytes) and iPSC-derived hypothalamic neurons (days 12, 16 and 27 of differentiation)
Human SGBS preadipocytes were differentiated into adipocytes, and human iPSCs were differentiated into hypothalamic neurons. Cells were collected for RNA-seq at several differentiation stages. The differentiations were performed in one biological replicate, with three technical replicates (different...
ORGANISM(S): Homo sapiens 
2021-05-22 | E-MTAB-10461 | biostudies-arrayexpress
GenomicsChIP-seq of Tbx20 tagged with GFP in E11.5 mouse hearts
We performed ChIP-seq of Tbx20 tagged with GFP in mouse hearts to identify binding sites for this transcription factor. This data set is part of the study “Endocardial Tbx20 is essential for mesenchymal and myocardial cell movements required for cardiac septation”.
ORGANISM(S): Mus musculus 
2016-06-30 | E-MTAB-3967 | biostudies-arrayexpress
TranscriptomicsIn situ promoter capture Hi-C data of differentiated SGBS human preadipocytes (days 0, 2, 8 and 16 of differentiation to adipocytes) and iPSC-derived hypothalamic neurons (days 12, 16 and 27 of differentiation)
Human SGBS preadipocytes were differentiated into adipocytes, and human iPSCs were differentiated into hypothalamic neurons. Cells were collected for in situ promoter capture Hi-C [PMID: 29988018] at several differentiation stages. The differentiations were performed in one biological replicate, wit...
ORGANISM(S): Homo sapiens 
2021-05-29 | E-MTAB-10488 | biostudies-arrayexpress
TranscriptomicsATAC-seq of iPSC-derived hypothalamic arcuate-like neuron cells
We performed ATAC-seq on iPSC-derived hypothalamic arcuate-like neuron cells to identify putative regulatory elements. All samples were derived from the same individual and from the same differentiation/cell line but ATAC-seq was performed in 3 separate experiments (3 technical replicates).
ORGANISM(S): Homo sapiens 
2021-04-01 | E-MTAB-10257 | biostudies-arrayexpress
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