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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
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 human iPSCs, iPSC-derived ventralized cells, neurons, and hypothalamic neurons where regions of the genome have been deleted that contain the single nucleotide polymorphisms rs9972768 or rs2650492
Three iPSC lines were differentiated into hypothalamic neuron precursors. Line 1 had an enhancer containing rs9972768 deleted, line 2 had an enhancer containing rs2650492 deleted, and the third line was wild-type. Cells were collected for RNA-seq at 4 time points, 1) iPSCs 2) Ventralized cells 3) Ne...
ORGANISM(S): Homo sapiens 
2021-05-22 | E-MTAB-10464 | biostudies-arrayexpress
TranscriptomicsGene expression profiling (RNA-seq) experiment where CRISPRi guides were designed to target the human rs2650492 variant, the promoter of GAPDH, and a non-coding region near TUFM in HEK293t cells
CRISPRi guides were designed to target genomic regions of interest in HEK293t cells. Four guides were designed per region (see processed file). These regions were an enhancer located in the 3’UTR of SBK1 which harbors the obesity GWAS variant rs2650492, the promoter of GAPDH as a positive control, a...
ORGANISM(S): Homo sapiens 
2021-07-14 | E-MTAB-10460 | 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
GenomicsMassively parallel reporter assays (MPRAs) of 175bp human genomic fragments containing variants in high LD with lead variants from obesity GWAS associations.
We performed a massively parallel reporter assay on 2,396 genomic regions containing single nucleotide polymorphisms that are in high linkage disequilibrium with 97 lead variants from an obesity GWAS (PMID: 25673413). Regions were transfected into human SGBS preadipocytes, SGBS mature adipocytes, 3T...
ORGANISM(S): Mus musculus 
2021-05-22 | E-MTAB-10463 | biostudies-arrayexpress
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