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Genomics4C and Capture-C in HCT116, NCM460 cells and colon tissue
One of the strongest associated type 2 diabetes (T2D) loci reported to date resides within the TCF7L2 gene. Previous studies point to the T allele of rs7903146 in intron 3 as the causal variant at this locus. To aid in the identification of the actual gene(s) under the influence of this variant, we ...
ORGANISM(S): Homo sapiens 
2016-08-15 | E-MTAB-4845 | biostudies-arrayexpress
TranscriptomicsPromoter capture-C of primary HepG2 cells
We employed a massively parallel, high resolution Capture-C based method to simultaneously characterize the genome-wide interactions of all human promoters in any cell type. We applied this approach to study the promoter interactome of HepG2 cells (3 biological replicates). We designed a custom Agil...
ORGANISM(S): Homo sapiens 
2019-03-20 | E-MTAB-7144 | biostudies-arrayexpress
TranscriptomicsCapture-C of primary human mesenchymal stem cells (MSC)-derived osteoblasts from healthy donors (differentiated with BPM2)
Capture-C of primary human mesenchymal stem cells (MSC)-derived osteoblasts from healthy donors (differentiated with BPM2)
ORGANISM(S): Homo sapiens 
2019-03-20 | E-MTAB-6862 | biostudies-arrayexpress
TranscriptomicsPromoter capture-C of primary human T Follicular Helper (TFH) cells and naive CD4-positive helper T cells from tonsils of healthy volunteers
Genome Wide Association Studies (GWAS) have been successful in yielding >60 loci for Systemic Lupus Erythematosus (SLE). However, it is known that GWAS just reports genomic signals and not necessarily the precise localization of culprit genes, with eQTL efforts only able to infer causality to a mino...
ORGANISM(S): Homo sapiens 
2020-05-12 | E-MTAB-6621 | biostudies-arrayexpress
TranscriptomicsATAC-seq of primary human T Follicular Helper (TFH) cells and naive CD4-positive helper T cells from tonsils of healthy volunteers
Genome Wide Association Studies (GWAS) have been successful in yielding >60 loci for Systemic Lupus Erythematosus (SLE). However, it is known that GWAS just reports genomic signals and not necessarily the precise localization of culprit genes, with eQTL efforts only able to infer causality to a mino...
ORGANISM(S): Homo sapiens 
2020-05-12 | E-MTAB-6617 | biostudies-arrayexpress
TranscriptomicsATAC-seq of primary mesenchymal stem cell (MSC)-derived osteoblasts (differentiated with BMP2) from 4 human donors
ATAC-seq was performed to map open chromatin regions in hMSC-derived osteoblasts
ORGANISM(S): Homo sapiens 
2019-03-20 | E-MTAB-6834 | biostudies-arrayexpress
TranscriptomicsRNA-seq of primary mesenchymal stem cells -derived osteoblasts (differentiated with BMP2) from 3 human donors
RNA-seq was performed to assess expression of coding and non-coding RNAs (especially of markers of osteoblastic differentiation)
ORGANISM(S): Homo sapiens 
2019-03-20 | E-MTAB-6835 | biostudies-arrayexpress
TranscriptomicsGWAS region focused capture-HiC of primary melanocytes from five human donors
Capture-HiC was conducted to map chromatin interactions at all melanoma GWAS identified risk-associated regions across five individual primary human melanocyte cultures. Capture-HiC baits were designed by Arima Genomics (San Diego, CA, 2x tiling, least stringent masking, XTHSBoosting) to obtain an A...
ORGANISM(S): Homo sapiens 
2025-04-24 | E-MTAB-15079 | biostudies-arrayexpress
TranscriptomicsAssay for Transposase-Accessible Chromatin sequencing (ATAC-seq) of primary melanocytes from five human donors
ATAC-seq was conducted to map open chromatin regions in five individual primary human melanocyte cultures. The ATAC libraries were sequenced using paired-end sequencing on an Illumina NovaSeq platform. In total, we sequenced 15 ATAC libraries from these five independent primary melanocyte cultures (...
ORGANISM(S): Homo sapiens 
2025-04-24 | E-MTAB-15048 | biostudies-arrayexpress
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