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GenomicsMapping polycomb complexes in human and mouse embryonic stem cells
In embryonic stem (ES) cells, bivalent chromatin domains with overlapping repressive (H3 lysine 27 tri-methylation) and activating (H3 lysine 4 tri-methylation) histone modifications mark the promoters of more than 2000 genes. To gain insight into the structure and function of bivalent domains, we m...
ORGANISM(S): Mus musculus 
2008-11-01 | E-GEOD-13084 | biostudies-arrayexpress
GenomicsEpigenomic profiling of 3T3-L1 adipogenesis
3T3-L1 pre-adipocyte cells were grown to confluence and induced to differentiate in adipogenic media. Examination of 6 histone modifications and CTCF at 4 time points and PPARG at 1 time point using ChIP-Seq
ORGANISM(S): Mus musculus 
2010-09-30 | E-GEOD-21365 | biostudies-arrayexpress
GenomicsEpigenomic profiling of hASC adipogenesis
hASC pre-adipocyte cells were grown to confluence and induced to differentiate in adipogenic media. Examination of 6 histone modifications and CTCF at 4 time points and PPARG at 1 time point using ChIP-Seq
ORGANISM(S): Homo sapiens 
2010-09-30 | E-GEOD-21366 | biostudies-arrayexpress
TranscriptomicsExpression profiling of 3T3-L1 adipogenesis
3T3-L1 pre-adipocyte cells were grown to confluence and induced to differentiate in adipogeneic media. Two technical replicates from four time points relative to induction of adipogenesis (day 0)
ORGANISM(S): Mus musculus 
2010-09-30 | E-GEOD-20696 | biostudies-arrayexpress
TranscriptomicsExpression profiling of human adipose stromal cell (hASC) adipogenesis
Human abdominal adipose tissue was obtained with informed consent from a 33-year old Caucasian female (BMI = 32.96 Kg/m2) undergoing lipoaspiration. Adipose stromal cells (hASCs) were isolated and differentiated into adipocytes in vitro. Two technical replicates from 9 time points realtive to induct...
ORGANISM(S): Homo sapiens 
2010-09-30 | E-GEOD-20697 | biostudies-arrayexpress
TranscriptomicsMicroRNA expression profiling of human adipose stromal cell (hASC) adipogenesis
Human abdominal adipose tissue was obtained with informed consent from a 33-year old Caucasian female (BMI = 32.96 Kg/m2) undergoing lipoaspiration. Adipose stromal cells (hASCs) were isolated and differentiated into adipocytes in vitro. Two technical replicates from 9 time points relative to induct...
ORGANISM(S): Homo sapiens 
2010-09-30 | E-GEOD-20699 | biostudies-arrayexpress
GenomicsCharacterizing the profiles of Ebf1 in mouse fat cells (ChIP-seq)
ChIP-seq data from mouse adipocyte. Mature 3T3-L1 adipocytes were cross-linked with 1% formaldehyde 10 days after induction with MDI. Frozen cell pellets were submitted to the Broad Institute for subsequent analysis of Ebf1-bound regions using anti-Ebf1 antibody (Abnova H00001879-M01).
ORGANISM(S): Mus musculus 
2014-06-10 | E-GEOD-58330 | biostudies-arrayexpress
TranscriptomicsSystematic dissection and optimization of inducible enhancers in human cells using a massively parallel reporter assay
We apply a massively parallel reporter assay (MPRA) that relies on mRNA and plasmid tag sequencing (Tag-Seq) to compare the regulatory activities of more than 27,000 distinct variants of two inducible enhancers in human cells: a synthetic cAMP-regulated enhancer and the virus-inducible interferon be...
ORGANISM(S): Escherichia coli 
2012-02-26 | E-GEOD-31982 | biostudies-arrayexpress
GenomicsGenome-scale DNA methylation maps of pluripotent and differentiated cells
We report the generation and analysis of genome-scale DNA methylation profiles at nucleotide resolution in mammalian cells. Using high-throughput Reduced Representation Bisulfite Sequencing (RRBS) and single-molecule-based sequencing, we generated DNA methylation maps covering the vast majority of C...
ORGANISM(S): Mus musculus 
2008-07-06 | E-GEOD-11034 | biostudies-arrayexpress
TranscriptomicsCellular source and mechanisms of high transcriptome complexity in the mammalian testis (RNA-Seq organs)
Understanding  the  extent  of  genomic  transcription  and  its  functional  relevance  is  a  central  goal  in  genomics research. However, detailed genome‐wide investigations of transcriptome complexities in major mammalian organs  and  their  underlying  cellular  sources,  transcriptional  mec...
ORGANISM(S): Mus musculus 
2013-06-20 | E-GEOD-43721 | biostudies-arrayexpress
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