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TranscriptomicsExpression data from hESCs, hiPSCs and human fibroblasts.
Detailed analysis comparing hiPSC lines that were newly generated and compared them to already established hiPSC lines We used microarrays to detail various hiPSC lines to confirm faithful reprogramming. hESCs, hiPSCs and human fibroblasts for RNA extraction and hybridization on Affymetrix arrays.
ORGANISM(S): Homo sapiens 
2010-08-06 | E-GEOD-22392 | biostudies-arrayexpress
TranscriptomicsFemale human iPS cells retain an inactive X-chromosome
Comparison of human iPSC lines, ESC and fibroblasts to determine their expression patterns. All early passage female lines profiled expressed XIST RNA which is an indicator of an inactive X chromosome. Genes on the X-chromosome were also analyzed for overall levels of gene expression compared to h...
ORGANISM(S): Homo sapiens 
2010-08-18 | E-GEOD-22246 | biostudies-arrayexpress
TranscriptomicsHistone H3 lysine 56 acetylation is linked to the core transcriptional network in human embryonic stem cells
Lysine 56 acetylation in the helical core of histone H3 opens yeast chromatin and enables histone gene transcription, DNA replication, DNA repair, and prevents epigenetic silencing. While K56Ac is globally abundant in yeast and flies its presence has been uncertain in mammals. We show here using mas...
ORGANISM(S): Homo sapiens 
2009-02-09 | E-GEOD-14749 | biostudies-arrayexpress
TranscriptomicsRole of the reprogramming factors in inducing pluripotency
Induced pluripotent stem (iPS) cells can be obtained from fibroblasts by expression of Oct4, Sox2, Klf4, and c-Myc. To determine how these factors induce this change in cell identity, we carried out genomewide promoter analysis of their binding in iPS and partially reprogrammed cells. Most targets i...
ORGANISM(S): Mus musculus 
2010-05-06 | E-GEOD-14012 | biostudies-arrayexpress
ProteomicsCMMB-based isopropanol gradient peptide fractionation (CIF) enables rapid and robust off-line peptide mixture fractionation in bottom-up proteomics
HEK293 cells lysates fractionated by various different methods
ORGANISM(S): Homo Sapiens (ncbitaxon:9606) 
2020-05-22 | MSV000085458 | MassIVE
ProteomicsHigh-field asymmetric waveform ion mobility spectrometry interface enhances parallel reaction monitoring on an Orbitrap mass spectrometer
High-field asymmetric waveform ion mobility spectrometry (FAIMS) enables gas phase separations on a chromatographic timescale and has become a useful tool for proteomic applications. Despite its emerg-ing utility, however, the molecular determinants underlying peptide separation by FAIMS have not be...
ORGANISM(S): Homo Sapiens (ncbitaxon:9606) 
2022-03-07 | MSV000089014 | MassIVE
TranscriptomicsExpression data from Chd1-deficient mouse ES cells (E14 cell lines) and genome-wide binding of Chd1 in parental ES cells
We used microarrays to study the effect of Chd1 loss of function in mouse ES cells. We used ChIP-chip to analyze genome-wide binding of Chd1 in normal ES cells. Mouse Embryonic Stem (ES) cells were infected with a lentiviral vector (pSicoR-mCherry) for expression of a shRNA against Chd1 and GFP (as ...
ORGANISM(S): Mus musculus 
2009-08-13 | E-GEOD-16462 | biostudies-arrayexpress
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