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TranscriptomicsDNA methylation profiles of freshly isolated CD34+ cells and upon expansion on either tissue culture plastic (TCP) or mesenchymal stromal cells (MSCs)
Hematopoietic stem and progenitor cells (HPCs) can be maintained in vitro, but the vast majority of their progeny loses M-bM-^@M-^\stemnessM-bM-^@M-^] during culture. In this study, we have analyzed DNA methylation (DNAm) profiles of freshly isolated CD34+ cells and upon expansion on either tissue c...
ORGANISM(S): Homo sapiens 
2013-12-03 | E-GEOD-40799 | biostudies-arrayexpress
TranscriptomicsNF-kB target genes in dendritic cells
The ability of dendritic cells (DC) to initiate immunity and induce antigen-specific tolerance makes DC ideal targets for pharmacological intervention into immune responses. NF-kB factors are a family of transcriptional regulators important for DC development and function. However, the identity of N...
ORGANISM(S): Mus musculus 
2012-12-31 | E-GEOD-8009 | biostudies-arrayexpress
TranscriptomicsIn vitro Expansion of Hematopoietic Stem Induces Gene Expression Changes
Hematopoietic stem and progenitor cells (HPCs) can be maintained in vitro, but the vast majority of their progeny loses M-bM-^@M-^\stemnessM-bM-^@M-^] during culture. We have analyzed DNA methylation (DNAm) profiles of freshly isolated CD34+ cells and upon expansion on either tissue culture plastic ...
ORGANISM(S): Homo sapiens 
2013-12-03 | E-GEOD-40669 | biostudies-arrayexpress
TranscriptomicsVitamin D3 affects TNFa mediated activation of dendritic cells
The ability of dendritic cells (DC) to initiate immunity and induce antigen-specific tolerance makes DC ideal targets for pharmacological intervention into immune responses. NF-kB factors are a family of transcriptional regulators important for DC development and function. However, the identity of N...
ORGANISM(S): Mus musculus 
2012-12-31 | E-GEOD-8334 | biostudies-arrayexpress
GenomicsDetecting differential peaks in ChIP-seq signals with ODIN
Motivation: Detection of changes in DNA-protein interactions from ChIP-seq data is a crucial step in unraveling the regulatory networks behind biological processes. The simplest variation of this problem is the differential peak calling problem. Here one has to find genomic regions with ChIP-seq sig...
ORGANISM(S): Mus musculus 
2015-01-07 | E-GEOD-57563 | biostudies-arrayexpress
TranscriptomicsCellular aging can be monitored by DNA-methylation changes at specific CpG sites
Long-term culture associated changes need to be considered for quality control of cell preparations – especially in cellular therapy. Here we describe a simple method to track cellular aging based on continuous DNA-methylation changes at six specific CpG sites. This epigenetic signature can be used ...
ORGANISM(S): Homo sapiens 
2012-05-21 | E-GEOD-29661 | biostudies-arrayexpress
TranscriptomicsInduced pluripotent stem cells can be generated in bulk culture
Induced pluripotent stem cells (iPSCs) are usually clonally derived. The selection of fully reprogrammed cells generally involves picking of individual colonies with morphology similar to embryonic stem cells (ESCs). However, successfully reprogrammed cells are highly proliferative and escape from c...
ORGANISM(S): Homo sapiens 
2013-06-03 | E-GEOD-42807 | biostudies-arrayexpress
TranscriptomicsIn vitro Expansion of Hematopoietic Stem and Progenitor Cells Induces Tightly Regulated DNA-Hypermethylation
This SuperSeries is composed of the SubSeries listed below. Refer to individual Series
ORGANISM(S): Homo sapiens 
2013-12-03 | E-GEOD-40800 | biostudies-arrayexpress
ProteomicsTotal and phosphoproteome analysis of effects of topoisomerase 1 and ATR inhibitors in small cell lung cancer nuclei
Total and phosphoproteome analysis of effects of topoisomerase 1 (SN-38) and ATR (M1774) inhibitors in small cell lung cancer. Experiments performed in nuclear extract. See MetaData for more information.
ORGANISM(S): Homo Sapiens (ncbitaxon:9606) 
2023-02-21 | MSV000091336 | MassIVE
TranscriptomicsTGF-β1 Accelerates Dendritic Cell Differentiation from Common Dendritic Cell Progenitors (CDPs) and Directs Subset Specification Towards Conventional Dendritic Cells
Dendritic cells (DCs) in lymphoid tissue comprise conventional DCs (cDCs) and plasmacytoid DCs (pDCs) that develop from common DC progenitors (CDPs). CDPs are Flt3+c-kitintM-CSFR+ and reside in bone marrow. Here we describe a two-step culture system that recapitulates DC development from c-kithiFlt3...
ORGANISM(S): Mus musculus 
2010-10-04 | E-GEOD-22432 | biostudies-arrayexpress
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