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TranscriptomicsMapping of mononucleosomal DNA in wild type Drosophila
Crosslinked chromatin from wild-type flies was digested with micrococcal nuclease. Mononucleosomal DNA was gel-purified and hybridized to Affymetrix tiling arrays.
ORGANISM(S): Drosophila melanogaster 
2008-05-20 | E-MEXP-1519 | biostudies-arrayexpress
TranscriptomicsChromatin immunopreciptitation of Drosophila DNA using antibodies against RMA polymerase II CTD repeats
Crosslinked chromatin from wild type flies was sonicated into small fragments, and used in ChIP reactions using a monoclonal antibody, 8WG16, against RNA polymerase II CTD repeats. Input material was removed prior to chIP, and a control chIP was incubated with normal rabbit IgG. The Input and IPed...
ORGANISM(S): Drosophila melanogaster 
2008-05-20 | E-MEXP-1520 | biostudies-arrayexpress
TranscriptomicsChromatin immunoprecipitation of Drosophila DNA to identify nucleosomes bound by RNA polymerase II
Crosslinked chromatin was digested with Micrococcal nuclease and immunopurified for Rpb3, a subunit of RNA Polyermase II. chIP'd DNA was hybridized to Drosophila tiling arrays and nucleosomes that were bound by Pol II were mapped.
ORGANISM(S): Drosophila melanogaster 
2008-05-20 | E-MEXP-1515 | biostudies-arrayexpress
GenomicsDynamically reorganized chromatin is the key for the reprogramming of somatic cells to pluripotent cells
We investigated genome-wide nucleosome coverage and histone methylation occupancies in somatic MEFs, intermediate pre-iPSCs and fully reprogrammed iPSCs. We found that nucleosome occupancies increased in promoter regions and decreased in intergenic regions in pre-iPSCs and then recover to an interme...
ORGANISM(S): Mus musculus 
2015-12-13 | E-GEOD-60627 | biostudies-arrayexpress
TranscriptomicsTranscriptome analysis of aflatoxin B1 (AFB1) induced hepatocellular carcinoma (HCC) and AFB1 resistant liver sample from rats
Applied de novo assembly, both protein coding and non-coding RNAs were profiled in AFB1 induced HCC and AFB1 resistant liver sample. Compared with normal liver, the perturbation on transcriptome was revealed in multiple aspects, implying the potential mechanism of toxic resistance. All rats were ran...
ORGANISM(S): Rattus norvegicus 
2016-01-20 | E-GEOD-70097 | biostudies-arrayexpress
TranscriptomicsIndistinguishable Nucleosome Organizations in Embryonic Stem Cells (ESCs) and Induced Pluripotent Stem Cells (iPSCs) Reprogrammed from Somatic Cells Belonging to Three Different Germ Layers[RNA-seq]
Nucleosome organization determines chromatin state, which subsequently controls genes expression or silencing. Nucleosome remodeling occurs during somatic cell reprogramming, but it remains undetermined to what degree the re-established nucleosome organization resembles between induced pluripotent s...
ORGANISM(S): Mus musculus 
2014-12-09 | E-GEOD-46716 | biostudies-arrayexpress
TranscriptomicsChromatin immunoprecipitation of yeast and CoIP-chip of nucleosome-enriched chromatin after immunoprecipitation for specific factors
ChIP-chip & CoIP-chip of nucleosome enriched chromatin after IP of specific factors
ORGANISM(S): Saccharomyces cerevisiae 
2009-09-25 | E-MEXP-1847 | biostudies-arrayexpress
TranscriptomicsChromatin immunoprecipitation of yeast to identify genes whose distribution of TBP and Sua7 was consistent with TFIIB (Sua7) mediated gene looping
ChIP-chip analysis of TBP and Sua7 was performed to identify genes whose distribution of TBP and Sua7 was consistent with TFIIB (Sua7) mediated gene looping. Two biological replicates were performed for each factor and the mock IP control.
ORGANISM(S): Saccharomyces cerevisiae 
2009-03-03 | E-MEXP-1584 | biostudies-arrayexpress
TranscriptomicsChromatin immunoprecipitation of Drosophila Schneider 2 cells using NELF-E and NELF-B antibodies
ChIP-chip analysis of GAGA factor and NELF in Drosophila S2 cells
ORGANISM(S): Drosophila melanogaster 
2008-04-04 | E-MEXP-1547 | biostudies-arrayexpress
TranscriptomicsDifferential expression of microRNAs in adipose stem cells
Human adipose derived stem cells (hADSCs) are an attractive multipotent stem cell source with therapeutic applicability in diverse fields for the repair and regeneration of acute and chronically damaged tissues.In the last few years there has been increased interest in hADSCs for tissue engineering ...
ORGANISM(S): Homo sapiens 
2013-06-25 | E-GEOD-48227 | biostudies-arrayexpress
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