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GenomicsHigh-resolution mapping of transcription factor binding sites on native chromatin
Sequence-specific DNA-binding proteins including transcription factors (TFs) are key determinants of gene regulation and chromatin architecture. Formaldehyde cross-linking and sonication followed by Chromatin ImmunoPrecipitation (X-ChIP) and sequencing is widely used for genome-wide profiling of pro...
ORGANISM(S): Drosophila melanogaster 
2013-12-14 | E-GEOD-45672 | biostudies-arrayexpress
TranscriptomicsGenetic Risk Factors for Type 2 Diabetes: A Trans-Regulatory Genetic Architecture?
Transcriptional Profiling of Insulin Sensitive and Insulin Resistant Samples Sixty two participants at the tail ends of the distribution of insulin sensitivity adjusted for age, gender and natural logarithm of BMI for each ethnic group separately. Individuals at tail ends were well matched for age, ...
ORGANISM(S): Homo sapiens 
2013-04-16 | E-GEOD-40234 | biostudies-arrayexpress
TranscriptomicsTissue-specific nuclei purification from animal models for genome-wide expression and chromatin profiling.
Here we describe a method for purifying nuclei from specific tissues of animal models that allows simultaneous analysis of both expression and chromatin profiles. The method is based on in vivo labeling of the nuclear envelope and subsequent affinity purification. We describe the use of the method t...
ORGANISM(S): Caenorhabditis elegans 
2011-12-05 | E-GEOD-31602 | biostudies-arrayexpress
TranscriptomicsRNAi knock down of spotted-dick in Drosophila S2 cells
Drosophila S2 cells treated with either GFP or spotted-dick dsRNA and incubated for 5 days. There are three replicates for each condition.
ORGANISM(S): Drosophila melanogaster 
2007-07-06 | E-GEOD-2623 | biostudies-arrayexpress
TranscriptomicsSpotted Dick Chromatin Immunopurification
Chromatin enriched by immunopurification with antibodies against the Drosophila transcription factor spotted dick compared with pre immune sera on a cDNA microarray
ORGANISM(S): Drosophila melanogaster 
2010-06-10 | E-GEOD-2632 | biostudies-arrayexpress
TranscriptomicsTranscription profiling of human monocytes reveals leukotriene D4 induces gene expression through cysteinyl leukotriene type I receptor.
Background: Cysteinyl leukotrienes (cysLTs) are important mediators of innate immune responsiveness and chronic inflammatory diseases. CysLTs acting through cysteinyl leukotriene receptors may influence the migration and activity of cells such as eosinophils, monocytes and dendritic cells. Objective...
ORGANISM(S): Homo sapiens 
2008-06-15 | E-GEOD-7807 | biostudies-arrayexpress
GenomicsEpigenome characterization at single base-pair resolution
We have combined standard micrococcal (MNase) digestion of nuclei with a modified protocol for construction paired-end DNA sequencing libraries to map both nucleosomes and subnucleosome-sized particles at single base-pair resolution throughout the budding yeast genome. We found that partially unwrap...
ORGANISM(S): Saccharomyces cerevisiae 
2011-10-26 | E-GEOD-30551 | biostudies-arrayexpress
TranscriptomicsTranscription profiling of murine db/db diabetic kidney to identify adipose differentiation-related protein and regulators of lipid homeostasis.
RNA of Kidney was extracted using a Quiagen RNeasy kit. Targets were produced using standard Affymetrix procedures from about 8ug of total RNA.
ORGANISM(S): Mus musculus 
2007-12-19 | E-GEOD-642 | biostudies-arrayexpress
ProteomicsMudPIT analyses of the chromatin associated proteins isolated from the nucleus of Plasmodium falciparum at three time-points of the intraerythrocytic development cycle
Parasite cultures- Plasmodium falciparum strain 3D7 was cultured in human O+ erythrocytes at 5% hematocrit. Cultures were synchronized at ring stage with 5% (w/v) D-sorbitol treatments. Parasite cultures (8% parasitemia in 5% hematocrit) were harvested 48 hours after the first sorbitol treatment (ri...
ORGANISM(S): Plasmodium Falciparum 3d7 (ncbitaxon:36329) 
2018-06-28 | MSV000082520 | MassIVE
TranscriptomicsArray results for differential gene expression in 661W, a mouse cone photoreceptor-derived cell line, comparing cells incubated with vehicle controls vs. those treated with either of two 7-dehdyrocholesterol-derived oxysterols or cholesterol
RELEVANCE: Smith-Lemli-Opitz syndrome (SLOS) is a human disease caused by mutations in the gene coding for the enzyme DHCR7 (7-dehydrocholesterol (7DHC) reductase), which catalyzes the final step of cholesterol biosynthesis. Accumulated 7DHC in tissues and body fluids of SLOS patients gives rise t...
ORGANISM(S): Mus musculus 
2021-03-20 | E-MTAB-10055 | biostudies-arrayexpress
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