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TranscriptomicsTranscription profiling of human regulatory and helper T cells following activation with anti-CD3 and anti-CD28 for 4 and 16 hours
Primary non-expanded human T cell populations were isolated by leukapheresis from 10 healthy donors. Out of each donor > 95% pure CD4-positive Th cell and >95% pure regulatory T cell populations were purified. Two affymetrix exon arrays were hybridized from each donor both populations as resting, no...
ORGANISM(S): Homo sapiens 
2010-05-18 | E-TABM-779 | biostudies-arrayexpress
TranscriptomicsJIL-1 RNAi in Drosophila S2 Cells
Profiling of changes in steady state RNA levels upon RNAi-mediated knockdown of the chromosomal kinase JIL-1 in Drosophila S2 cells. Drosophila S2 cells were incubated 7 days after treatment with 10 µg of dsRNA directed against GST/EGFP or JIL-1, respectively. 5 biological replicates per target have...
ORGANISM(S): Drosophila melanogaster 
2011-02-01 | E-GEOD-22620 | biostudies-arrayexpress
ProteomicsTransforming chemical proteomics into high-throughput method using SP2E workflow.
Protein post-translational modifications (PTMs) play a critical role in regulation of protein catalytic activity, localization and protein-protein interactions. An attachment of PTMs onto proteins significantly diversify their structure and function resulting in so called proteoforms. However, the s...
ORGANISM(S): Homo sapiens (Human) 
2022-07-04 | PXD033644 | Pride
Method development Ampylation 
ProteomicsAMPylation profiling during neuronal differentiation reveals extensive variation on lysosomal proteins
Protein AMPylation is a prevalent posttranslational modification with an emerging role in neurodevelopment and neurodegeneration. Although in metazoans the two highly conserved protein AMP-transferases together with diverse group of AMPylated proteins have been identified using chemical proteomics a...
ORGANISM(S): Homo sapiens (Human) 
2021-12-01 | PXD023873 | Pride
Lysosome Ampylation 
TranscriptomicsChromosomal High Affinity Binding Sites for the Drosophila Dosage Compensation Complex.
We identified 131 high affinity sites of the Drosophila DCC combining residual ChIP-chip profiles after differential crosslinking and RNAi-mediated knockdown of spreading factors Keywords: ChIP-chip MSL1 and MSL2 ChIP under various conditions including differential crosslinking and RNAi against MOF...
ORGANISM(S): Drosophila melanogaster 
2008-12-13 | E-GEOD-12292 | biostudies-arrayexpress
GenomicsActive Promoters give rise to false positive 'Phantom Peaks' in ChIP-Seq experiments
We applied ChIP-seq to map the chromosomal binding sites for two nucleosome remodeling complexes containing the ATPase ISWI, ACF and RSF, in Drosophila embryos. Employing a panel of polyclonal and monoclonal antibodies directed against their signature subunits, ACF1 and RSF1, robust profiles were ob...
ORGANISM(S): Drosophila melanogaster 
2015-07-10 | E-GEOD-67323 | biostudies-arrayexpress
TranscriptomicsRNAi profiling of Drosophila SL2 cells knocked down for ISWI
Profiling of changes in steady state RNA levels upon RNAi-mediated knockdown of the nucleosome remodeling ATPase ISWI in Drosophila SL2 cells. Quantitation of the corresponding proteomes has been performed to describe transcriptome-proteome relations. The analysis indicates a limited correlation of ...
ORGANISM(S): Drosophila melanogaster 
2008-10-25 | E-GEOD-11164 | biostudies-arrayexpress
TranscriptomicsAnalysis of genome-wide binding of the insulator factors CTCF and CP190
We identified about 3000 CTCF sites in the genome. In addition to binding to CTCF sites we found CP190 to bind to transcriptional start sites of actively transcribed genes where it inversely correlates with nucleosome occupancy. Keywords: ChIP-chip CTCF and CP190 ChIP. 2 biological replicates per e...
ORGANISM(S): Drosophila melanogaster 
2010-05-05 | E-GEOD-12749 | biostudies-arrayexpress
TranscriptomicsDifferential Chromatin Binding of the Drosophila Dosage Compensation Complex
This SuperSeries is composed of the SubSeries listed below. Refer to individual Series
ORGANISM(S): Drosophila melanogaster 
2012-12-11 | E-GEOD-37865 | biostudies-arrayexpress
TranscriptomicsThe nucleosome remodeler SNF2L modulates WNT signaling for cellular homeostasis
ISWI is an evolutionary conserved ATPase that catalyzes nucleosome remodeling in several different complexes. Two mammalian ISWI orthologs, SNF2H and SNF2L, have specialized functions despite their high similarity. Due to the lack of reagents the functions of SN2L in human cells had not been establi...
ORGANISM(S): Homo sapiens 
2012-05-10 | E-GEOD-30471 | biostudies-arrayexpress
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