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ProteomicsDNA-protein affinity precipitation to identify proteins interacting with the atpT promoter in Synechocystis sp. PCC 6803
The small protein AtpΘ (encoded by gene atpT) identified in cyanobacteria becomes maximum expressed during low-energy conditions such as during darkness. In the model cyanobacterium Synechocystis sp. PCC 6803 (Synechocystis 6803), AtpΘ was demonstrated to inhibit the ATP hydrolysis activity of the F...
ORGANISM(S): Synechocystis sp. PCC 6803 
2022-04-14 | PXD027801 | Pride
Dna-protein affinity precipitation  atpt promoter  synechocystis sp. pcc 6803  cyabrb 
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
Proteomics,Multiomicsp53-regulated networks of protein, mRNA, miRNA and lncRNA expression revealed by integrated pSILAC and NGS analyses
We determined the effect of p53 activation on de novo protein synthesis using quantitative proteomics of newly synthesized proteins (pulsed stable isotope labeling with amino acids in cell culture, pSILAC) in combination with mRNA and non-coding RNA expression analyses by next generation sequencing ...
ORGANISM(S): Homo Sapiens (ncbitaxon:9606) 
2016-05-24 | MSV000079767 | MassIVE
GenomicsEvaluation of affinity-based genome-wide DNA methylation data: effects of CpG density, amplification bias and copy number variation
Abstract: DNA methylation is an essential epigenetic modification that plays a key role associated with the regulation of gene expression during differentiation but in disease states such as cancer, the DNA methylation landscape is often deregulated. There are now numerous technologies available to...
ORGANISM(S): Homo sapiens 
2010-10-08 | E-GEOD-24546 | biostudies-arrayexpress
UnknownStable and reusable calcium-responsive biopolymer for affinity precipitation of therapeutic antibodies.
Not available
S-EPMC11285868 | biostudies-literature
TranscriptomicsChip-chip of Sir3 and of Sir2, and ChAP-chip of AAR from budding yeast cells
O-acetyl-ADP-ribose (AAR) is a small metabolic molecule that is generated during NAD-dependent deacetylation by Sir2. Sir2 regulates gene expression, DNA repair, and genome stability. chromatin affinity-precipitation (ChAP) method was used to detect the chromatin fragments at which small molecules i...
ORGANISM(S): Saccharomyces cerevisiae 
2015-12-31 | E-GEOD-65672 | biostudies-arrayexpress
TranscriptomicsChromatin Affinity Precipitation-chiop of B. subtilis to gain insight into the invivo dynamics of RNA polymerase
To obtain an insight into the in vivo dynamics of RNA polymerase (RNAP) on the B. subtilis genome, we analyzed the distribution of ?A and ? subunits of RNAP and the NusA elongation factor on the genome in exponentially growing cells, using the ChAP (Chromatin Affinity Precipitation)-chip method. In ...
ORGANISM(S): Bacillus subtilis 
2010-06-29 | E-MEXP-2649 | biostudies-arrayexpress
GenomicsAn effective approach for identification of in vivo proteinM-bM-^@M-^SDNA binding sites from paired-end ChIP-Seq data
ChIP-Seq, which combines chromatin immunoprecipitation (ChIP) with high-throughput massively parallel sequencing, is increasingly being used for identification of proteinM-bM-^@M-^SDNA interactions in-vivo in the genome. In general, current algorithms for ChIP-seq reads employ artificial estimation ...
ORGANISM(S): Arabidopsis thaliana 
2010-06-04 | E-GEOD-16940 | biostudies-arrayexpress
GenomicsDynamics of MBD2 deposition across methylated DNA regions during malignant transformation of human mammary epithelial cells (1)
DNA methylation is thought to induce a transcriptional silencing through the combination of two mechanisms: the repulsion of transcriptional activators that do not recognize their binding sites when methylated, and the recruitment of transcriptional repressors that specifically bind methylated DNA. ...
ORGANISM(S): Homo sapiens 
2015-06-17 | E-GEOD-63233 | biostudies-arrayexpress
GenomicsProtein occupancy of Mycoplasma pneumoniae chromosome
Protein occupancy is a means of identifying all the regions in the genome that are bound to proteins. A simple protocol is used whereby cross-linked chromatin is digested with DNase to remove all non-crosslinked, naked, DNA. To distinguish the regions that are bound by RNA polymerase from the rest, ...
ORGANISM(S): Mycoplasma pneumoniae M129 
2016-04-01 | E-MTAB-3783 | biostudies-arrayexpress
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