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ProteomicsSequential digestion with Trypsin and Elastase in cross-linking/mass spectrometry
Cross-linking/mass spectrometry has become an important approach for studying protein structures and protein-protein interactions. The amino acid composition of some protein regions impedes the detection of cross-linked residues, although it would yield invaluable information for protein modelling. ...
ORGANISM(S): Homo sapiens (Human) Schizosaccharomyces pombe 
2019-03-07 | PXD011459 | Pride
Lc-msms Cross-linking Yeast Human taf4-12 complex 
TranscriptomicsH3K4me3 Interactions with TAF3 Regulate Preinitiation Complex Assembly and Selective Gene Activation [HIT-Seq]
Histone modifications regulate chromatin-dependent processes, yet the mechanisms by which they contribute to specific outcomes remain unclear. H3K4me3 is a prominent histone mark that is associated with active genes and promotes transcription through interactions with effector proteins that include ...
ORGANISM(S): Mus musculus 
2013-03-02 | E-GEOD-43540 | biostudies-arrayexpress
GenomicsInterconversion between active and inactive TATA-binding protein transcription complexes in the mouse genome.
The conserved core domain of the TATA binding protein (TBP) interacts with multiple partners forming the complexes required for transcription by RNA Polymerases I, II and III. We use genetically modified mouse embryonic fibroblasts to show that many TBP core domain mutants complement loss of endogen...
ORGANISM(S): Mus musculus 
2012-03-01 | E-GEOD-27908 | biostudies-arrayexpress
TranscriptomicsPP003
Microarray experiment 2: comparison of mRNA expression levels between iPS clones #1, 4, 5 and ES cells
ORGANISM(S): Mus musculus 
2013-03-22 | E-TABM-1218 | biostudies-arrayexpress
TranscriptomicsGenome-wide analysis of histone modification, protein-DNA binding, cytosine methylation and transcriptome data in mouse and human ES cells and pig iPS cells
Genome-wide analysis of histone modification (H2AZ, H3K27ac, H3K27me3, H3K36me3, H3K4me1, H3K4me2, H3K4me3 and H3K9me3), protein-DNA binding (TAF1, P300, Pou5f1 and Nanog), cytosine methylation and transcriptome data in mouse and human ES cells and pig iPS cells We generated histone modification da...
ORGANISM(S): Homo sapiens 
2012-02-28 | E-GEOD-36114 | biostudies-arrayexpress
TranscriptomicsNormal human fibroblast cell line bystander effects by Carbon ion irradiation
We have recently investigated the response of irradiated and bystander fibroblasts to heavy ions in confluent cultures exposed randomly to broadbeam and selectively to precision microbeam that target a predefined fraction of cells with counted number of particle(s), respectively, and found the diffe...
ORGANISM(S): Homo sapiens 
2008-09-02 | E-GEOD-8993 | biostudies-arrayexpress
TranscriptomicsTargeting the Phosphoinositide 3-Kinase p110-alpha Isoform Impairs Cell Proliferation, Survival and Tumor Growth in Small Cell Lung Cancer
Purpose: The phosphoinositide 3-kinase (PI3K) pathway is fundamental for cell proliferation and survival and is frequently altered and activated in neoplasia, including carcinomas of the lung. In this study we investigated the potential of targeting the catalytic class IA PI3K isoforms in small cell...
ORGANISM(S): Homo sapiens 
2012-12-01 | E-GEOD-40564 | biostudies-arrayexpress
TranscriptomicsEarly loss of bone mass in the SOD1(G93A) ALS mouse model is associated with loss of sensitivity to osteogenic factors and enhanced bone senescence
Amyotrophic lateral sclerosis (ALS) is conceptualized as a progressive motor neuron degeneration, but emerging evidence suggests systemic manifestations beyond the neuromuscular system. Altered bone structure and metabolism has been shown to be part of the ALS clinical presentation; it remains uncle...
ORGANISM(S): Mus musculus 
2025-11-30 | E-MTAB-15734 | biostudies-arrayexpress
TranscriptomicsAnalysis of the Haloferax volcanii Transcriptome
In this study the transcriptome of Haloferax volcanii DS70 (Wendoloski D, Ferrer C, Dyall-Smith ML. Microbiology. 2001, 147: 959-64), grown under of a variety of conditions, was mapped using a custom genome-wide tiled array consisting of 25 nt probes spaced in 35 nt windows. H. volcanii is a faculta...
ORGANISM(S): Haloferax volcanii 
2010-09-08 | E-GEOD-18066 | biostudies-arrayexpress
TranscriptomicsA central role for TFIID in the pluripotent transcription circuitry [PP003]
Pluripotent stem cells can be isolated from early embryos or induced by cell fusion, somatic nuclear transfer, or expression of a selected set of transcription factors. Embryonic stem (ES) cells are characterized by an open chromatin configuration and high transcription levels achieved via autoregul...
ORGANISM(S): Mus musculus 
2013-03-21 | E-GEOD-33645 | biostudies-arrayexpress
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