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TranscriptomicsRNA-Seq based characterization of long non-coding RNA involved in respiratory viruses pathogenesis
We aimed at systematically inferring the regulatory functions of host lncRNAs in response to influenza A virus (IAV) and severe acute respiratory syndrome coronavirus (SARS-CoV) in the mouse model, using a ‘guilt-by-association’ approach which relies on finding which lncRNAs have similar expression ...
ORGANISM(S): Mus musculus 
2014-05-05 | E-GEOD-52405 | biostudies-arrayexpress
MetabolomicsConserved leaf–root metabolomic network asymmetry underpins divergent drought strategies
Plants orchestrate tissue-specific metabolic responses to osmotic stress, a major determinant of drought tolerance and crop productivity. Yet how leaf and root responses are coordinated to confer tolerance remains poorly understood. Here we show that drought tolerance in wheat is associated with a r...
2026-07-22 | MTBLS15125 | MetaboLights
GenomicsA SNF2 protein targets variable copy number repeats and thereby influences allele-specific expression
ATRX is an X-linked gene of the SWI/SNF family whose role in vivo is currently unknown. Mutations in ATRX cause syndromal mental retardation. ATRX binds to tandem repeat (TR) sequences both in heterochromatin (e.g. telomeres) and euchromatin. Genes associated with these TRs can be dysregulated when ...
ORGANISM(S): Homo sapiens 
2010-11-02 | E-GEOD-22162 | biostudies-arrayexpress
ProteomicsHeLa and U2OS long term culture adhesion isolations
Integrin adhesion complexes have been previously isolated and analysed by mass-spectrometry from cells largely spread on matrix proteins over a couple of hours. Here we wished to determine the composition of adhesion complexes from cells cultured for 72 hours under standard cell culture conditions a...
ORGANISM(S): Homo sapiens (Human) 
2019-06-03 | PXD008645 | Pride
Human Cancer cell Proteomics Integrin Adhesion complex Cell culture 
ProteomicsU2OS Adhesion Isolations +/- CytochalasinD and Neomycin
U2OS cells preferentially utilise integrin alphaV beta5 in adhesion complexes when grown under standard cell culture conditions for 3 days. AlphaV beta5 can be found in both classical 'Focal' adhesions and in novel 'Reticular' adhesions that do not associate with F-actin or other known adhesion prot...
ORGANISM(S): Homo sapiens (Human) 
2019-06-03 | PXD008680 | Pride
Human Cytod Reticular U2os Proteomics 
GenomicsChIP-seq Identification of Weakly Conserved Heart Enhancers
Accurate control of tissue-specific gene expression plays a pivotal role in heart development. However, few cardiac transcriptional enhancers have thus far been identified. Extreme non-coding sequence conservation successfully predicts enhancers active in many tissues, but fails to identify substan...
ORGANISM(S): Mus musculus 
2010-08-22 | E-GEOD-22549 | biostudies-arrayexpress
GenomicsChIP-seq Accurately Predicts Tissue-Specific Activity of Enhancers
Determining the spatial and temporal activity patterns of enhancers remains a challenge in the functional annotation of the human genome. Here, we performed genome-wide mapping of tissue-specific in vivo binding sites for the enhancer-associated protein p300 and assessed in transgenic mice the util...
ORGANISM(S): Mus musculus 
2009-02-11 | E-GEOD-13845 | biostudies-arrayexpress
ProteomicsRanBPM nuclear vs cytoplasmic interactome
Characterizing RanBPM interactors in the nucleus and cytoplasm using subcellular fractionation of HeLa cells and affinity purification mass spectrometry.
ORGANISM(S): Homo sapiens (Human) 
2022-07-14 | PXD029539 | Pride
Human Apms Ctlh complex 
ProteomicsUse of a Photo-crosslinkable Diaminoquinazoline Inhibitor for Target Identification in Plasmodium Falciparum
Diaminoquinazolines represent a privileged scaffold for antimalarial discovery, including use as putative Plasmodium histone lysine methyltransferase inhibitors (BIX-01294). Despite this, robust evidence for their molecular targets, proteome-wide, is lacking. Here we report the design and developmen...
ORGANISM(S): Plasmodium falciparum (isolate 3D7) 
2018-02-16 | PXD008164 | Pride
Plasmodium falciparum Photo-crosslinkable Diaminoquinazoline 
GenomicsLarge-Scale Discovery of Enhancers from Human Heart Tissue
Development and function of the human heart depend on the dynamic control of tissue-specific gene expression by distant-acting transcriptional enhancers. While large numbers of heart enhancers have been identified using the mouse as a model system, many of these regulatory sequences are poorly cons...
ORGANISM(S): Mus musculus 
2011-12-04 | E-GEOD-32587 | biostudies-arrayexpress
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