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Proteomics,MultiomicsPervasive, coordinated protein level changes driven by transcript isoform switching during meiosis in yeast
To better understand the gene regulatory mechanisms that program developmental processes, we carried out simultaneous, genome-wide measurements of mRNA, translation and protein through meiotic differentiation in budding yeast.
ORGANISM(S): Saccharomyces Cerevisiae (ncbitaxon:4932) 
2018-01-02 | MSV000081874 | MassIVE
ProteomicsGlobal proteome remodeling during ER stress involves Hac1-driven expression of long undecoded transcript isoforms
Cellular stress responses often require transcription-based activation of gene expression to promote cellular adaptation. Whether general mechanisms exist for stress-responsive gene down-regulation is less clear. A recently defined mechanism enables both up- and down-regulation of protein levels for...
ORGANISM(S): Saccharomyces Cerevisiae (ncbitaxon:4932) 
2018-06-12 | MSV000082454 | MassIVE
TranscriptomicsDynamic profiling of the protein life cycle in response to pathogens (RNA-seq)
Protein expression is regulated by production and degradation of mRNAs and proteins, but their specific relationships remain unknown. We combine measurements of protein production and degradation and mRNA dynamics to build a quantitative genomic model of the differential regulation of gene expressio...
ORGANISM(S): Mus musculus 
2015-03-06 | E-GEOD-59784 | biostudies-arrayexpress
ProteomicsDynamic profiling of the protein life cycle in response to pathogens (protein)
Protein expression is regulated by production and degradation of mRNAs and proteins, but their specific relationships remain unknown. We combine measurements of protein production and degradation and mRNA dynamics to build a quantitative genomic model of the differential regulation of gene expressio...
ORGANISM(S): Mus musculus 
2015-03-06 | E-GEOD-59792 | biostudies-arrayexpress
Proteomics,MultiomicsDynamic profiling of the protein life cycle in response to pathogens
Jovanovic M,Rooney M, Mertins P, Przybylski D, Chevrier N, Satija R, Rodriguez EH, Fields AP, Schwartz S, Raychowdhury R, Mumbach M, Eisenhaure T, Rabani M, Gennert D, Lu D, Delorey T, Weissman JS, Carr SA, Hacohen N, Regev A, submitted 2015. Protein expression is regulated by production and degrada...
ORGANISM(S): Mus Musculus (ncbitaxon:10090) 
2015-01-15 | MSV000078994 | MassIVE
ProteomicsSmall and large ribosomal subunit deficiencies lead to distinct gene expression signatures that reflect cellular growth rate
Levels of the ribosome, the conserved molecular machine that mediates translation, are tightly linked to cellular growth rate. In humans, ribosomopathies are diseases associated with cell-type-specific pathologies and reduced ribosomal protein (RP) levels. Because gene expression defects resulting f...
ORGANISM(S): Saccharomyces Cerevisiae (ncbitaxon:4932) 
2018-10-12 | MSV000083033 | MassIVE
Proteomics,MultiomicsElectrophilic stress induced by itaconate and its derivatives regulates ATF3-IKBZ inflammatory axis independently of Nrf2 induction
Metabolic regulation recently emerged as a novel powerful principle guiding immune responses. The natural metabolite itaconate and its membrane permeable derivative dimethyl itaconate (DI) were recently shown to selectively inhibit a subset of cytokines during macrophage activation, yet the precise ...
ORGANISM(S): Mus Musculus (ncbitaxon:10090) 
2018-02-25 | MSV000082101 | MassIVE
TranscriptomicsPurification of TAP::ALG-1 complexes and associated RNA from mixed-stage TAP::ALG-1 transgenic (WS4303) and wild-type (N2) animals
To discover new miRNA targets, we generated a C. elegans transgenic line expressing a functional N-terminally Tandem Affinity Purification (TAP) tagged ALG-1 protein We purified TAP::ALG-1 complexes from mixed-stage TAP::ALG-1 transgenic (WS4303) and wild-type (N2, serving as a mock control) animals...
ORGANISM(S): Caenorhabditis elegans 
2012-03-01 | E-GEOD-32941 | biostudies-arrayexpress
TranscriptomicsIdentification of miRNA target genes in C. elegans by RIP-chip-SRM
RIP-chip-SRM : a New Combinatorial Large Scale Approach Identifies a Set of Translationally Regulated bantam/miR 58 Targets in C. elegans RNA binding protein immunopurification + microarray + targeted protein quantification via Selected Reaction Monitoring This SuperSeries is composed of the follow...
ORGANISM(S): Caenorhabditis elegans 
2012-03-01 | E-GEOD-32944 | biostudies-arrayexpress
TranscriptomicsMicroarray analysis of TAP::ALG-1 associated RNAs isolated from synchronized 'wild-type' animals and 'mir-58' mutants
To discover new miRNA targets, we generated a C. elegans transgenic line expressing a functional N-terminally Tandem Affinity Purification (TAP) tagged ALG-1 protein (C. elegans strain WS4303). We crossed the TAP::ALG-1 transgene into the mir-58(n4640) mutant background to generate the strain WS5041...
ORGANISM(S): Caenorhabditis elegans 
2012-03-01 | E-GEOD-32942 | biostudies-arrayexpress
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