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MetabolomicsProtein-metabolite interactomics of carbohydrate metabolism reveal regulation of lactate dehydrogenase

Metabolic networks are interconnected and influence diverse cellular processes. The protein-metabolite interactions that mediate these networks are frequently low affinity and challenging to systematically discover. We developed mass spectrometry integrated with equilibrium dialysis for the disco...

2023-08-07 | MTBLS7237 | MetaboLights
TranscriptomicsThe systematic shortening of 3’ UTRs has limited influence on the relative change in protein abundance in proliferating cells
Alternative polyadenylation is an important cellular mechanism that enables generation of mRNA isoforms that differ in their 3' untranslated regions (3' UTRs) and consequently in their susceptibility to miRNA and RNA binding protein mediated regulation. A dramatic change in polyadenylation site usa...
ORGANISM(S): Homo sapiens 
2014-09-25 | E-GEOD-54950 | biostudies-arrayexpress
TranscriptomicsComparison of relative transcript and protein abundance in Plasmodium falciparum schizont stage parasites
Background: Malaria is a one of the most important infectious diseases and is caused by parasitic protozoa of the genus Plasmodium. Previously, the quantitative characterization of the P. falciparum transcriptome demonstrated that the strictly controlled progression of these parasites through their ...
ORGANISM(S): Plasmodium falciparum 
2010-05-05 | E-GEOD-13251 | biostudies-arrayexpress
TranscriptomicsRNA-Seq profiling of single bovine oocyte transcript abundance and its modulation by cytoplasmic polyadenylation
Polyadenylated RNA from individual germinal vesicle and metaphase II ooyctes was amplified and processed for Illumina sequencing. Increases in polyadenylated transcript abundance were observed and are likely due to cytoplasmic polyadenylation. Transcriptomic analysis of GV and MII bovine oocytes.
ORGANISM(S): Bos taurus 
2015-07-08 | E-GEOD-61717 | biostudies-arrayexpress
TranscriptomicsGlobal absolute quantification reveals tight regulation of protein expression in single Xenopus eggs
Recent developments in genomic sequencing technology have enabled comprehensive transcriptome analyses of single cells. In contrast, single cell proteomics analyses have been restricted to targeted analyses, for example using flow cytometry with GFP fusions or mass cytometry. Here, we performed glob...
ORGANISM(S): Xenopus laevis 
2014-08-04 | E-GEOD-56586 | biostudies-arrayexpress
GenomicsThe systematic shortening of 3’ UTRs has limited influence on the relative change in protein abundance in proliferating cells
The systematic shortening of 3’ UTRs has limited influence on the relative change in protein abundance in proliferating cells
PRJNA238137 | ENA
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
TranscriptomicsLIN28 binds messenger RNAs at GGAGA motifs and regulates splicing factor abundance
This SuperSeries is composed of the following subset Series: GSE39855: LIN28 binds messenger RNAs at GGAGA motifs and regulates splicing factor abundance (splicing array) GSE39872: LIN28 binds messenger RNAs at GGAGA motifs and regulates splicing factor abundance (HTS) Refer to individual Series
ORGANISM(S): Homo sapiens 
2012-09-10 | E-GEOD-39873 | biostudies-arrayexpress
TranscriptomicsLIN28 binds messenger RNAs at GGAGA motifs and regulates splicing factor abundance (HTS)
LIN28 is a conserved RNA binding protein implicated in pluripotency, reprogramming and oncogenesis. Previously shown to act primarily by blocking let-7 microRNA (miRNA) biogenesis, here we elucidate distinct roles of LIN28 regulation via its direct messenger RNA (mRNA) targets. Through cross-linking...
ORGANISM(S): Homo sapiens 
2012-09-10 | E-GEOD-39872 | biostudies-arrayexpress
TranscriptomicsNeuCode metabolic labeling reveals a high correlation between mRNA and protein abundance during salt adaptation in S. cerevisiae.
Transcriptome profiling of yeast strains responding to 0.7M NaCl treatment for 30 or 60 minutes. This study identified affected genes under both conditions tested. Transcript and protein changes were compared to determine mRNAs contribution to protein levels during salt acclimation. Two-color fluore...
ORGANISM(S): Saccharomyces cerevisiae 
2013-12-21 | E-GEOD-53549 | biostudies-arrayexpress
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