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ProteomicsLC-MS of S. cerevisiae scale-down cultivations
Chemostat cultivation mode imposes selective pressure on cells, which may result slow adaptation in the physiological state over time. We applied a two-compartment scale-down chemostat system simulating glucose gradients to characterize the long-term (100’s of hours) response of S. cerevisiae to flu...
ORGANISM(S): Saccharomyces cerevisiae (Baker's yeast) 
2020-06-09 | PXD015536 | Pride
Scale-down Glucose gradients Fermentation Proteome S. cerevisiae 
ProteomicsLarge-scale Top-down Proteomics of the Arabidopsis thaliana Leaf and Chloroplast Proteomes
We present a large-scale top-down proteomics study of plant leaf and chloroplast proteins, achieving the identification of over 4700 unique proteoforms. Using capillary zone electrophoresis coupled with tandem mass spectrometry analysis of offline size-exclusion chromatography fractions, we identify...
ORGANISM(S): Arabidopsis thaliana (Mouse-ear cress) 
2023-01-05 | PXD034368 | Pride
Arabidopsis thaliana Post-translational modification Proteoform Transit peptide Singlet oxygen Chloroplast 
ProteomicsPredicting electrophoretic mobility of proteoforms for large-scale top-down proteomics
Large-scale top-down proteomics characterizes proteoforms in cells globally with high confidence and high throughput using reversed-phase liquid chromatography (RPLC)-tandem mass spectrometry (MS/MS) or capillary zone electrophoresis (CZE)-MS/MS. The false discovery rate (FDR) from the target-decoy ...
ORGANISM(S): Escherichia coli 
2020-02-17 | PXD017265 | Pride
Top-down proteomics Electrophoretic mobility Cze-ms Proteoform 
TranscriptomicsRNA-Seq of rRNA depleted circulating endothelial progenitor cells (cEPCs) in trisomy 21 and euploid samples
Massive-scale RNA-seq on rRNA-depleted samples allowed us to survey in a specific cell type, affected in Down syndrome, the complete set of coding and non-coding RNA species - emerging as novel contributors to pathogenic mechanisms - to an unprecedented level of resolution and sensitivity. In partic...
ORGANISM(S): Homo sapiens 
2011-05-04 | E-GEOD-27443 | biostudies-arrayexpress
ProteomicsCapillary zone electrophoresis-tandem mass spectrometry with activated ion electron transfer dissociation for large-scale top-down proteomics
Capillary zone electrophoresis (CZE)-tandem mass spectrometry (MS/MS) has been recognized as an efficient approach for top-down proteomics recently for its high-capacity separation and highly sensitive detection of proteoforms. However, the commonly used collision-based dissociation methods often ca...
ORGANISM(S): Escherichia coli 
2019-06-11 | PXD012247 | Pride
Top-down proteomics E. coli Cze-ms Ai-etd 
ProteomicsCarboxylic acid consumption and production by Corynebacterium glutamicum_LC-MS/MS
Corynebacterium glutamicum is well-known as an industrial workhorse, most notably for its use in the bulk production of amino acids in the feed and food sector. Fast growth and robustness against oscillatory oxygen availability, which can occur in large-scale bioreactors, are advantageous properties...
ORGANISM(S): Corynebacterium glutamicum ATCC 13032 
2019-03-14 | PXD012760 | Pride
Scale down Carboxylic acid Heterogeneity Oxygen oscillation Corynebacterium glutamicum 
TranscriptomicsTranscriptomic Signature of Trophoblast Differentiation in a Human Embryonic Stem Cell Model
Identification of genes involved in trophoblast differentiation is of great interest in understanding cellular and molecular mechanisms involved in placental development and is relevant clinically to fetal development, fertility, and maternal health. To understand, on a global scale, changes in the ...
ORGANISM(S): Homo sapiens 
2011-09-16 | E-GEOD-30915 | biostudies-arrayexpress
TranscriptomicsGene expression signature of cerebellum hypoplasia in a mouse model of Down syndrome (Part II).
We designed a large scale gene expression study in cerebellar external granular layer in Ts1Cje mice at P0 in order to measure the effects of trisomy 21 on in a enriched cell population (dissected layer) that is affected in Down syndrome in order to correlate gene expression changes to the phenotype...
ORGANISM(S): Mus musculus 
2008-03-31 | E-GEOD-11472 | biostudies-arrayexpress
TranscriptomicsGene expression from human prefrontal cortex (BA46)
Accumulating evidence suggests that mitochondrial dysfunction underlies the pathophysiology of bipolar disorder (BD) and schizophrenia (SZ). We performed large-scale DNA microarray analysis of postmortem brains of patients with BD or SZ, and examined expression patterns of mitochondria-related genes...
ORGANISM(S): Homo sapiens 
2008-09-03 | E-GEOD-12649 | biostudies-arrayexpress
UnknownLarge-scale Top-down Proteomics Using Capillary Zone Electrophoresis Tandem Mass Spectrometry.
Not available
S-EPMC6235596 | biostudies-literature
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