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ProteomicsGenetic variation of maize responses to low temperatures in controlled conditions
Eighteen genetically-diverse maize hybrids (Zea mays, dent lines crossed to a flint inbred-line) were cultivated in a growth-chamber at optimal temperature (20°C) for three weeks. They were then submitted to three successive steps of decreasing temperature ( 16, 13 and 8.5°C). Each step lasted two d...
ORGANISM(S): Zea mays (Maize) 
2021-01-19 | PXD021790 | Pride
Genetic diversity Zea mays Low temperature Growth chamber Cold resistance 
ProteomicsPeptide Filtering and Quantification Methods
In bottom-up proteomics, data are acquired on peptides resulting from proteolysis. In XIC-based quantification, the quality of the protein abundance estimation depends on how peptide data are filtered and on which quantification method is used to sum up peptide intensities into protein abundances. S...
ORGANISM(S): Saccharomyces cerevisiae (Baker's yeast) 
2018-11-14 | PXD009740 | Pride
Peptide filtering Quantification methods Extracted ion current 
ProteomicsGenetic variation of maize responses to low temperatures in the field
Eighteen genetically-diverse maize hybrids (Zea mays, dent lines crossed to a flint inbred-line) were cultivated in the field. Two conditions of cultivation were analyzed: normal sowing and early sowing. Upon early sowing plants grew under lower temperatures than upon normal sowing. Young leaves wer...
ORGANISM(S): Zea mays (Maize) 
2021-01-19 | PXD021754 | Pride
Genetic diversity Field Zea mays Low temperature Cold resistance 
TranscriptomicsExpression and CGH array profiling of ductal carcinoma (135 tumor samples)
A Cartes d'Identité des Tumeurs (CIT) project from the french Ligue Nationale Contre le Cancer (http://cit.ligue-cancer.net) | Affymetrix HG-U133 Plus 2.0 : 46 samples| Agilent SurePrint G3 Human CGH Microarray 4x180K Arrays : 135 samples| To explore the prognostic value of genomic alterations pr...
ORGANISM(S): Homo sapiens 
2012-02-01 | E-MTAB-748 | biostudies-arrayexpress
TranscriptomicsTranscription profiling of human ductal and lobular breast cancers with familial or Cowden disease history.
A Cartes d'Identite des Tumeurs (CIT) project from the french Ligue Nationale Contre le Cancer (http://cit.ligue-cancer.net) | 74 samples on Affymetrix HG-U133 Plus 2.0 GeneChips arrays for 74 patients. 5 samples on CGH CIT v7 | Breast carcinoma is the main malignant tumor occurring in patients wit...
ORGANISM(S): Homo sapiens 
2010-07-29 | E-TABM-854 | biostudies-arrayexpress
MetabolomicsPantothenate biosynthesis is critical for chronic infection by the neurotropic parasite Toxoplasma gondii
Coenzyme A (CoA) is an essential molecule acting in metabolism, post-translational modification, and regulation of gene expression. While all organisms synthesize CoA, many, including humans, are unable to produce its precursor, pantothenate. Intriguingly, like most plants, fungi and bacteria, paras...
2022-03-21 | MTBLS2501 | MetaboLights
ProteomicsNovel insights into quantitative proteomics from an innovative bottom-up Simple Light Isotope Metabolic (bSLIM) labeling data processing strategy
The Simple Light Isotope Metabolic labeling (SLIM-labeling) is an inovative method to quantify proteome variations based on an original in vivo labeling strategy. Heterotrophic cells grown on a U-[12C] sole source of carbon synthesize U-[12C]-amino acids which are incorporated into proteins giving r...
ORGANISM(S): Saccharomyces cerevisiae (Baker's yeast) 
2022-02-15 | PXD021329 | Pride
Openms Data processing workflow Yeast In vivo metabolic labeling Light carbon isotope Quantitative proteomics 12c Knime 
TranscriptomicsRNA-seq and genome-wide CRISPRi and Tn-seq analyses of BVL3572S-treated Mycobacterium tuberculosis H37Rv
(i) RNA-seq of M. tuberculosis H37Rv cultures grown in the presence of BVL3572S for 6 h compared to untreated controls. (ii) Genome-wide M. tuberculosis H37Rv CRISPRi libraries were grown in the presence of ATc for 5 days prior to drug exposure. Cultures were treated with sub-MIC BVL3572S concentra...
ORGANISM(S): Mycobacterium tuberculosis H37Rv 
2026-04-20 | E-MTAB-16773 | biostudies-arrayexpress
GenomicsWhole genome sequencing of spontaneous resistant mutants of Mycobacterium tuberculosis H37Rv selectec in the presence of BVL3572S and amino acids
M. tuberculosis H37Rv cultures were exposed to BVL3572S in the absence or presence of L-histidine or L-alanine for at least 4 weeks. Individual colonies were picked and their genomic DNA extracted, indexed, and sequenced.
ORGANISM(S): Mycobacterium tuberculosis 
2026-06-03 | E-MTAB-17255 | biostudies-arrayexpress
ProteomicsTraining set - Novel insights into quantitative proteomics from an innovative bottom-up Simple Light Isotope Metabolic (bSLIM) labeling data processing strategy
The Simple Light Isotope Metabolic labeling (SLIM-labeling) is an inovative method to quantify proteome variations based on an original in vivo labeling strategy. Heterotrophic cells grown on a U-[12C] sole source of carbon synthesize U-[12C]-amino acids which are incorporated into proteins giving r...
ORGANISM(S): Saccharomyces cerevisiae (Baker's yeast) 
2022-02-16 | PXD021502 | Pride
Openms Data processing workflow Yeast In vivo metabolic labeling Light carbon isotope Quantitative proteomics 12c Knime 
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