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ProteomicsA unique and divergent cyclin/cyclin-dependent kinase complex controls DNA replication during atypical cell-cycles of Plasmodium berghei gametogonyA unique and divergent cyclin/cyclin-dependent kinase complex controls DNA replication during atypical cell-cycles of Plasmodium berghei gametogony
Cell-cycle transitions are generally triggered by variations in the activity of cyclin-dependent kinases (CDKs) bound to cyclins. Malaria parasites express ancestral CDKs and cyclins, whose functions and interdependency remain elusive. Here, we show that the unique Plasmodium berghei CDK-related kin...
ORGANISM(S): Plasmodium berghei ANKA 
2020-02-18 | PXD017283 | Pride
Lc-msms Plasmodium berhei Tmt10 Phosphorylation Cyclin-dependent kinase 
TranscriptomicsGene expression data from arbuscular mycorrhizal and phosphate-treated Medicago truncatula roots.
Arbuscular mycorrhiza (AM) interactions between plants and Glomeromycota fungi primarily support phosphate aquisition of most terrestrial plant species. To unravel gene expression in Medicago truncatula root colonization by AM fungi, we used genome-wide transcriptome profiling based on whole mycorrh...
ORGANISM(S): Medicago truncatula 
2011-10-28 | E-GEOD-32208 | biostudies-arrayexpress
ProteomicsContext-dependent regulatory mechanisms control site-specific information processing within the MEK/ERK module
The impact of the cellular context and receptor type on the dynamics of phosphorylation cycles in signaling pathways are unclear. We employ an unbiased approach to identify network alterations that explain phosphorylation dynamics of the MEK/ERK module in response to hepatocyte growth factor or inte...
ORGANISM(S): Homo sapiens (Human) 
2016-02-08 | PXD002460 | Pride
Cellular information processing Phosphorylation Signal transduction Mass spectrometry Systems biology 
TranscriptomicsTemporal gene expression profiling of ischemic brain injury in rats after Semax and Pro-Gly-Pro treatment
A drug currently efficient for cerebral stroke therapy is Semax, a synthetic peptide bearing a fragment of ACTH (4–7) and the C-terminal tripeptide Pro-Gly-Pro (PGP) was included to ensure resistance to peptidases.The genome-wide expression changes induced by Semax and PGP in rat brain cortex tiss...
ORGANISM(S): Rattus norvegicus 
2017-02-28 | E-MTAB-4658 | biostudies-arrayexpress
MetabolomicsGNPS - Mass Spectrometry-Based Metabolomics for Siderophore Discovery
This dataset contains data-dependent aquisition .raw files, converted .mzML files, and mzmine feature finding results of lab standard of deferoxamine iron and water infusion. Method is outlined in Mass Spectrometry-Based Metabolomics for Siderophore Discovery manuscript. Feature finding was conducte...
ORGANISM(S): Lab Standard 
2024-05-13 | MSV000094749 | GNPS
ProteomicsSpecimen Inactivation Methods for Proteomics – Comparisons of irradiation, chemical, and heat treatments on downstream serum analyses
Numerous studies have described the efficacy of heat inactivation, gamma irradiation, or treatment with guanidium-based chaotropic salts (e.g. TRIzol®) for pathogen inactivation of biological samples to ensure biosafety and biosecurity. However, the effect of these methods on the greater serum prote...
ORGANISM(S): Macaca mulatta (Rhesus macaque) 
2025-10-13 | PXD062367 | Pride
Dia Inactivation Gamma irradiation Rhesus Serum Trizol Primate 
ProteomicsMaxQuant Label Free Quantification wrapped as a Software Service
Scientific services in the area of OMICS research is becoming increasingly popular. In gen- eral omics research can produce a massive amount of data that can pose a challenge for computing infrastructure. While in the genomics area, many applications can run on Linux nodes the situation in proteomic...
ORGANISM(S): Saccharomyces cerevisiae (Baker's yeast) 
2022-09-23 | PXD008535 | Pride
Reproducible research Quality control Software as a service Label free quantification Proteomics Maxquant Automation Data dependent aquisition Scientific workflows and services 
TranscriptomicsExpression data from Adam10 knock out mice and wild type
Adam10, a cell surface protease, cleaving many proteins including TNF-alpha and E-cadherin. Here we investigate the genome wide effects of Adam10 knock out on the transcriptome. Commercial microarrays (Affymetrix Mouse Gene ST 1.0) were used to generate genome wide mRNA profiles. Mouse tissue sample...
ORGANISM(S): Mus musculus 
2011-01-06 | E-GEOD-25480 | biostudies-arrayexpress
MetabolomicsA combined direct infusion/reversed phase chromatography – high resolution mass spectrometry workflow for accurate absolute lipid quantification with 13C- internal standards
We propose a fully automated novel workflow for lipidomics based on flow injection, followed by liquid chromatography-high-resolution mass spectrometry (FI/LC-HRMS). The workflow combined in-depth characterization of the lipidome achieved via reversed-phase LC-HRMS with absolute quantification by us...
2021-07-01 | MTBLS1876 | MetaboLights
ProteomicsComparative analysis of metabolic and functional cardiac alterations in diet- and genetically induced mouse models of heart failure
This study aimed to elucidate the metabolic and functional alterations in heart failure in two mouse models with different heart failure phenotypes. C57BL/6J mice fed a high-fat diet (Black6 HF) and New Zealand Obese mice fed a standard diet (NZO SD) were analyzed compared to Black6 SD controls. Fun...
ORGANISM(S): Mus musculus (Mouse) 
2026-04-27 | PXD057532 | Pride
High-fat diet Cardiac metabolism Genetically induced obesity Heart failure Metabolic adaptation Cardiac function 
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