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ProteomicsPlasma fibrin clot-bound proteins in antiphospholipid syndrome and venous thromboembolism: relation with inflammation and thrombosis
Antiphospholipid syndrome (APS) is associated with arterial and venous thrombosis. The unfavorable fibrin clot phenotype, including formation of dense and poorly lysable clots, has been reported both in thrombotic APS and venous thromboembolism (VTE). The presence and amount of different proteins wi...
ORGANISM(S): Homo sapiens (Human) 
2019-08-20 | PXD008434 | Pride
Antiphospholipid syndrome Thrombosis Venous thromboembolism Inflammation 
ProteomicsIn-depth quantitative proteomic analysis of trophozoites and pseudocysts of Trichomonas vaginalis r
Trichomonas vaginalis is a sexually transmitted anaerobic parasite that infects humans causing trichomoniasis, a common and ubiquitous sexually transmitted disease. The life cycle of this parasite presents a trophozoite form without a cystic stage. However, the presence of spherical forms with inter...
ORGANISM(S): Trichomonas vaginalis 
2022-03-01 | PXD009721 | Pride
Trichomonas vaginalis Total protein approach Proteomic ruler Parasite Fasp 
ProteomicsLinking FOXO3, NCOA3, and TCF7L2 to Ras pathway phenotypes through a genome-wide forward genetic screen in human colorectal cancer cellsLinking FOXO3, NCOA3, and TCF7L2 to Ras pathway phenotypes through a genome-wide forward genetic screen in human colorectal cancer cells
Background: The Ras pathway genes KRAS, BRAF or ERBBs have somatic mutations in ~60% of human colorectal carcinomas. At present, it is unknown whether the remaining cases lack mutations activating the Ras pathway, or whether they have acquired mutations in genes hitherto not known to belong to the p...
ORGANISM(S): Homo sapiens (Human) 
2018-02-20 | PXD008382 | Pride
: forward genetics Piggybac transposon Ras pathway Colorectal cancer 
ProteomicsOptimization of quantitative proteomic analysis of clots
The aim of our study was to optimize quantitative proteomic analysis of fibrin clots prepared ex vivo from citrated plasma of the peripheral blood drawn from patients with prior venous thromboembolism. We used a multiple enzyme digestion filter aided sample preparation (MED FASP) method combined wi...
ORGANISM(S): Homo sapiens (Human) 
2017-12-08 | PXD006814 | Pride
Proteomics Venous thromboembolism Clot Med fasp 
ProteomicsThe effect of TCOF1 on renal cancer proteome
TCOF1 encodes treacle, a multifunctional protein involved in ribosome biogenesis, regulation of mitosis, proliferation, response to DNA damage, and apoptosis. TCOF1 mutations cause Treacher Collins syndrome, a rare genetic disorder leading to craniofacial malformations. The expression of TCOF1 is di...
ORGANISM(S): Rattus norvegicus (Rat) 
2026-05-25 | PXD027601 | Pride
Tcof1 Renal cancer Treacle 
ProteomicsQuantitative evaluation of FASP and MED FASP protocols
In this work we re-evaluate FASP and the related Multienzyme digestion (MED)-FASP method. We use different types of animal tissue and cultured cells, and test the performance of the method under various conditions. We analyze the protein-to-peptide conversion by assessing the yield of peptides, freq...
ORGANISM(S): Mus musculus (Mouse) Homo sapiens (Human) 
2016-04-28 | PXD003733 | Pride
Fasp  med fasp  missing cleavages  reproducibility 
Proteomics‘Shotgun’ Proteome Analyses Do Not Require Alkylation of Cysteine
It is a common belief that reduction of disulfide bridges and alkylation of thiols in proteins are indispensable steps in proteomic sample preparation. Since this chemical procedure is often incomplete and prone to side reactions and can results in various artefacts we reexamined its importance. We ...
ORGANISM(S): Homo sapiens (Human) Mus musculus (Mouse) 
2020-01-21 | PXD014000 | Pride
Thiol alkylation Iodoacetamide Shotgun proteomics 
ProteomicsComprehensive quantitative analysis of the proteome of Leishmania (Viannia) species
Leishmania species are responsible for a broad spectrum of diseases, denominated Leishmaniasis, affecting over 12 million people worldwide. During the last decade, there have been impressive efforts for sequencing the genome of most of the pathogenic Leishmania spp. as well as hundreds of strains, b...
ORGANISM(S): Leishmania guyanensis species complex 
2020-08-10 | PXD017696 | Pride
Leishmania (viannia)  leishmania braziliensis  leishmania panamensis  leishmania guyanensis  proteomics  label-free quantification  filter aided sample preparation Proteomic ruler Total protein approach Mass spectrometry 
ProteomicsHuman liver cells proteome
The human liver functions through a complex interplay of parenchymal and non-parenchymal cells, which participate in performing many essential aspects of metabolism and secretion. Mass spectrometry-based proteomic analysis of intact tissue has improved the understanding of these processes, by provid...
ORGANISM(S): Homo sapiens (Human) 
2020-04-09 | PXD012615 | Pride
Hepatocytes Endothelial cells Human liver Kupfer cells Stellate cells 
ProteomicsHigh Fat Diet Related Changes in Mitochondrial Proteome
Western diets leads to obesity and its comorbidities, in particular the progression of hepatosteatosis and insulin resistance. In DIO C57/BL6 obese mice, we performed quantitative mitochondrial bioenergetics and proteomic analysis and fused both technologies to understand the functional adjustments ...
ORGANISM(S): Mus musculus (Mouse) 
2018-02-20 | PXD002289 | Pride
Mitochondria High fat diet Liver Fasp 
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