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ProteomicsSingle Amino-acid Polymorphisms of Human Gut Ecosystem
Single nucleotide polymorphisms (SNPs) are the most common type of genetic variation in gut microbial metagenome and host genome but they could not adequately represent the protein-level variants. Single amino-acid polymorphisms (SAP) derived from non-synonymous SNPs can cause functional changes of ...
ORGANISM(S): Homo Sapiens 
PXD062661 |
ProteomicsTargeted Detection of SARS-CoV-2 Protein Variants by Mass Spectrometry
COVID-19 vaccines are continuing to become more widely available, but accurate and rapid testing remains a crucial tool for slowing the spread of the SARS-CoV-2 virus. Although quantitative reverse transcription-polymerase chain reaction (qRT-PCR) remains the most prevalent testing methodology, nume...
ORGANISM(S): Homo sapiens (Human) 
2022-02-17 | PXD026795 | Pride
Nucleocapsid Sars-cov-2 Single amino acid protein variants Tandem mass spectrometry 
ProteomicsA novel variant of Salmonella enterica serovar Typhimurium with a rough colony morphology and multidrug resistance
Salmonella enterica serovar Typhimurium (S. Typhimurium) is a major cause of salmonellosis, with various multidrug-resistant pathovariants emerging. Here, we investigated a distinct rough colony variant with potentially enhanced environmental adaptation in China. Whole-genome sequencing of 2,212 Chi...
ORGANISM(S): Salmonella Enterica Subsp. Enterica Serovar Typhimurium Str. Lt2 
PXD047483 |
ProteomicsRegulatory impact of a 5’UTR resident Single Nucleotide Variant on EDN1 gene expression and RNA-protein interactions
Non-coding regulatory variants are gaining a lot of attention in recent years. This study identifies a 5’UTR variant of the Endothelin-1 gene (EDN1) linked to elevated production of Endothelin-1. The potent vasoactive Endothelin-1 (ET-1) peptide is implicated in vascular homeostasis. Its dysregulate...
ORGANISM(S): Homo sapiens (Human) 
2026-06-01 | PXD076288 | Pride
Et-1: endothelin-1  edn1: endothelin-1 gene  cad: coronary artery disease  snps/snvs: single nucleotide polymorphisms/single nucleotide variants  5′utr: 5′untranslated region  ins./del.: insertion/deletion  hek293t: human embryonic kidney (293-t) cells  huvec: human umbilical vein endothelial cells  dhx9: dexh-box helicase 9  hnrpa3: heterogeneous nuclear ribonucleoprotein a3 
ProteomicsProteogenomics of malignant melanoma cell lines: searching for genetically encoded point mutations in LC-MS/MS data
In this study we performed proteogenomic analysis for 9 cell lines of malignant melanoma. The main objectives of the study were identifying the variants originating from point mutations and analyzing the effect of exome data filtering on the outcome of variant identification.
ORGANISM(S): Homo sapiens (Human) 
2018-12-05 | PXD007662 | Pride
Ls-ms/ms Melanoma 
ProteomicsNatural human tRNAAla anticodon variants mistranslate the genetic code
Transfer RNAs (tRNAs) play an essential role in protein synthesis by linking the nucleic acid sequences of gene products to the amino acid sequences of proteins. Although only 32 tRNAs are needed to decode all 61 sense codons in the genetic code, there are > 400 functional tRNA genes in the humans. ...
ORGANISM(S): Homo sapiens (Human) 
2025-03-07 | PXD053463 | Pride
Anticodon Transfer rna Alanine Mistranslation Missense suppression Protein synthesis 
ProteomicsUtility of CYP2D6 copy number variants as prognostic biomarker in localized anal squamous cell carcinoma
Anal squamous cell carcinoma (ASCC) is an infrequent tumor. Since 70s, treatment of stages II-III consists on a combination of 5-fluorouracil (5FU), mitomycin C (MMC), and radiotherapy. The aim of this study is the identification of biomarkers that allow personalized treatment and improvement of the...
ORGANISM(S): Homo sapiens (Human) 
2023-04-26 | PXD037816 | Pride
Ascc Dia Anal squamous cell carcinoma Ffpe Radiotherapy 5fu Mmc Lc-ms/ms 
ProteomicsM.musculus - Cell line, Cell line, SC (Menschaert,mcp,2013)
abundance based on Spectral counting, cell_line, Interaction consistency score: 3.6, Coverage: 43
ORGANISM(S): 10090 
2013-00-00 | 2956507553 | PAXDB
ProteomicsA causal coding variant regulating alternative splicing of DOC2A at 16p.11.2 GWAS locus influences susceptibility to schizophrenia
Genome-wide association studies (GWASs) have reported numerous genetic variations associated with schizophrenia, but knowledge regarding relevant molecular mechanisms is limited. Many genes undergo sophisticated alternative splicing in the brain, and aberrations of this process may contribute to the...
ORGANISM(S): Mus Musculus 
2025-02-12 | PXD060711 |
ProteomicsOptimal Processing for Proteomic Genotyping of Single Human Hairs
The human hair proteome offers new insight in the field of human identification. Hair often contains DNA that has been degraded due to the process of cornification. The smaller fragments of DNA present a challenge for obtaining useful information concerning the identity of the donor. Proteomic genot...
ORGANISM(S): Homo sapiens (Human) 
2020-06-10 | PXD016155 | Pride
Hair Forensic science Genetically variant peptides Sample processing Proteomic genotyping 
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