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OtherQuantitative proteomic analysis reveals effects of EGFR on invasion-promoting proteins secreted by glioblastoma cells.
Data from PeptideAtlas, [[http://www.peptideatlas.org/PASS/PASS00455 PASS00455]]. Experiment: PTEN+EGFR_1, file: folder summary. Published as part of Mol Cell Proteomics. 2014 Jul 5 . From the Abstract: {{i}} ... To better understand how EGFR contributes to tumor aggressiveness, we investigated the...
ORGANISM(S): Homo_sapiens_viruses, Human 
GPM11210028781 | GPMDB
ProteomicsDDA data of Felis Catus immortalized cells, tissues and plasma
We report a mass spectrometry-based proteomics approach to advance the study of the feline proteome. We analyzed immortalized feline cells, various tissues and plasma using data-dependent acquisition (DDA) on a Q Exactive HF mass spectrometer to develop a Felis Catus PeptideAtlas from 157 acquired r...
ORGANISM(S): Felis catus (Cat) (Felis silvestris catus) 
2026-07-07 | PXD075481 | Pride
Feline cell lines Tissues Plasma Peptideatlas Data-dependent acquisition Felis catus  cat proteome 
ProteomicsEngineering human SH2 domains for targeted phospho-proteomics
A comprehensive analysis of the phosphoproteome is essential for understanding molecular mechanisms of human diseases. However, current tools to enrich phosphotyrosine are limited in their applicability and scope. Here, we engineered new superbinder SH2 domains that enrich diverse sets of phosphotyr...
ORGANISM(S): Homo sapiens (Human) 
2023-01-13 | PXD030038 | Pride
Phosphoproteomics Synthetic biology K562 Src homology 2 domains Sh2 superbinders Mass spectrometry Human Structural biology Protein engineering Phosphotyrosine 
ProteomicsA Labrador PeptideAtlas - resource for proteomics research in dogs
The domestic dog, Canis lupus familiaris, plays a vital role as companion or service animal, and the well-being and healthy aging of dogs is gaining importance. Proteins are key actors in cells, tissues and body fluids, and the ability to measure their composition and abundance is crucial to underst...
ORGANISM(S): Canis familiaris (Dog) (Canis lupus familiaris) 
2025-12-16 | PXD052932 | Pride
ProteomicsA Labrador DIA spectral assay library - resource for proteomics research in dogs
The domestic dog, Canis lupus familiaris, plays a vital role as companion or service animal, and the well-being and healthy aging of dogs is gaining importance. Proteins are key actors in cells, tissues and body fluids, and the ability to measure their composition and abundance is crucial to underst...
ORGANISM(S): Canis familiaris (Dog) (Canis lupus familiaris) 
2025-12-16 | PXD052902 | Pride
ProteomicsA comprehensive spectral assay library to quantify the Halobacterium salinarum NRC-1 proteome by DIA/SWATH-MS
Data-Independent Acquisition (DIA) is a mass spectrometry-based method to reliably identify and reproducibly quantify large fractions of a target proteome. The peptide-centric data analysis strategy employed in DIA requires a priori generated spectral assay libraries. Such assay libraries allow to e...
ORGANISM(S): Halobacterium salinarum 
2023-09-21 | PXD042770 | Pride
Dia Data-independent acquisition Swath Halobacterium salinarum nrc-1 Spectral assay library Dda Data-dependent acquisition 
ProteomicsDIA/SWATH-MS analysis of Halobacterium salinarum NRC-1 collected at four time points of batch culture growth
Data-Independent Acquisition (DIA) is a mass spectrometry-based method to reliably identify and reproducibly quantify large fractions of a target proteome. The peptide-centric data analysis strategy employed in DIA requires a priori generated spectral assay libraries. Such assay libraries allow to e...
ORGANISM(S): Halobacterium salinarum 
2023-09-21 | PXD042774 | Pride
Dia Data-independent acquisition Swath Halobacterium salinarum nrc-1 Spectral assay library Dda Data-dependent acquisition 
ProteomicsPeptide analysis in human cell lines via high-resolution MRM (PRM) for the annotation of non-canonical open reading frames
A major scientific drive is to characterize the protein-coding genome, which is a primary basis for studying human health. But the fundamental question remains: what has been missed in prior analyses? Over the past decade, the translation of non-canonical open reading frames (ncORFs) has been obse...
ORGANISM(S): Homo sapiens (Human) 
2026-02-17 | PXD066599 | Pride
Cell lines Mrmhr (prm) Human Non-canonical open reading frames 
ProteomicsPTMProphet: Fast and Accurate Mass Modification Localization for the Trans-Proteomic Pipeline
Analysis of synthetic peptide reference datasets to demonstrate the performance of PTMProphet, a free and open-source software tool integrated into the Trans-Proteomic Pipeline, which reanalyzes identified spectra from any search engine for which pepXML output is available to provide localization co...
ORGANISM(S): Homo Sapiens (ncbitaxon:9606) 
2025-01-10 | MSV000096828 | MassIVE
ProteomicsA global Staphylococcus aureus proteome resource applied to the in vivo characterization of host- pathogen interactions
1. DDA dataset used for Staphylococcus aureus HG001 PeptideAtlas build (https://db.systemsbiology.net/sbeams/cgi/PeptideAtlas/buildDetails?atlas_build_id=435) 2. DIA and DDA dataset for the quantitative analyses of the publication (in the update section)
ORGANISM(S): Staphylococcus Aureus Subsp. Aureus Nctc 8325 (ncbitaxon:93061) Homo Sapiens (ncbitaxon:9606) 
2018-06-21 | MSV000082483 | MassIVE
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