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UnknownA tool to evaluate correspondence between extraction ion chromatographic peaks and peptide-spectrum matches in shotgun proteomics experiments.
Not available
S-EPMC3994887 | biostudies-literature
UnknownPeptide-Spectrum Match Validation with Internal Standards (P-VIS): Internally-Controlled Validation of Mass Spectrometry-Based Peptide Identifications.
Not available
S-EPMC7775876 | biostudies-literature
ProteomicsHuman serum glycoproteome - Glyco-Decipher
Identification results of peptide-spectrum matches supporting Glyco-Decipher manuscript (Glyco-Decipher: Glycan database-independent peptide matching enables discovery of new glycans and in-depth characterization of site-specific N-glycosylation). Recently, several elegant bioinformatics tools have ...
ORGANISM(S): Homo Sapiens 
PXD045630 |
ProteomicsIdentification, synthesis, and in vitro activity of antimicrobial peptide from African catfish against the Extended-Spectrum Beta-Lactamase (ESBL) producing Escherichia coli.
The global surge in multi-drug resistant bacteria, including extended-spectrum β-lactamase (ESBL)-producing Escherichia coli has led to a growing need for new antibacterial compounds. Despite being promising, the potential of fish-derived antimicrobial peptides (AMPs) in combating ESBL-E. coli is la...
ORGANISM(S): Clarias gariepinus 
2024-06-25 | PXD049239 | Pride
Catfish Esbls Antimicrobial peptides Drug discovery Lc-ms/ms 
ProteomicsCavia porcellus spectral library
The guinea pig (cavia porcellus) is an excellent experimental model for translation to many aspects of human physiology and disease yet there is limited experimental information regarding its proteome. In an effort to overcome this gap in our knowledge, we generated a comprehensive spectral library ...
ORGANISM(S): Cavia Porcellus (ncbitaxon:10141) 
2018-12-07 | MSV000083199 | MassIVE
ProteomicsDirect mapping of peptide-spectral-matches to genome information facilitates qualifying proteomics information
The data set consist of three different sources. 1) All files with ecoli_* derive from a pure culture of Escherichia coli K-12 (MG1655). 2) All files with SIHUMI_standard_* derive from a mixed culture of 8 bacteria (SIHUMIx) Anaerostipes caccae (DSMZ 14662), Bacteroides thetaiotaomicron (DSMZ 2079),...
ORGANISM(S): Blautia producta ATCC 27340 = DSM 2950 Bacteroides thetaiotaomicron (strain ATCC 29148 / DSM 2079 / NCTC 10582 / E50 / VPI-5482) Lactobacillus plantarum subsp. plantarum ATCC 14917 = JCM 1149 = CGMCC 1.2437 Anaerostipes caccae DSM 14662 Clostridium butyricum DSM 10702 Bifidobacterium longum NCC2705 Escherichia coli str. K-12 substr. MG1655 Erysipelatoclostridium ramosum DSM 1402 
2021-09-09 | PXD023243 | Pride
Intestine Metaomics Sihumi Proteome 
ProteomicsBuilding high-quality assay libraries for targeted analysis of SWATH MS data
Targeted proteomics by selected/multiple reaction monitoring or, on a larger scale, by SWATH MS relies on spectral reference libraries for peptide identification. Quality and coverage of these libraries are therefore of critical importance. Here we present a detailed protocol that has been successfu...
ORGANISM(S): Saccharomyces Cerevisiae (ncbitaxon:4932) 
2018-06-26 | MSV000082506 | MassIVE
ProteomicsP-VIS: internally-controlled validation of mass spectrometry-based peptide identifications
Peptide-Spectrum Match (PSM) Validation with Internal Standards (P-VIS) is an objective approach to validating individual PSMs. A biological sample is analyzed by LC-MS/MS and the data are searched using a traditional approach such as a database search or de novo sequencing. A PSM of interest is ide...
ORGANISM(S): Homo sapiens (Human) Mus musculus (Mouse) 
2020-09-21 | PXD020901 | Pride
Peptidomics Hybrid insulin peptides Peptide-spectrum match Post-translational modification Validation Immunotherapy Peptide splicing Immunopeptidomics 
OtherJUMP: a tag-based database search tool for peptide identification with high sensitivity and accuracy.
Data from authors [[http://stjuderesearch.org/site/lab/peng web site]]. Experiment: dataset3, file: pl08.mzXML. Published as part of Mol Cell Proteomics. 2014 Sep 8 . From the Abstract: {{i}} ... Here we present JUMP, a new hybrid database search program that generates amino acid tags and ranks pep...
ORGANISM(S): Homo_sapiens_viruses, Human 
GPM32320003491 | GPMDB
ProteomicsReanalysis of Data-dependent acquisition based proteomic datasets of Mycobacterium abscessus
Detection of species-specific proteotypic peptides for accurate and easy characterization of infectious non-tuberculous mycobacteria such as Mycobacterium abscessus is essential. Therefore, we carried out reanalysis of publicly available M. abscessus proteomic dataset MSV000085363, PXD015680 and PXD...
ORGANISM(S): Mycobacterium abscessus (strain ATCC 19977 / DSM 44196 / CIP 104536 / JCM 13569 / NCTC 13031 / TMC 1543) 
2024-03-07 | PXD045930 | Pride
M. abscessus Proteomics Non-tuberculous mycobacteria Lc-ms/ms 
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