neXtProt statistics

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Protocols

neXtProt specifications

Information


Unique identifier OMICS_03915
Name neXtProt
Restrictions to use None
Community driven No
Data access File download, Browse
User data submission Not allowed
Version 2.3.0
Maintained Yes

Taxon


  • Primates
    • Homo sapiens

Subtool


  • Peptide uniqueness checker

Documentation


Maintainers


  • person_outline Pascale Gaudet
  • person_outline Lydie Lane

Publications for neXtProt

neXtProt citations

 (45)
library_books

Integrative annotation and knowledge discovery of kinase post translational modifications and cancer associated mutations through federated protein ontologies and resources

2018
Sci Rep
PMCID: 5916945
PMID: 29695735
DOI: 10.1038/s41598-018-24457-1

[…] riety of non-overlapping information, including PTMs and disease mutations. In addition to the comprehensive protein resource, UniProt, there are resources that specialize in specific species such as neXtProt for human and the Mouse Genome Informatics (MGI) for mouse. The Protein Ontology (PRO) and iPTMnet capture specific data types on proteoforms and post-translational modifications (PTMs), resp […]

library_books

NCX DB: a unified resource for integrative analysis of the sodium calcium exchanger super family

2018
BMC Neurosci
PMCID: 5898058
PMID: 29649983
DOI: 10.1186/s12868-018-0423-2

[…] phical sequence output highlighting the position of the alpha repeats within the candidate exchanger, and also a chart depicting residue frequency. The sequence graphical output was modified from the neXtProt protein sequence viewer available at biojs.io, and the chart is generated using a JavaScript function to convert the residue frequency into a JSON object for canvas.js (https://canvasjs.com/) […]

library_books

The Gene Centric Content Management System and Its Application for Cognitive Proteomics

2018
Proteomes
PMCID: 5874771
PMID: 29473895
DOI: 10.3390/proteomes6010012

[…] untries [].At the beginning of the C-HPP there were established resources on proteomic MS-data (PRIDE [], GPMdb [] and PeptideAtlas []); affinity data (Human Protein Atlas []); human proteome data in neXtProt []; and flexible platforms to work with heterogeneous molecular data, such as TAVERNA []. Despite such a representative diversity of existing IT-frameworks, new systems were launched: The Pro […]

library_books

In Depth Proteomic Characterization of Classical and Non Classical Monocyte Subsets

2018
Proteomes
PMCID: 5874767
PMID: 29401756
DOI: 10.3390/proteomes6010008

[…] The datasets were analyzed following the HUPO Guidelines for the identification of proteins using MS/MS experiments. We searched all the mgf files obtained against the neXtProt database (release 20160111) [] using the target-decoy strategy with an in-house Mascot Server v. 2.3 (Matrix Science, London, UK) search engine. Decoy database was created using the peptide p […]

library_books

Utilizing glycine N methyltransferasegene knockout mice as a model for identification of missing proteins in hepatocellular carcinoma

2017
Oncotarget
PMCID: 5787479
PMID: 29416626
DOI: 10.18632/oncotarget.23064

[…] nce, absence of expression in a given tissue, expression only in rare samples, and unfavorable structure (or cleavage sites) for MS studies such as instability or heterogeneity [, ]. Furthermore, the neXtProt is utilized as the reference database for the annotation of human proteins in the beginning period of the C-HPP [, ]. This database assigns experimental evidence to each human protein using a […]

library_books

SABIO RK: an updated resource for manually curated biochemical reaction kinetics

2017
Nucleic Acids Res
PMCID: 5753344
PMID: 29092055
DOI: 10.1093/nar/gkx1065

[…] veral other biological databases and online platforms which allows the users of these external resources to gain further knowledge about enzymatic activities of enzymes (links from UniProtKB, BRENDA, NextProt (), ChloroKB (), MetaCrop) and detailed information about kinetics of biochemical reactions (links from KEGG Reaction, MetaNetX (), BKMS-react ()) as well as the participation and meaning of […]

Citations

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neXtProt institution(s)
Department of Human Protein Science, Faculty of Medicine, University of Geneva, Geneva, Switzerland; CALIPHO Group, SIB Swiss Institute of Bioinformatics, CMU, Geneva, Switzerland
neXtProt funding source(s)
Supported by SIB Swiss Institute of Bioinformatics and University of Geneva.

neXtProt review

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Dataset
Great platform with lots of data integrated, fast search and modern REST API in JSON! And the support team is very helpful.