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Tox-Prot specifications

Information


Unique identifier OMICS_30248
Name Tox-Prot
Restrictions to use None
Community driven No
Data access Browse
User data submission Not allowed
Maintained Yes

Maintainer


  • person_outline Florence Jungo

Publication for Tox-Prot

Tox-Prot citations

 (5)
library_books

Venom gland transcriptome analyses of two freshwater stingrays (Myliobatiformes: Potamotrygonidae) from Brazil

2016
Sci Rep
PMCID: 4768133
PMID: 26916342
DOI: 10.1038/srep21935

[…] jected to a BLASTx analysis (with e-value threshold of 10−5 and matching to the top hits) against the following databases: NCBI nonredundant (nr) protein sequences, UniProtKB and UniProtKB/Swiss-Prot Tox-Prot. The Trinotate software, contained within the Trinity package, was used for functional annotation, including Gene Ontology (GO) terms and presence and location of signal peptide cleavage site […]

library_books

Gene duplications are extensive and contribute significantly to the toxic proteome of nematocysts isolated from Acropora digitifera (Cnidaria: Anthozoa: Scleractinia)

2015
BMC Genomics
PMCID: 4604070
PMID: 26464356
DOI: 10.1186/s12864-015-1976-4

[…] toxin identification [, ]. Firstly, only sequences with Reciprocal Blast Best Hit (RBBH) or relaxed RBBH (using the top five BLAST hits for reciprocal BLAST) to sequences in the UniProtKB/Swiss-Prot Tox-Prot dataset with query coverage above 70 % were retained. Secondly, BLASTp comparisons were performed against the entire UniProt database supplemented with additional cnidarian protein sequences […]

library_books

Bioinformatics Aided Venomics

2015
Toxins
PMCID: 4488696
PMID: 26110505
DOI: 10.3390/toxins7062159

[…] structural information. When no experimental structure is available, a homology model is generated for each toxin. As of June 2015, 76 species of snakes and 419 proteins and toxins are listed in ISOB.Tox-Prot (http://www.uniprot.org/program/toxins) [] is the animal toxin annotation program of UniProtKB and aims to systematically annotate animal venom peptides []. Some of the annotations found in C […]

library_books

Novel venom gene discovery in the platypus

2010
Genome Biol
PMCID: 2965387
PMID: 20920228
DOI: 10.1186/gb-2010-11-9-r95

[…] in unannotated regions were added to the Ensembl genebuild to create an enhanced genebuild. Chains overlapping predicted Ensembl genes were not included, and the genebuild was updated to include the Tox-Prot match. […]

library_books

Animal Toxins: How is Complexity Represented in Databases?

2010
Toxins
PMCID: 3202812
PMID: 22069583
DOI: 10.3390/toxins2020262

[…] TMs:http://www.conoserver.org/?page=about_conotoxins&bpage=ptm UniProtKB (http://www.uniprot.org/):Direct submissions to UniProtKB: http://www.ebi.ac.uk/swissprot/Submissions/spin/ Description of the Tox-Prot annotation program: http://www.expasy.org/sprot/tox-prot/ Keyword list: http://www.uniprot.org/docs/keywlist Document on scorpion toxin nomenclature: http://www.uniprot.org/docs/scorpktx Docu […]

Citations

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Tox-Prot institution(s)
Swiss Institute of Bioinformatics, Centre Medical Universitaire, Genève, Switzerland
Tox-Prot funding source(s)
Supported by the Swiss Federal Government through the Federal Office of Education, and Science and the National Institutes of Health (NIH) grant 1 U01 HG02712-01.

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