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ATDB specifications

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Unique identifier OMICS_02866
Name ATDB
Alternative name Animal Toxin DataBase
Restrictions to use None
Maintained Yes

Publication for Animal Toxin DataBase

ATDB citations

 (8)
library_books

Tentacle Transcriptome and Venom Proteome of the Pacific Sea Nettle, Chrysaora fuscescens (Cnidaria: Scyphozoa)

2016
Toxins
PMCID: 4848628
PMID: 27058558
DOI: 10.3390/toxins8040102

[…] is, a BLAST-based bioinformatics pipeline was used as previously described []. Briefly, transcripts encoding potential toxin proteins were identified using BLASTx (version 2.2.30) against the UniProt animal toxin database []. Transcripts with a high-scoring match (bit score > 50) that did not have a better scoring match from the complete UniProt protein database to a non-toxin protein family were […]

library_books

Evaluation of O2PLS in Omics data integration

2016
BMC Bioinformatics
PMCID: 4959391
PMID: 26822911
DOI: 10.1186/s12859-015-0854-z

[…] (11)c=CYα,αTα=1,where the latter identity holds since we require cTc=1. The same holds for w=WXβ, with β=(β1,…,βp) and βTβ=1. Now, using the orthogonality of CY and WX, we can see that (12)cTCYDWXTw=αTDβ=∑j=1pαjβjdj,j,since di,j=0 for all i≠j, where i=1,…,q and j=1,…,p. Suppose without loss of generality that p≤q. We can increase the dimensionality of β from p to q, by adding q−p zeros without ch […]

library_books

In silico hybridization enables transcriptomic illumination of the nature and evolution of Myxozoa

2015
BMC Genomics
PMCID: 4619090
PMID: 26494377
DOI: 10.1186/s12864-015-2039-6

[…] and cysteine-rich secreted proteins, as well as toxin-associated classes such as molecular binding proteins (Fig. ). Despite the significantly larger number of non-cnidarian query sequences from the animal toxin database (6214) compared to cnidarian sequences from recent MS/MS studies and within the UniProt database (288), the number of matches was nearly even, with 26 identifications deriving fr […]

library_books

Bioinformatics Aided Venomics

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

[…] ntologies. Two other ontologies describe enzymes found in venoms: EC numbers and the nomenclature from the International Union of Biochemistry and Molecular Biology (IUBMB).The animal toxin database (ATDB, http://protchem.hunnu.edu.cn/toxin/) [] is a meta-database that displays information from several databases, including UniProtKB, GenPept and three discontinued databases dedicated to scorpion t […]

library_books

Transcriptome and venom proteome of the box jellyfish Chironex fleckeri

2015
BMC Genomics
PMCID: 4445812
PMID: 26014501
DOI: 10.1186/s12864-015-1568-3

[…] tabase were then compared and a final annotation assigned based on the match with the highest bit score. Transcripts encoding potential toxin proteins were identified using BLASTx against the UniProt animal toxin database [] (http://www.uniprot.org/program/Toxins) and those with a high-scoring match (bit score > 50) that did not have a better scoring match from the GenBank cnidarian protein databa […]

library_books

Deciphering the Venomic Transcriptome of Killer Wasp Vespa velutina

2015
Sci Rep
PMCID: 5381768
PMID: 25896434
DOI: 10.1038/srep09454

[…] To annotate all the unigenes obtained, we searched them against the protein databases NR, Swiss-Prot, KEGG, COG, Flybase (A Database of Drosophila Genes & Genomes, http://flybase.org/) and animal toxin database ToxProt (http://www.uniprot.org/program/Toxins) using blastx (BLAST, the basic local alignment search tool). The cut-off criteria were: E-value<10−5, identity percentage >30% and […]


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ATDB institution(s)
The Key Laboratory of Protein Chemistry and Developmental Biology of Ministry of Education, College of Life Sciences, Hunan Normal University, Changsha, China

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