Home LiteratureArticle Details
PMID: 16381902 Published · ppublish English Journal Article Research Support, N.I.H., Extramural

CryptoDB: a Cryptosporidium bioinformatics resource update.

Nucleic acids research ·Vol. 34 ·No. Database issue ·2006-01-01 ·Pages D419-22

Heiges M, Wang H, Robinson E, Aurrecoechea C, Gao X, Kaluskar N, Rhodes P, Wang S, He CZ, Su Y, Miller J, Kraemer E, Kissinger JC

Abstract

The database, CryptoDB (http://CryptoDB.org), is a community bioinformatics resource for the AIDS-related apicomplexan-parasite, Cryptosporidium. CryptoDB integrates whole genome sequence and annotation with expressed sequence tag and genome survey sequence data and provides supplemental bioinformatics analyses and data-mining tools. A simple, yet comprehensive web interface is available for mining and visualizing the data. CryptoDB is allied with the databases PlasmoDB and ToxoDB via ApiDB, an NIH/NIAID-fundedBioinformatics Resource Center. Recent updates to CryptoDB include the deposition of annotated genome sequences for Cryptosporidium parvum and Cryptosporidium hominis, migration to a relational database (GUS), a new query and visualization interface and the introduction of Web services.

MeSH Terms
Animals Computational Biology Cryptosporidium/genetics Cryptosporidium parvum/genetics Databases, Genetic Genome, Protozoan Genomics Internet Protozoan Proteins/chemistry,genetics Software User-Computer Interface
Chemicals
Protozoan Proteins
Authors & Affiliations
13 authors, click to expand affiliations / ORCID
Heiges Mark
Center for Tropical and Emerging Global Diseases, University of Georgia, Athens, GA, USA.
Wang Haiming
Robinson Edward
Aurrecoechea Cristina
Gao Xin
Kaluskar Nivedita
Rhodes Philippa
Wang Sammy
He Cong-Zhou
Su Yanqi
Miller John
Kraemer Eileen
Kissinger Jessica C
References (17)
17 references, click to expand
  1. Preliminary profile of the Cryptosporidium parvum genome: an expressed sequence tag and genome survey sequence analysis.
    Mol Biochem Parasitol. 2000 Mar 15;107(1):1-32 PMID: 10717299
  2. InterProScan: protein domains identifier.
    Nucleic Acids Res. 2005 Jul 1;33(Web Server issue):W116-20 PMID: 15980438
  3. Creating a bioinformatics nation.
    Nature. 2002 May 9;417(6885):119-20 PMID: 12000935
  4. The Pathway Tools software.
    Bioinformatics. 2002;18 Suppl 1:S225-32 PMID: 12169551
  5. PROSITE: a documented database using patterns and profiles as motif descriptors.
    Brief Bioinform. 2002 Sep;3(3):265-74 PMID: 12230035
  6. The generic genome browser: a building block for a model organism system database.
    Genome Res. 2002 Oct;12(10):1599-610 PMID: 12368253
  7. The Plasmodium genome database.
    Nature. 2002 Oct 3;419(6906):490-2 PMID: 12368860
  8. PlasmoDB: the Plasmodium genome resource. A database integrating experimental and computational data.
    Nucleic Acids Res. 2003 Jan 1;31(1):212-5 PMID: 12519984
  9. ToxoDB: accessing the Toxoplasma gondii genome.
    Nucleic Acids Res. 2003 Jan 1;31(1):234-6 PMID: 12519989
  10. Integrated mapping, chromosomal sequencing and sequence analysis of Cryptosporidium parvum.
    Genome Res. 2003 Aug;13(8):1787-99 PMID: 12869580
  11. The distributed annotation system.
    BMC Bioinformatics. 2001;2:7 PMID: 11667947
  12. ApiEST-DB: analyzing clustered EST data of the apicomplexan parasites.
    Nucleic Acids Res. 2004 Jan 1;32(Database issue):D326-8 PMID: 14681425
  13. Complete genome sequence of the apicomplexan, Cryptosporidium parvum.
    Science. 2004 Apr 16;304(5669):441-5 PMID: 15044751
  14. PubCrawler: keeping up comfortably with PubMed and GenBank.
    Nucleic Acids Res. 2004 Jul 1;32(Web Server issue):W16-9 PMID: 15215341
  15. Improved prediction of signal peptides: SignalP 3.0.
    J Mol Biol. 2004 Jul 16;340(4):783-95 PMID: 15223320
  16. The genome of Cryptosporidium hominis.
    Nature. 2004 Oct 28;431(7012):1107-12 PMID: 15510150
  17. Predicting transmembrane protein topology with a hidden Markov model: application to complete genomes.
    J Mol Biol. 2001 Jan 19;305(3):567-80 PMID: 11152613
Article Info
Journal
Nucleic acids research
Abbr.
Nucleic Acids Res
ISSN
1362-4962
DOI
10.1093/nar/gkj078
Published
2006-01-01
Pages
D419-22
Language
English
Region
England
NLM ID
0411011
PMCID
PMC1347441
Subset
IM
Grants
NIAID NIH HHS · HHSN266200400037C · United States
AHRQ HHS · HHSN266200400037C · United States
External Links
PubMed source DOI: 10.1093/nar/gkj078 PMC Full Text View journal details
Analysis Services
Analysis Services

Contact

No. 2 Wenbo Road, Zhangqiu District, Jinan, Shandong

Qilu Normal University · Genelibs Bioinformatics Lab

750 Shunhua Rd, Jinan

2F, Bldg F, University Science Park

Tel: 0531-88819269

WeChat Official Account

Follow our WeChat subscription account for real-time updates and the latest in medical and biological research.


Business Email

E-mail: [email protected]

Copyright © 2026.Genelibs Jinan Honghui Biotechnology Co., Ltd. 鲁ICP备20007159号-2