SpiroESTdb: a transcriptome database and online tool for sparganum expressed sequences tags

BMC Research Notes

Jung-Won Ju³  Hong-Seog Park²  Won-Ja Lee³  Shin-Hyeong Cho³  Sanghyun Lee³  Kyooyeol Lee⁵  Junhyung Park⁵  Hye-Won Yang⁴  Myoung-Ro Lee³  Seong-Hyeuk Nam¹  Won Gi Yoo³  Dong-Wook Kim¹  Dae-Won Kim³ 

[1] Genome Resource Center, Korea Research Institute of Bioscience and Biotechnology (KRIBB), Daejeon 305-806, Republic of Korea;University of Science and Technology (UST), Daejeon 303-333, Republic of Korea;Division of Malaria and Parasitic Diseases, Korea National Institute of Health, Osong 363-951, Republic of Korea;Department of Parasitology, Kyungpook National University School of Medicine, Daegu, 700-422, Republic of Korea;Insilicogen, Inc. #909, Suwon, Gyeonggi-do 441-813, Republic of Korea †These authors contributed equally to this work

关键词: Database;    Expressed sequence tags (ESTs);    Spirometra erinacei;    Plerocercoid;    Sparganum;   

Others  :  1166611
DOI  :  10.1186/1756-0500-5-130

 received in 2011-12-01, accepted in 2012-03-08,  发布年份 2012

【 摘 要 】

Background

Sparganum (plerocercoid of Spirometra erinacei) is a parasite that possesses the remarkable ability to survive by successfully modifying its physiology and morphology to suit various hosts and can be found in various tissues, even the nervous system. However, surprisingly little is known about the molecular function of genes that are expressed during the course of the parasite life cycle. To begin to decipher the molecular processes underlying gene function, we constructed a database of expressed sequence tags (ESTs) generated from sparganum.

Findings

SpiroESTdb is a web-based information resource that is built upon the annotation and curation of 5,655 ESTs data. SpiroESTdb provides an integrated platform for expressed sequence data, expression dynamics, functional genes, genetic markers including single nucleotide polymorphisms and tandem repeats, gene ontology and KEGG pathway information. Moreover, SpiroESTdb supports easy access to gene pages, such as (i) curation and query forms, (ii) in silico expression profiling and (iii) BLAST search tools. Comprehensive descriptions of the sparganum content of all sequenced data are available, including summary reports. The contents of SpiroESTdb can be viewed and downloaded from the web (http://pathod.cdc.go.kr/spiroestdb webcite).

Conclusions

This integrative web-based database of sequence data, functional annotations and expression profiling data will serve as a useful tool to help understand and expand the characterization of parasitic infections. It can also be used to identify potential industrial drug targets and vaccine candidate genes.

【 授权许可】

   
2011 Park et al; licensee BioMed Central Ltd.

【 图 表 】

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