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

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• 作者：Dae-Won Kim (1)
  Dong-Wook Kim (2)
  Won Gi Yoo (1)
  Seong-Hyeuk Nam (2)
  Myoung-Ro Lee (1)
  Hye-Won Yang (4)
  Junhyung Park (5)
  Kyooyeol Lee (5)
  Sanghyun Lee (1)
  Shin-Hyeong Cho (1)
  Won-Ja Lee (1)
  Hong-Seog Park (2) (3)
  Jung-Won Ju (1)
  
• 关键词：Sparganum ; Plerocercoid ; Spirometra erinacei ; Expressed sequence tags (ESTs) ; Database
• 刊名：BMC Research Notes
• 出版年：2012
• 出版时间：December 2012
• 年：2012
• 卷：5
• 期：1
• 全文大小：1005KB
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• 作者单位：Dae-Won Kim (1)
  Dong-Wook Kim (2)
  Won Gi Yoo (1)
  Seong-Hyeuk Nam (2)
  Myoung-Ro Lee (1)
  Hye-Won Yang (4)
  Junhyung Park (5)
  Kyooyeol Lee (5)
  Sanghyun Lee (1)
  Shin-Hyeong Cho (1)
  Won-Ja Lee (1)
  Hong-Seog Park (2) (3)
  Jung-Won Ju (1)
  
  1. Division of Malaria and Parasitic Diseases, Korea National Institute of Health, Osong, 363-951, Republic of Korea
  2. Genome Resource Center, Korea Research Institute of Bioscience and Biotechnology (KRIBB), Daejeon, 305-806, Republic of Korea
  4. Department of Parasitology, Kyungpook National University School of Medicine, Daegu, 700-422, Republic of Korea
  5. Insilicogen, Inc. #909, Suwon, Gyeonggi-do, 441-813, Republic of Korea
  3. University of Science and Technology (UST), Daejeon, 303-333, Republic of Korea
  

文摘

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). 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.