IDBD: Infectious Disease Biomarker Database
Identifieur interne : 001703 ( Istex/Corpus ); précédent : 001702; suivant : 001704IDBD: Infectious Disease Biomarker Database
Auteurs : In Seok Yang ; Chunsun Ryu ; Ki Joon Cho ; Jin Kwang Kim ; Swee Hoe Ong ; Wayne P. Mitchell ; Bong Su Kim ; Hee-Bok Oh ; Kyung Hyun KimSource :
- Nucleic Acids Research [ 0305-1048 ] ; 2008.
Abstract
Biomarkers enable early diagnosis, guide molecularly targeted therapy and monitor the activity and therapeutic responses across a variety of diseases. Despite intensified interest and research, however, the overall rate of development of novel biomarkers has been falling. Moreover, no solution is yet available that efficiently retrieves and processes biomarker information pertaining to infectious diseases. Infectious Disease Biomarker Database (IDBD) is one of the first efforts to build an easily accessible and comprehensive literature-derived database covering known infectious disease biomarkers. IDBD is a community annotation database, utilizing collaborative Web 2.0 features, providing a convenient user interface to input and revise data online. It allows users to link infectious diseases or pathogens to protein, gene or carbohydrate biomarkers through the use of search tools. It supports various types of data searches and application tools to analyze sequence and structure features of potential and validated biomarkers. Currently, IDBD integrates 611 biomarkers for 66 infectious diseases and 70 pathogens. It is publicly accessible at http://biomarker.cdc.go.kr and http://biomarker.korea.ac.kr.
Url:
DOI: 10.1093/nar/gkm925
Links to Exploration step
ISTEX:AEC135D58A541D17B237B0119D4BB38E8F680BABLe document en format XML
<record><TEI wicri:istexFullTextTei="biblStruct"><teiHeader><fileDesc><titleStmt><title>IDBD: Infectious Disease Biomarker Database</title><author><name sortKey="Yang, In Seok" sort="Yang, In Seok" uniqKey="Yang I" first="In Seok" last="Yang">In Seok Yang</name><affiliation><mods:affiliation>Department of Life Sciences & Biotechnology, School of Life Sciences & Biotechnology, Korea University, Seoul, Korea, Center for Infectious Diseases, Korea National Institute of Health, Seoul, Korea, Genome Institute of Singapore, A*STAR, 60 Biopolis Street, Singapore, Experimental Therapeutics Center, 31 Biopolis Street, Singapore, Division of Information Systems, School of Computer Engineering, Nanyang Technological University, Singapore and Department of Biotechnology & Bioinformatics, College of Science & Technology, Korea University, Chungnam, Korea</mods:affiliation></affiliation></author><author><name sortKey="Ryu, Chunsun" sort="Ryu, Chunsun" uniqKey="Ryu C" first="Chunsun" last="Ryu">Chunsun Ryu</name><affiliation><mods:affiliation>Department of Life Sciences & Biotechnology, School of Life Sciences & Biotechnology, Korea University, Seoul, Korea, Center for Infectious Diseases, Korea National Institute of Health, Seoul, Korea, Genome Institute of Singapore, A*STAR, 60 Biopolis Street, Singapore, Experimental Therapeutics Center, 31 Biopolis Street, Singapore, Division of Information Systems, School of Computer Engineering, Nanyang Technological University, Singapore and Department of Biotechnology & Bioinformatics, College of Science & Technology, Korea University, Chungnam, Korea</mods:affiliation></affiliation></author><author><name sortKey="Cho, Ki Joon" sort="Cho, Ki Joon" uniqKey="Cho K" first="Ki Joon" last="Cho">Ki Joon Cho</name><affiliation><mods:affiliation>Department of Life Sciences & Biotechnology, School of Life Sciences & Biotechnology, Korea University, Seoul, Korea, Center for Infectious Diseases, Korea National Institute of Health, Seoul, Korea, Genome Institute of Singapore, A*STAR, 60 Biopolis Street, Singapore, Experimental Therapeutics Center, 31 Biopolis Street, Singapore, Division of Information Systems, School of Computer Engineering, Nanyang Technological University, Singapore and Department of Biotechnology & Bioinformatics, College of Science & Technology, Korea University, Chungnam, Korea</mods:affiliation></affiliation></author><author><name sortKey="Kim, Jin Kwang" sort="Kim, Jin Kwang" uniqKey="Kim J" first="Jin Kwang" last="Kim">Jin Kwang Kim</name><affiliation><mods:affiliation>Department of Life Sciences & Biotechnology, School of Life Sciences & Biotechnology, Korea University, Seoul, Korea, Center for Infectious Diseases, Korea National Institute of Health, Seoul, Korea, Genome Institute of Singapore, A*STAR, 60 Biopolis Street, Singapore, Experimental Therapeutics Center, 31 Biopolis Street, Singapore, Division of Information Systems, School of Computer Engineering, Nanyang Technological University, Singapore and Department of Biotechnology & Bioinformatics, College of Science & Technology, Korea University, Chungnam, Korea</mods:affiliation></affiliation></author><author><name sortKey="Ong, Swee Hoe" sort="Ong, Swee Hoe" uniqKey="Ong S" first="Swee Hoe" last="Ong">Swee Hoe Ong</name><affiliation><mods:affiliation>Department of Life Sciences & Biotechnology, School of Life Sciences & Biotechnology, Korea University, Seoul, Korea, Center for Infectious Diseases, Korea National Institute of Health, Seoul, Korea, Genome Institute of Singapore, A*STAR, 60 Biopolis Street, Singapore, Experimental Therapeutics Center, 31 Biopolis Street, Singapore, Division of Information Systems, School of Computer Engineering, Nanyang Technological University, Singapore and Department of Biotechnology & Bioinformatics, College of Science & Technology, Korea University, Chungnam, Korea</mods:affiliation></affiliation></author><author><name sortKey="Mitchell, Wayne P" sort="Mitchell, Wayne P" uniqKey="Mitchell W" first="Wayne P." last="Mitchell">Wayne P. Mitchell</name><affiliation><mods:affiliation>Department of Life Sciences & Biotechnology, School of Life Sciences & Biotechnology, Korea University, Seoul, Korea, Center for Infectious Diseases, Korea National Institute of Health, Seoul, Korea, Genome Institute of Singapore, A*STAR, 60 Biopolis Street, Singapore, Experimental Therapeutics Center, 31 Biopolis Street, Singapore, Division of Information Systems, School of Computer Engineering, Nanyang Technological University, Singapore and Department of Biotechnology & Bioinformatics, College of Science & Technology, Korea University, Chungnam, Korea</mods:affiliation></affiliation></author><author><name sortKey="Kim, Bong Su" sort="Kim, Bong Su" uniqKey="Kim B" first="Bong Su" last="Kim">Bong Su Kim</name><affiliation><mods:affiliation>Department of Life Sciences & Biotechnology, School of Life Sciences & Biotechnology, Korea University, Seoul, Korea, Center for Infectious Diseases, Korea National Institute of Health, Seoul, Korea, Genome Institute of Singapore, A*STAR, 60 Biopolis Street, Singapore, Experimental Therapeutics Center, 31 Biopolis Street, Singapore, Division of Information Systems, School of Computer Engineering, Nanyang Technological University, Singapore and Department of Biotechnology & Bioinformatics, College of Science & Technology, Korea University, Chungnam, Korea</mods:affiliation></affiliation></author><author><name sortKey="Oh, Hee Bok" sort="Oh, Hee Bok" uniqKey="Oh H" first="Hee-Bok" last="Oh">Hee-Bok Oh</name><affiliation><mods:affiliation>Department of Life Sciences & Biotechnology, School of Life Sciences & Biotechnology, Korea University, Seoul, Korea, Center for Infectious Diseases, Korea National Institute of Health, Seoul, Korea, Genome Institute of Singapore, A*STAR, 60 Biopolis Street, Singapore, Experimental Therapeutics Center, 31 Biopolis Street, Singapore, Division of Information Systems, School of Computer Engineering, Nanyang Technological University, Singapore and Department of Biotechnology & Bioinformatics, College of Science & Technology, Korea University, Chungnam, Korea</mods:affiliation></affiliation><affiliation><mods:affiliation>E-mail: khkim@korea.ac.kr</mods:affiliation></affiliation></author><author><name sortKey="Kim, Kyung Hyun" sort="Kim, Kyung Hyun" uniqKey="Kim K" first="Kyung Hyun" last="Kim">Kyung Hyun Kim</name><affiliation><mods:affiliation>Department of Life Sciences & Biotechnology, School of Life Sciences & Biotechnology, Korea University, Seoul, Korea, Center for Infectious Diseases, Korea National Institute of Health, Seoul, Korea, Genome Institute of Singapore, A*STAR, 60 Biopolis Street, Singapore, Experimental Therapeutics Center, 31 Biopolis Street, Singapore, Division of Information Systems, School of Computer Engineering, Nanyang Technological University, Singapore and Department of Biotechnology & Bioinformatics, College of Science & Technology, Korea University, Chungnam, Korea</mods:affiliation></affiliation><affiliation><mods:affiliation>E-mail: khkim@korea.ac.kr</mods:affiliation></affiliation><affiliation><mods:affiliation>*To whom correspondence should be addressed. Tel: 82-2-3290-3444; Fax: 82-2-3290-3945; Email: khkim@korea.ac.kr Correspondence may also be addressed to Hee-Bok Oh. Tel: 82-2-355-5601; Fax: 82-2-382-4891; Email: hboh@nih.go.kr</mods:affiliation></affiliation></author></titleStmt><publicationStmt><idno type="wicri:source">ISTEX</idno><idno type="RBID">ISTEX:AEC135D58A541D17B237B0119D4BB38E8F680BAB</idno><date when="2007" year="2007">2007</date><idno type="doi">10.1093/nar/gkm925</idno><idno type="url">https://api.istex.fr/ark:/67375/HXZ-Q2K9CS6F-0/fulltext.pdf</idno><idno type="wicri:Area/Istex/Corpus">001703</idno><idno type="wicri:explorRef" wicri:stream="Istex" wicri:step="Corpus" wicri:corpus="ISTEX">001703</idno></publicationStmt><sourceDesc><biblStruct><analytic><title level="a" type="main">IDBD: Infectious Disease Biomarker Database</title><author><name sortKey="Yang, In Seok" sort="Yang, In Seok" uniqKey="Yang I" first="In Seok" last="Yang">In Seok Yang</name><affiliation><mods:affiliation>Department of Life Sciences & Biotechnology, School of Life Sciences & Biotechnology, Korea University, Seoul, Korea, Center for Infectious Diseases, Korea National Institute of Health, Seoul, Korea, Genome Institute of Singapore, A*STAR, 60 Biopolis Street, Singapore, Experimental Therapeutics Center, 31 Biopolis Street, Singapore, Division of Information Systems, School of Computer Engineering, Nanyang Technological University, Singapore and Department of Biotechnology & Bioinformatics, College of Science & Technology, Korea University, Chungnam, Korea</mods:affiliation></affiliation></author><author><name sortKey="Ryu, Chunsun" sort="Ryu, Chunsun" uniqKey="Ryu C" first="Chunsun" last="Ryu">Chunsun Ryu</name><affiliation><mods:affiliation>Department of Life Sciences & Biotechnology, School of Life Sciences & Biotechnology, Korea University, Seoul, Korea, Center for Infectious Diseases, Korea National Institute of Health, Seoul, Korea, Genome Institute of Singapore, A*STAR, 60 Biopolis Street, Singapore, Experimental Therapeutics Center, 31 Biopolis Street, Singapore, Division of Information Systems, School of Computer Engineering, Nanyang Technological University, Singapore and Department of Biotechnology & Bioinformatics, College of Science & Technology, Korea University, Chungnam, Korea</mods:affiliation></affiliation></author><author><name sortKey="Cho, Ki Joon" sort="Cho, Ki Joon" uniqKey="Cho K" first="Ki Joon" last="Cho">Ki Joon Cho</name><affiliation><mods:affiliation>Department of Life Sciences & Biotechnology, School of Life Sciences & Biotechnology, Korea University, Seoul, Korea, Center for Infectious Diseases, Korea National Institute of Health, Seoul, Korea, Genome Institute of Singapore, A*STAR, 60 Biopolis Street, Singapore, Experimental Therapeutics Center, 31 Biopolis Street, Singapore, Division of Information Systems, School of Computer Engineering, Nanyang Technological University, Singapore and Department of Biotechnology & Bioinformatics, College of Science & Technology, Korea University, Chungnam, Korea</mods:affiliation></affiliation></author><author><name sortKey="Kim, Jin Kwang" sort="Kim, Jin Kwang" uniqKey="Kim J" first="Jin Kwang" last="Kim">Jin Kwang Kim</name><affiliation><mods:affiliation>Department of Life Sciences & Biotechnology, School of Life Sciences & Biotechnology, Korea University, Seoul, Korea, Center for Infectious Diseases, Korea National Institute of Health, Seoul, Korea, Genome Institute of Singapore, A*STAR, 60 Biopolis Street, Singapore, Experimental Therapeutics Center, 31 Biopolis Street, Singapore, Division of Information Systems, School of Computer Engineering, Nanyang Technological University, Singapore and Department of Biotechnology & Bioinformatics, College of Science & Technology, Korea University, Chungnam, Korea</mods:affiliation></affiliation></author><author><name sortKey="Ong, Swee Hoe" sort="Ong, Swee Hoe" uniqKey="Ong S" first="Swee Hoe" last="Ong">Swee Hoe Ong</name><affiliation><mods:affiliation>Department of Life Sciences & Biotechnology, School of Life Sciences & Biotechnology, Korea University, Seoul, Korea, Center for Infectious Diseases, Korea National Institute of Health, Seoul, Korea, Genome Institute of Singapore, A*STAR, 60 Biopolis Street, Singapore, Experimental Therapeutics Center, 31 Biopolis Street, Singapore, Division of Information Systems, School of Computer Engineering, Nanyang Technological University, Singapore and Department of Biotechnology & Bioinformatics, College of Science & Technology, Korea University, Chungnam, Korea</mods:affiliation></affiliation></author><author><name sortKey="Mitchell, Wayne P" sort="Mitchell, Wayne P" uniqKey="Mitchell W" first="Wayne P." last="Mitchell">Wayne P. Mitchell</name><affiliation><mods:affiliation>Department of Life Sciences & Biotechnology, School of Life Sciences & Biotechnology, Korea University, Seoul, Korea, Center for Infectious Diseases, Korea National Institute of Health, Seoul, Korea, Genome Institute of Singapore, A*STAR, 60 Biopolis Street, Singapore, Experimental Therapeutics Center, 31 Biopolis Street, Singapore, Division of Information Systems, School of Computer Engineering, Nanyang Technological University, Singapore and Department of Biotechnology & Bioinformatics, College of Science & Technology, Korea University, Chungnam, Korea</mods:affiliation></affiliation></author><author><name sortKey="Kim, Bong Su" sort="Kim, Bong Su" uniqKey="Kim B" first="Bong Su" last="Kim">Bong Su Kim</name><affiliation><mods:affiliation>Department of Life Sciences & Biotechnology, School of Life Sciences & Biotechnology, Korea University, Seoul, Korea, Center for Infectious Diseases, Korea National Institute of Health, Seoul, Korea, Genome Institute of Singapore, A*STAR, 60 Biopolis Street, Singapore, Experimental Therapeutics Center, 31 Biopolis Street, Singapore, Division of Information Systems, School of Computer Engineering, Nanyang Technological University, Singapore and Department of Biotechnology & Bioinformatics, College of Science & Technology, Korea University, Chungnam, Korea</mods:affiliation></affiliation></author><author><name sortKey="Oh, Hee Bok" sort="Oh, Hee Bok" uniqKey="Oh H" first="Hee-Bok" last="Oh">Hee-Bok Oh</name><affiliation><mods:affiliation>Department of Life Sciences & Biotechnology, School of Life Sciences & Biotechnology, Korea University, Seoul, Korea, Center for Infectious Diseases, Korea National Institute of Health, Seoul, Korea, Genome Institute of Singapore, A*STAR, 60 Biopolis Street, Singapore, Experimental Therapeutics Center, 31 Biopolis Street, Singapore, Division of Information Systems, School of Computer Engineering, Nanyang Technological University, Singapore and Department of Biotechnology & Bioinformatics, College of Science & Technology, Korea University, Chungnam, Korea</mods:affiliation></affiliation><affiliation><mods:affiliation>E-mail: khkim@korea.ac.kr</mods:affiliation></affiliation></author><author><name sortKey="Kim, Kyung Hyun" sort="Kim, Kyung Hyun" uniqKey="Kim K" first="Kyung Hyun" last="Kim">Kyung Hyun Kim</name><affiliation><mods:affiliation>Department of Life Sciences & Biotechnology, School of Life Sciences & Biotechnology, Korea University, Seoul, Korea, Center for Infectious Diseases, Korea National Institute of Health, Seoul, Korea, Genome Institute of Singapore, A*STAR, 60 Biopolis Street, Singapore, Experimental Therapeutics Center, 31 Biopolis Street, Singapore, Division of Information Systems, School of Computer Engineering, Nanyang Technological University, Singapore and Department of Biotechnology & Bioinformatics, College of Science & Technology, Korea University, Chungnam, Korea</mods:affiliation></affiliation><affiliation><mods:affiliation>E-mail: khkim@korea.ac.kr</mods:affiliation></affiliation><affiliation><mods:affiliation>*To whom correspondence should be addressed. Tel: 82-2-3290-3444; Fax: 82-2-3290-3945; Email: khkim@korea.ac.kr Correspondence may also be addressed to Hee-Bok Oh. Tel: 82-2-355-5601; Fax: 82-2-382-4891; Email: hboh@nih.go.kr</mods:affiliation></affiliation></author></analytic><monogr></monogr><series><title level="j" type="main">Nucleic Acids Research</title><title level="j" type="issue">Database issue</title><idno type="ISSN">0305-1048</idno><idno type="eISSN">1362-4962</idno><imprint><publisher>Oxford University Press</publisher><date type="published">2008</date><date type="e-published">2007</date><biblScope unit="vol">36</biblScope><biblScope unit="issue">suppl_1</biblScope><biblScope unit="page" from="D455">D455</biblScope><biblScope unit="page" to="D460">D460</biblScope></imprint><idno type="ISSN">0305-1048</idno></series></biblStruct></sourceDesc><seriesStmt><idno type="ISSN">0305-1048</idno></seriesStmt></fileDesc><profileDesc><textClass></textClass></profileDesc></teiHeader><front><div type="abstract">Biomarkers enable early diagnosis, guide molecularly targeted therapy and monitor the activity and therapeutic responses across a variety of diseases. Despite intensified interest and research, however, the overall rate of development of novel biomarkers has been falling. Moreover, no solution is yet available that efficiently retrieves and processes biomarker information pertaining to infectious diseases. Infectious Disease Biomarker Database (IDBD) is one of the first efforts to build an easily accessible and comprehensive literature-derived database covering known infectious disease biomarkers. IDBD is a community annotation database, utilizing collaborative Web 2.0 features, providing a convenient user interface to input and revise data online. It allows users to link infectious diseases or pathogens to protein, gene or carbohydrate biomarkers through the use of search tools. It supports various types of data searches and application tools to analyze sequence and structure features of potential and validated biomarkers. Currently, IDBD integrates 611 biomarkers for 66 infectious diseases and 70 pathogens. It is publicly accessible at http://biomarker.cdc.go.kr and http://biomarker.korea.ac.kr.</div></front></TEI><istex><corpusName>oup</corpusName><author><json:item><name>In Seok Yang</name><affiliations><json:string>Department of Life Sciences & Biotechnology, School of Life Sciences & Biotechnology, Korea University, Seoul, Korea, Center for Infectious Diseases, Korea National Institute of Health, Seoul, Korea, Genome Institute of Singapore, A*STAR, 60 Biopolis Street, Singapore, Experimental Therapeutics Center, 31 Biopolis Street, Singapore, Division of Information Systems, School of Computer Engineering, Nanyang Technological University, Singapore and Department of Biotechnology & Bioinformatics, College of Science & Technology, Korea University, Chungnam, Korea</json:string></affiliations></json:item><json:item><name>Chunsun Ryu</name><affiliations><json:string>Department of Life Sciences & Biotechnology, School of Life Sciences & Biotechnology, Korea University, Seoul, Korea, Center for Infectious Diseases, Korea National Institute of Health, Seoul, Korea, Genome Institute of Singapore, A*STAR, 60 Biopolis Street, Singapore, Experimental Therapeutics Center, 31 Biopolis Street, Singapore, Division of Information Systems, School of Computer Engineering, Nanyang Technological University, Singapore and Department of Biotechnology & Bioinformatics, College of Science & Technology, Korea University, Chungnam, Korea</json:string></affiliations></json:item><json:item><name>Ki Joon Cho</name><affiliations><json:string>Department of Life Sciences & Biotechnology, School of Life Sciences & Biotechnology, Korea University, Seoul, Korea, Center for Infectious Diseases, Korea National Institute of Health, Seoul, Korea, Genome Institute of Singapore, A*STAR, 60 Biopolis Street, Singapore, Experimental Therapeutics Center, 31 Biopolis Street, Singapore, Division of Information Systems, School of Computer Engineering, Nanyang Technological University, Singapore and Department of Biotechnology & Bioinformatics, College of Science & Technology, Korea University, Chungnam, Korea</json:string></affiliations></json:item><json:item><name>Jin Kwang Kim</name><affiliations><json:string>Department of Life Sciences & Biotechnology, School of Life Sciences & Biotechnology, Korea University, Seoul, Korea, Center for Infectious Diseases, Korea National Institute of Health, Seoul, Korea, Genome Institute of Singapore, A*STAR, 60 Biopolis Street, Singapore, Experimental Therapeutics Center, 31 Biopolis Street, Singapore, Division of Information Systems, School of Computer Engineering, Nanyang Technological University, Singapore and Department of Biotechnology & Bioinformatics, College of Science & Technology, Korea University, Chungnam, Korea</json:string></affiliations></json:item><json:item><name>Swee Hoe Ong</name><affiliations><json:string>Department of Life Sciences & Biotechnology, School of Life Sciences & Biotechnology, Korea University, Seoul, Korea, Center for Infectious Diseases, Korea National Institute of Health, Seoul, Korea, Genome Institute of Singapore, A*STAR, 60 Biopolis Street, Singapore, Experimental Therapeutics Center, 31 Biopolis Street, Singapore, Division of Information Systems, School of Computer Engineering, Nanyang Technological University, Singapore and Department of Biotechnology & Bioinformatics, College of Science & Technology, Korea University, Chungnam, Korea</json:string></affiliations></json:item><json:item><name>Wayne P. Mitchell</name><affiliations><json:string>Department of Life Sciences & Biotechnology, School of Life Sciences & Biotechnology, Korea University, Seoul, Korea, Center for Infectious Diseases, Korea National Institute of Health, Seoul, Korea, Genome Institute of Singapore, A*STAR, 60 Biopolis Street, Singapore, Experimental Therapeutics Center, 31 Biopolis Street, Singapore, Division of Information Systems, School of Computer Engineering, Nanyang Technological University, Singapore and Department of Biotechnology & Bioinformatics, College of Science & Technology, Korea University, Chungnam, Korea</json:string></affiliations></json:item><json:item><name>Bong Su Kim</name><affiliations><json:string>Department of Life Sciences & Biotechnology, School of Life Sciences & Biotechnology, Korea University, Seoul, Korea, Center for Infectious Diseases, Korea National Institute of Health, Seoul, Korea, Genome Institute of Singapore, A*STAR, 60 Biopolis Street, Singapore, Experimental Therapeutics Center, 31 Biopolis Street, Singapore, Division of Information Systems, School of Computer Engineering, Nanyang Technological University, Singapore and Department of Biotechnology & Bioinformatics, College of Science & Technology, Korea University, Chungnam, Korea</json:string></affiliations></json:item><json:item><name>Hee-Bok Oh</name><affiliations><json:string>Department of Life Sciences & Biotechnology, School of Life Sciences & Biotechnology, Korea University, Seoul, Korea, Center for Infectious Diseases, Korea National Institute of Health, Seoul, Korea, Genome Institute of Singapore, A*STAR, 60 Biopolis Street, Singapore, Experimental Therapeutics Center, 31 Biopolis Street, Singapore, Division of Information Systems, School of Computer Engineering, Nanyang Technological University, Singapore and Department of Biotechnology & Bioinformatics, College of Science & Technology, Korea University, Chungnam, Korea</json:string><json:string>E-mail: khkim@korea.ac.kr</json:string></affiliations></json:item><json:item><name>Kyung Hyun Kim</name><affiliations><json:string>Department of Life Sciences & Biotechnology, School of Life Sciences & Biotechnology, Korea University, Seoul, Korea, Center for Infectious Diseases, Korea National Institute of Health, Seoul, Korea, Genome Institute of Singapore, A*STAR, 60 Biopolis Street, Singapore, Experimental Therapeutics Center, 31 Biopolis Street, Singapore, Division of Information Systems, School of Computer Engineering, Nanyang Technological University, Singapore and Department of Biotechnology & Bioinformatics, College of Science & Technology, Korea University, Chungnam, Korea</json:string><json:string>E-mail: khkim@korea.ac.kr</json:string><json:string>*To whom correspondence should be addressed. Tel: 82-2-3290-3444; Fax: 82-2-3290-3945; Email: khkim@korea.ac.kr Correspondence may also be addressed to Hee-Bok Oh. Tel: 82-2-355-5601; Fax: 82-2-382-4891; Email: hboh@nih.go.kr</json:string></affiliations></json:item></author><arkIstex>ark:/67375/HXZ-Q2K9CS6F-0</arkIstex><language><json:string>unknown</json:string></language><originalGenre><json:string>research-article</json:string></originalGenre><abstract>Biomarkers enable early diagnosis, guide molecularly targeted therapy and monitor the activity and therapeutic responses across a variety of diseases. Despite intensified interest and research, however, the overall rate of development of novel biomarkers has been falling. Moreover, no solution is yet available that efficiently retrieves and processes biomarker information pertaining to infectious diseases. Infectious Disease Biomarker Database (IDBD) is one of the first efforts to build an easily accessible and comprehensive literature-derived database covering known infectious disease biomarkers. IDBD is a community annotation database, utilizing collaborative Web 2.0 features, providing a convenient user interface to input and revise data online. It allows users to link infectious diseases or pathogens to protein, gene or carbohydrate biomarkers through the use of search tools. It supports various types of data searches and application tools to analyze sequence and structure features of potential and validated biomarkers. Currently, IDBD integrates 611 biomarkers for 66 infectious diseases and 70 pathogens. It is publicly accessible at http://biomarker.cdc.go.kr and http://biomarker.korea.ac.kr.</abstract><qualityIndicators><score>4.673</score><pdfWordCount>2717</pdfWordCount><pdfCharCount>18945</pdfCharCount><pdfVersion>1.3</pdfVersion><pdfPageCount>6</pdfPageCount><pdfPageSize>612 x 791 pts</pdfPageSize><pdfWordsPerPage>453</pdfWordsPerPage><pdfText>true</pdfText><refBibsNative>true</refBibsNative><abstractWordCount>163</abstractWordCount><abstractCharCount>1216</abstractCharCount><keywordCount>0</keywordCount></qualityIndicators><title>IDBD: Infectious Disease Biomarker Database</title><genre><json:string>research-article</json:string></genre><host><title>Nucleic Acids Research</title><language><json:string>unknown</json:string></language><issn><json:string>0305-1048</json:string></issn><eissn><json:string>1362-4962</json:string></eissn><publisherId><json:string>nar</json:string></publisherId><volume>36</volume><issue>suppl-1</issue><pages><first>D455</first><last>D460</last></pages><genre><json:string>journal</json:string></genre><subject><json:item><value>Articles</value></json:item></subject></host><ark><json:string>ark:/67375/HXZ-Q2K9CS6F-0</json:string></ark><categories><wos><json:string>1 - science</json:string><json:string>2 - biochemistry & molecular biology</json:string></wos><scienceMetrix><json:string>1 - health sciences</json:string><json:string>2 - biomedical research</json:string><json:string>3 - developmental biology</json:string></scienceMetrix><scopus><json:string>1 - Life Sciences</json:string><json:string>2 - Biochemistry, Genetics and Molecular Biology</json:string><json:string>3 - Genetics</json:string></scopus><inist><json:string>1 - sciences appliquees, technologies et medecines</json:string><json:string>2 - sciences biologiques et medicales</json:string><json:string>3 - sciences medicales</json:string></inist></categories><publicationDate>2008</publicationDate><copyrightDate>2007</copyrightDate><doi><json:string>10.1093/nar/gkm925</json:string></doi><id>AEC135D58A541D17B237B0119D4BB38E8F680BAB</id><score>1</score><fulltext><json:item><extension>pdf</extension><original>true</original><mimetype>application/pdf</mimetype><uri>https://api.istex.fr/ark:/67375/HXZ-Q2K9CS6F-0/fulltext.pdf</uri></json:item><json:item><extension>zip</extension><original>false</original><mimetype>application/zip</mimetype><uri>https://api.istex.fr/ark:/67375/HXZ-Q2K9CS6F-0/bundle.zip</uri></json:item><json:item><extension>txt</extension><original>false</original><mimetype>text/plain</mimetype><uri>https://api.istex.fr/ark:/67375/HXZ-Q2K9CS6F-0/fulltext.txt</uri></json:item><istex:fulltextTEI uri="https://api.istex.fr/ark:/67375/HXZ-Q2K9CS6F-0/fulltext.tei"><teiHeader><fileDesc><titleStmt><title level="a" type="main">IDBD: Infectious Disease Biomarker Database</title></titleStmt><publicationStmt><authority>ISTEX</authority><publisher>Oxford University Press</publisher><availability><licence>© 2007 The Author(s)</licence></availability><date type="Copyright" when="2007">2007</date><date type="e-published">2007</date></publicationStmt><notesStmt><note type="content-type" source="research-article" scheme="https://content-type.data.istex.fr/ark:/67375/XTP-1JC4F85T-7">research-article</note><note type="publication-type" scheme="https://publication-type.data.istex.fr/ark:/67375/JMC-0GLKJH51-B">journal</note></notesStmt><sourceDesc><biblStruct type="article"><analytic><title level="a" type="main">IDBD: Infectious Disease Biomarker Database</title><author xml:id="author-0000"><persName><surname>Yang</surname><forename type="first">In Seok</forename></persName><affiliation><orgName type="department">Department of Life Sciences & Biotechnology</orgName><orgName type="department">School of Life Sciences & Biotechnology</orgName><orgName type="institution">Korea University</orgName><address><addrLine>Seoul</addrLine><country key="KR" xml:lang="en">KOREA, REPUBLIC OF</country><addrLine>Center for Infectious Diseases</addrLine><addrLine>Korea National Institute of Health</addrLine><addrLine>Seoul</addrLine><country key="KR" xml:lang="en">KOREA, REPUBLIC OF</country><addrLine>Genome Institute of Singapore</addrLine><addrLine>A*STAR</addrLine><addrLine>60 Biopolis Street</addrLine><country key="SG" xml:lang="en">SINGAPORE</country><addrLine>Experimental Therapeutics Center</addrLine><addrLine>31 Biopolis Street</addrLine><country key="SG" xml:lang="en">SINGAPORE</country><addrLine>Division of Information Systems</addrLine><addrLine>School of Computer Engineering</addrLine><addrLine>Nanyang Technological University</addrLine><addrLine>Singapore and Department of Biotechnology & Bioinformatics</addrLine><addrLine>College of Science & Technology</addrLine><addrLine>Korea University</addrLine><addrLine>Chungnam</addrLine><country key="KR" xml:lang="en">KOREA, REPUBLIC OF</country></address></affiliation></author><author xml:id="author-0001"><persName><surname>Ryu</surname><forename type="first">Chunsun</forename></persName><affiliation><orgName type="department">Department of Life Sciences & Biotechnology</orgName><orgName type="department">School of Life Sciences & Biotechnology</orgName><orgName type="institution">Korea University</orgName><address><addrLine>Seoul</addrLine><country key="KR" xml:lang="en">KOREA, REPUBLIC OF</country><addrLine>Center for Infectious Diseases</addrLine><addrLine>Korea National Institute of Health</addrLine><addrLine>Seoul</addrLine><country key="KR" xml:lang="en">KOREA, REPUBLIC OF</country><addrLine>Genome Institute of Singapore</addrLine><addrLine>A*STAR</addrLine><addrLine>60 Biopolis Street</addrLine><country key="SG" xml:lang="en">SINGAPORE</country><addrLine>Experimental Therapeutics Center</addrLine><addrLine>31 Biopolis Street</addrLine><country key="SG" xml:lang="en">SINGAPORE</country><addrLine>Division of Information Systems</addrLine><addrLine>School of Computer Engineering</addrLine><addrLine>Nanyang Technological University</addrLine><addrLine>Singapore and Department of Biotechnology & Bioinformatics</addrLine><addrLine>College of Science & Technology</addrLine><addrLine>Korea University</addrLine><addrLine>Chungnam</addrLine><country key="KR" xml:lang="en">KOREA, REPUBLIC OF</country></address></affiliation></author><author xml:id="author-0002"><persName><surname>Cho</surname><forename type="first">Ki Joon</forename></persName><affiliation><orgName type="department">Department of Life Sciences & Biotechnology</orgName><orgName type="department">School of Life Sciences & Biotechnology</orgName><orgName type="institution">Korea University</orgName><address><addrLine>Seoul</addrLine><country key="KR" xml:lang="en">KOREA, REPUBLIC OF</country><addrLine>Center for Infectious Diseases</addrLine><addrLine>Korea National Institute of Health</addrLine><addrLine>Seoul</addrLine><country key="KR" xml:lang="en">KOREA, REPUBLIC OF</country><addrLine>Genome Institute of Singapore</addrLine><addrLine>A*STAR</addrLine><addrLine>60 Biopolis Street</addrLine><country key="SG" xml:lang="en">SINGAPORE</country><addrLine>Experimental Therapeutics Center</addrLine><addrLine>31 Biopolis Street</addrLine><country key="SG" xml:lang="en">SINGAPORE</country><addrLine>Division of Information Systems</addrLine><addrLine>School of Computer Engineering</addrLine><addrLine>Nanyang Technological University</addrLine><addrLine>Singapore and Department of Biotechnology & Bioinformatics</addrLine><addrLine>College of Science & Technology</addrLine><addrLine>Korea University</addrLine><addrLine>Chungnam</addrLine><country key="KR" xml:lang="en">KOREA, REPUBLIC OF</country></address></affiliation></author><author xml:id="author-0003"><persName><surname>Kim</surname><forename type="first">Jin Kwang</forename></persName><affiliation><orgName type="department">Department of Life Sciences & Biotechnology</orgName><orgName type="department">School of Life Sciences & Biotechnology</orgName><orgName type="institution">Korea University</orgName><address><addrLine>Seoul</addrLine><country key="KR" xml:lang="en">KOREA, REPUBLIC OF</country><addrLine>Center for Infectious Diseases</addrLine><addrLine>Korea National Institute of Health</addrLine><addrLine>Seoul</addrLine><country key="KR" xml:lang="en">KOREA, REPUBLIC OF</country><addrLine>Genome Institute of Singapore</addrLine><addrLine>A*STAR</addrLine><addrLine>60 Biopolis Street</addrLine><country key="SG" xml:lang="en">SINGAPORE</country><addrLine>Experimental Therapeutics Center</addrLine><addrLine>31 Biopolis Street</addrLine><country key="SG" xml:lang="en">SINGAPORE</country><addrLine>Division of Information Systems</addrLine><addrLine>School of Computer Engineering</addrLine><addrLine>Nanyang Technological University</addrLine><addrLine>Singapore and Department of Biotechnology & Bioinformatics</addrLine><addrLine>College of Science & Technology</addrLine><addrLine>Korea University</addrLine><addrLine>Chungnam</addrLine><country key="KR" xml:lang="en">KOREA, REPUBLIC OF</country></address></affiliation></author><author xml:id="author-0004"><persName><surname>Ong</surname><forename type="first">Swee Hoe</forename></persName><affiliation><orgName type="department">Department of Life Sciences & Biotechnology</orgName><orgName type="department">School of Life Sciences & Biotechnology</orgName><orgName type="institution">Korea University</orgName><address><addrLine>Seoul</addrLine><country key="KR" xml:lang="en">KOREA, REPUBLIC OF</country><addrLine>Center for Infectious Diseases</addrLine><addrLine>Korea National Institute of Health</addrLine><addrLine>Seoul</addrLine><country key="KR" xml:lang="en">KOREA, REPUBLIC OF</country><addrLine>Genome Institute of Singapore</addrLine><addrLine>A*STAR</addrLine><addrLine>60 Biopolis Street</addrLine><country key="SG" xml:lang="en">SINGAPORE</country><addrLine>Experimental Therapeutics Center</addrLine><addrLine>31 Biopolis Street</addrLine><country key="SG" xml:lang="en">SINGAPORE</country><addrLine>Division of Information Systems</addrLine><addrLine>School of Computer Engineering</addrLine><addrLine>Nanyang Technological University</addrLine><addrLine>Singapore and Department of Biotechnology & Bioinformatics</addrLine><addrLine>College of Science & Technology</addrLine><addrLine>Korea University</addrLine><addrLine>Chungnam</addrLine><country key="KR" xml:lang="en">KOREA, REPUBLIC OF</country></address></affiliation></author><author xml:id="author-0005"><persName><surname>Mitchell</surname><forename type="first">Wayne P.</forename></persName><affiliation><orgName type="department">Department of Life Sciences & Biotechnology</orgName><orgName type="department">School of Life Sciences & Biotechnology</orgName><orgName type="institution">Korea University</orgName><address><addrLine>Seoul</addrLine><country key="KR" xml:lang="en">KOREA, REPUBLIC OF</country><addrLine>Center for Infectious Diseases</addrLine><addrLine>Korea National Institute of Health</addrLine><addrLine>Seoul</addrLine><country key="KR" xml:lang="en">KOREA, REPUBLIC OF</country><addrLine>Genome Institute of Singapore</addrLine><addrLine>A*STAR</addrLine><addrLine>60 Biopolis Street</addrLine><country key="SG" xml:lang="en">SINGAPORE</country><addrLine>Experimental Therapeutics Center</addrLine><addrLine>31 Biopolis Street</addrLine><country key="SG" xml:lang="en">SINGAPORE</country><addrLine>Division of Information Systems</addrLine><addrLine>School of Computer Engineering</addrLine><addrLine>Nanyang Technological University</addrLine><addrLine>Singapore and Department of Biotechnology & Bioinformatics</addrLine><addrLine>College of Science & Technology</addrLine><addrLine>Korea University</addrLine><addrLine>Chungnam</addrLine><country key="KR" xml:lang="en">KOREA, REPUBLIC OF</country></address></affiliation></author><author xml:id="author-0006"><persName><surname>Kim</surname><forename type="first">Bong Su</forename></persName><affiliation><orgName type="department">Department of Life Sciences & Biotechnology</orgName><orgName type="department">School of Life Sciences & Biotechnology</orgName><orgName type="institution">Korea University</orgName><address><addrLine>Seoul</addrLine><country key="KR" xml:lang="en">KOREA, REPUBLIC OF</country><addrLine>Center for Infectious Diseases</addrLine><addrLine>Korea National Institute of Health</addrLine><addrLine>Seoul</addrLine><country key="KR" xml:lang="en">KOREA, REPUBLIC OF</country><addrLine>Genome Institute of Singapore</addrLine><addrLine>A*STAR</addrLine><addrLine>60 Biopolis Street</addrLine><country key="SG" xml:lang="en">SINGAPORE</country><addrLine>Experimental Therapeutics Center</addrLine><addrLine>31 Biopolis Street</addrLine><country key="SG" xml:lang="en">SINGAPORE</country><addrLine>Division of Information Systems</addrLine><addrLine>School of Computer Engineering</addrLine><addrLine>Nanyang Technological University</addrLine><addrLine>Singapore and Department of Biotechnology & Bioinformatics</addrLine><addrLine>College of Science & Technology</addrLine><addrLine>Korea University</addrLine><addrLine>Chungnam</addrLine><country key="KR" xml:lang="en">KOREA, REPUBLIC OF</country></address></affiliation></author><author xml:id="author-0007" role="corresp"><persName><surname>Oh</surname><forename type="first">Hee-Bok</forename></persName><affiliation><orgName type="department">Department of Life Sciences & Biotechnology</orgName><orgName type="department">School of Life Sciences & Biotechnology</orgName><orgName type="institution">Korea University</orgName><address><addrLine>Seoul</addrLine><country key="KR" xml:lang="en">KOREA, REPUBLIC OF</country><addrLine>Center for Infectious Diseases</addrLine><addrLine>Korea National Institute of Health</addrLine><addrLine>Seoul</addrLine><country key="KR" xml:lang="en">KOREA, REPUBLIC OF</country><addrLine>Genome Institute of Singapore</addrLine><addrLine>A*STAR</addrLine><addrLine>60 Biopolis Street</addrLine><country key="SG" xml:lang="en">SINGAPORE</country><addrLine>Experimental Therapeutics Center</addrLine><addrLine>31 Biopolis Street</addrLine><country key="SG" xml:lang="en">SINGAPORE</country><addrLine>Division of Information Systems</addrLine><addrLine>School of Computer Engineering</addrLine><addrLine>Nanyang Technological University</addrLine><addrLine>Singapore and Department of Biotechnology & Bioinformatics</addrLine><addrLine>College of Science & Technology</addrLine><addrLine>Korea University</addrLine><addrLine>Chungnam</addrLine><country key="KR" xml:lang="en">KOREA, REPUBLIC OF</country></address></affiliation></author><author xml:id="author-0008" role="corresp"><persName><surname>Kim</surname><forename type="first">Kyung Hyun</forename></persName><affiliation><orgName type="department">Department of Life Sciences & Biotechnology</orgName><orgName type="department">School of Life Sciences & Biotechnology</orgName><orgName type="institution">Korea University</orgName><address><addrLine>Seoul</addrLine><country key="KR" xml:lang="en">KOREA, REPUBLIC OF</country><addrLine>Center for Infectious Diseases</addrLine><addrLine>Korea National Institute of Health</addrLine><addrLine>Seoul</addrLine><country key="KR" xml:lang="en">KOREA, REPUBLIC OF</country><addrLine>Genome Institute of Singapore</addrLine><addrLine>A*STAR</addrLine><addrLine>60 Biopolis Street</addrLine><country key="SG" xml:lang="en">SINGAPORE</country><addrLine>Experimental Therapeutics Center</addrLine><addrLine>31 Biopolis Street</addrLine><country key="SG" xml:lang="en">SINGAPORE</country><addrLine>Division of Information Systems</addrLine><addrLine>School of Computer Engineering</addrLine><addrLine>Nanyang Technological University</addrLine><addrLine>Singapore and Department of Biotechnology & Bioinformatics</addrLine><addrLine>College of Science & Technology</addrLine><addrLine>Korea University</addrLine><addrLine>Chungnam</addrLine><country key="KR" xml:lang="en">KOREA, REPUBLIC OF</country></address></affiliation></author><idno type="istex">AEC135D58A541D17B237B0119D4BB38E8F680BAB</idno><idno type="ark">ark:/67375/HXZ-Q2K9CS6F-0</idno><idno type="DOI">10.1093/nar/gkm925</idno></analytic><monogr><title level="j" type="main">Nucleic Acids Research</title><title level="j" type="issue">Database issue</title><idno type="publisher-id">nar</idno><idno type="hwp">nar</idno><idno type="pISSN">0305-1048</idno><idno type="eISSN">1362-4962</idno><imprint><publisher>Oxford University Press</publisher><date type="published">2008</date><date type="e-published">2007</date><biblScope unit="vol">36</biblScope><biblScope unit="issue">suppl_1</biblScope><biblScope unit="page" from="D455">D455</biblScope><biblScope unit="page" to="D460">D460</biblScope></imprint></monogr></biblStruct></sourceDesc></fileDesc><encodingDesc><schemaRef type="ODD" url="https://xml-schema.delivery.istex.fr/tei-istex.odd"></schemaRef><appInfo><application ident="pub2tei" version="1.0.41" when="2020-04-06"><label>pub2TEI-ISTEX</label><desc>A set of style sheets for converting XML documents encoded in various scientific publisher formats into a common TEI format.
<ref target="http://www.tei-c.org/">We use TEI</ref></desc></application></appInfo></encodingDesc><profileDesc><abstract><p>Biomarkers enable early diagnosis, guide molecularly targeted therapy and monitor the activity and therapeutic responses across a variety of diseases. Despite intensified interest and research, however, the overall rate of development of novel biomarkers has been falling. Moreover, no solution is yet available that efficiently retrieves and processes biomarker information pertaining to infectious diseases. Infectious Disease Biomarker Database (IDBD) is one of the first efforts to build an easily accessible and comprehensive literature-derived database covering known infectious disease biomarkers. IDBD is a community annotation database, utilizing collaborative Web 2.0 features, providing a convenient user interface to input and revise data online. It allows users to link infectious diseases or pathogens to protein, gene or carbohydrate biomarkers through the use of search tools. It supports various types of data searches and application tools to analyze sequence and structure features of potential and validated biomarkers. Currently, IDBD integrates 611 biomarkers for 66 infectious diseases and 70 pathogens. It is publicly accessible at <ref type="uri">http://biomarker.cdc.go.kr</ref> and <ref type="uri">http://biomarker.korea.ac.kr</ref>.</p></abstract><textClass ana="subject"><keywords scheme="subject"><term>Articles</term></keywords></textClass><langUsage><language ident="EN"></language></langUsage></profileDesc><revisionDesc><change when="2020-04-06" who="#istex" xml:id="pub2tei">formatting</change></revisionDesc></teiHeader></istex:fulltextTEI></fulltext><metadata><istex:metadataXml wicri:clean="corpus oup, element #text not found" wicri:toSee="no header"><istex:xmlDeclaration>version="1.0" encoding="utf-8"</istex:xmlDeclaration><istex:docType PUBLIC="-//NLM//DTD Journal Publishing DTD v2.3 20070202//EN" URI="journalpublishing.dtd" name="istex:docType"></istex:docType><istex:document><article article-type="research-article">
<front>
<journal-meta>
<journal-id journal-id-type="publisher-id">nar</journal-id>
<journal-id journal-id-type="hwp">nar</journal-id>
<journal-title>Nucleic Acids Research</journal-title>
<issn pub-type="ppub">0305-1048</issn>
<issn pub-type="epub">1362-4962</issn>
<publisher>
<publisher-name>Oxford University Press</publisher-name>
</publisher>
</journal-meta>
<article-meta>
<article-id pub-id-type="doi">10.1093/nar/gkm925</article-id>
<article-categories>
<subj-group>
<subject>Articles</subject>
</subj-group>
</article-categories>
<title-group>
<article-title>IDBD: Infectious Disease Biomarker Database</article-title>
</title-group>
<contrib-group>
<contrib contrib-type="author">
<name><surname>Yang</surname><given-names>In Seok</given-names></name>
<xref ref-type="aff" rid="AFF1"><sup>1</sup></xref>
</contrib>
<contrib contrib-type="author">
<name><surname>Ryu</surname><given-names>Chunsun</given-names></name>
<xref ref-type="aff" rid="AFF1"><sup>2</sup></xref>
</contrib>
<contrib contrib-type="author">
<name><surname>Cho</surname><given-names>Ki Joon</given-names></name>
<xref ref-type="aff" rid="AFF1"><sup>1</sup></xref>
</contrib>
<contrib contrib-type="author">
<name><surname>Kim</surname><given-names>Jin Kwang</given-names></name>
<xref ref-type="aff" rid="AFF1"><sup>1</sup></xref>
</contrib>
<contrib contrib-type="author">
<name><surname>Ong</surname><given-names>Swee Hoe</given-names></name>
<xref ref-type="aff" rid="AFF1"><sup>3</sup></xref>
</contrib>
<contrib contrib-type="author">
<name><surname>Mitchell</surname><given-names>Wayne P.</given-names></name>
<xref ref-type="aff" rid="AFF1"><sup>4</sup></xref>
<xref ref-type="aff" rid="AFF1"><sup>5</sup></xref>
</contrib>
<contrib contrib-type="author">
<name><surname>Kim</surname><given-names>Bong Su</given-names></name>
<xref ref-type="aff" rid="AFF1"><sup>2</sup></xref>
</contrib>
<contrib contrib-type="author" corresp="yes">
<name><surname>Oh</surname><given-names>Hee-Bok</given-names></name>
<xref ref-type="aff" rid="AFF1"><sup>2</sup></xref>
</contrib>
<contrib contrib-type="author" corresp="yes">
<name><surname>Kim</surname><given-names>Kyung Hyun</given-names></name>
<xref ref-type="aff" rid="AFF1"><sup>6</sup></xref>
<xref ref-type="corresp" rid="COR1">*</xref>
</contrib>
</contrib-group>
<aff id="AFF1"><sup>1</sup>Department of Life Sciences & Biotechnology, School of Life Sciences & Biotechnology, Korea University, Seoul, Korea, <sup>2</sup>Center for Infectious Diseases, Korea National Institute of Health, Seoul, Korea, <sup>3</sup>Genome Institute of Singapore, A*STAR, 60 Biopolis Street, Singapore, <sup>4</sup>Experimental Therapeutics Center, 31 Biopolis Street, Singapore, <sup>5</sup>Division of Information Systems, School of Computer Engineering, Nanyang Technological University, Singapore and <sup>6</sup>Department of Biotechnology & Bioinformatics, College of Science & Technology, Korea University, Chungnam, Korea</aff>
<author-notes>
<corresp id="COR1">*To whom correspondence should be addressed. Tel: <phone>82-2-3290-3444</phone>; Fax: <fax>82-2-3290-3945</fax>; Email: <email>khkim@korea.ac.kr</email> Correspondence may also be addressed to Hee-Bok Oh. Tel: <phone>82-2-355-5601</phone>; Fax: <fax>82-2-382-4891</fax>; Email: <email>hboh@nih.go.kr</email></corresp>
</author-notes>
<pub-date pub-type="ppub">
<month>1</month>
<year>2008</year>
</pub-date>
<pub-date pub-type="epub">
<day>3</day>
<month>11</month>
<year>2007</year>
</pub-date>
<volume>36</volume>
<issue>suppl_1</issue>
<issue-title>Database issue</issue-title>
<fpage>D455</fpage>
<lpage>D460</lpage>
<history>
<date date-type="received">
<day>14</day>
<month>8</month>
<year>2007</year>
</date>
<date date-type="rev-recd">
<day>14</day>
<month>9</month>
<year>2007</year>
</date>
<date date-type="accepted">
<day>10</day>
<month>10</month>
<year>2007</year>
</date>
</history>
<copyright-statement>© 2007 The Author(s)</copyright-statement>
<copyright-year>2007</copyright-year>
<license license-type="creative-commons" xlink:href="http://creativecommons.org/licenses/by-nc/2.0/uk/"><p>This is an Open Access article distributed under the terms of the Creative Commons Attribution Non-Commercial License (http://creativecommons.org/licenses/by-nc/2.0/uk/) which permits unrestricted non-commercial use, distribution, and reproduction in any medium, provided the original work is properly cited.</p></license>
<abstract>
<p>Biomarkers enable early diagnosis, guide molecularly targeted therapy and monitor the activity and therapeutic responses across a variety of diseases. Despite intensified interest and research, however, the overall rate of development of novel biomarkers has been falling. Moreover, no solution is yet available that efficiently retrieves and processes biomarker information pertaining to infectious diseases. Infectious Disease Biomarker Database (IDBD) is one of the first efforts to build an easily accessible and comprehensive literature-derived database covering known infectious disease biomarkers. IDBD is a community annotation database, utilizing collaborative Web 2.0 features, providing a convenient user interface to input and revise data online. It allows users to link infectious diseases or pathogens to protein, gene or carbohydrate biomarkers through the use of search tools. It supports various types of data searches and application tools to analyze sequence and structure features of potential and validated biomarkers. Currently, IDBD integrates 611 biomarkers for 66 infectious diseases and 70 pathogens. It is publicly accessible at <ext-link ext-link-type="uri" xlink:href="http://biomarker.cdc.go.kr">http://biomarker.cdc.go.kr</ext-link> and <ext-link ext-link-type="uri" xlink:href="http://biomarker.korea.ac.kr">http://biomarker.korea.ac.kr</ext-link>.</p></abstract>
</article-meta>
</front>
<body>
<sec sec-type="intro"><title>INTRODUCTION</title>
<p>Infectious diseases remain among the leading causes of death and disability worldwide. About 15 million (>25%) of 57 million annual deaths are estimated to be related directly to infectious diseases (<xref ref-type="bibr" rid="B1">1</xref>). Newly emerging and re-emerging infectious diseases constitute an urgent and ongoing threat to public health throughout the world. The discovery of acquired immune deficiency syndrome (AIDS) has led to renewed appreciation of the consequences of the emergence of infectious diseases. Severe acute respiratory syndrome (SARS) emerged in southern China in 2002 and has had a profound impact on public health (<xref ref-type="bibr" rid="B2">2</xref>). Influenza viruses possess evolutionary agility and the capacity to jump between fowl, farm animal and human species (<xref ref-type="bibr" rid="B3">3</xref>). Just as troubling are chronic infections, which create persistent social and economic havoc. Recent studies have shown that the burden of morbidity and mortality associated with certain infectious diseases falls primarily on infants and young children (<xref ref-type="bibr" rid="B4">4</xref>), with long-term social and economic consequences.</p>
<p>Surveillance and early response to infectious diseases depend on rapid clinical diagnosis and detection, which, if in place, are able to ameliorate suffering and economic loss. Biomarkers, molecules that can be sensitively measured in the human body, are by definition potentially diagnostic. The efficacy of biomarkers to infectious diseases lies in their capability to provide early detection, establish highly specific diagnosis, determine accurate prognosis, direct molecular-based therapy and monitor disease progression (<xref ref-type="bibr" rid="B5">5</xref>). They are increasingly important in both therapeutic and diagnostic processes, with high potential to guide preventive interventions. Vast resources have been devoted to identifying and developing biomarkers that can help determine the treatments for patients. Furthermore, there is growing consensus that multiple markers will be required for most diagnoses, while single markers may serve in only selected cases. Despite intensified interest and research, however, the rate of development of novel biomarkers has been falling (<xref ref-type="bibr" rid="B6">6</xref>), suggesting that a resource that leverages existing data is overdue. At present the databases containing information about biomarkers are focused predominantly on cancer: early detection research network (<xref ref-type="bibr" rid="B7">7</xref>), gastric cancer knowledgebase (<xref ref-type="bibr" rid="B8">8</xref>), integrated cancer biomarker information system (<xref ref-type="bibr" rid="B9">9</xref>) and database for cancer, asthma and autism for children's study (<xref ref-type="bibr" rid="B10">10</xref>). Even here, although 15–20% of cancers are linked to infectious diseases and chronic infection causes cancer (<xref ref-type="bibr" rid="B11">11</xref>), no systematic effort has been described for integrating information from the cancer biomarker and the infectious disease domains.</p>
<p>In order to advance our understanding of biomarkers and the roles in early infection processes, we have developed an integrated user-friendly relational database that catalogs putative and validated biomarkers relates them to infectious diseases processes. In addition, we have added value by hosting various bioinformatics tools that can be used to analyze and visualize the biomarker data. This freely accessible resource will be a valuable research tool and a contribution to improved public heath.</p></sec>
<sec><title>OVERVIEW OF THE DATABASE</title>
<p>Infectious Disease Biomarker Database (IDBD) introduces a community annotation database of biomarkers, with interfaces for users to directly edit their content and to keep track of editing history, thus capturing community knowledge and expertise. It was designed to collect, store and display information about biomarkers, conjoined to research tools for sequence and structural analyses of the data. IDBD currently includes information on 611 biomarkers from 66 infectious diseases and 70 pathogens (<xref ref-type="table" rid="T1">Table 1</xref>). Biomarkers were classified according to detection, diagnosis, pathogen typing and virulence factor for clinical or epidemiological studies and application. Validated biomarkers were regarded as representative markers for experimental verification such as detection and diagnosis of infectious diseases in the reference and specialized laboratories or in scientific literatures. Potential biomarkers were defined as those frequently cited in the context of detection and diagnosis of infectious disease in recently published research journals. The correct assignment of biomarker subtypes and the evaluation of potential or validated biomarkers critically depend on expert group in infectious disease research fields. The IDBD data are updated and modified on a regular basis by a curation team, composed of researchers at the Center for Infectious Diseases and the Center for Immunology and Pathology in the Korea National Institute of Health (KNIH) in Seoul. The content in IDBD is open and freely accessible to the general public, and IDBD is a part of the National Disease Biomarker Bank project, an integrated framework for identifying, collecting, distributing and managing of biomarkers, which is being developed at KNIH.
<table-wrap id="T1"><label><bold>Table 1.</bold></label><caption><p>Current number of biomarker entries in IDBD</p></caption>
<table frame="hsides">
<thead align="left">
<tr>
<th>Disease groups</th>
<th>Disease</th>
<th>Pathogen</th>
<th>Biomarker</th></tr></thead>
<tbody align="left">
<tr>
<td>Gastrointestinal infection</td>
<td>14</td>
<td>14</td>
<td>107</td></tr>
<tr>
<td>Respiratory infection</td>
<td>16</td>
<td>18</td>
<td>154</td></tr>
<tr>
<td>Neurological infection</td>
<td>2</td>
<td>1</td>
<td>14</td></tr>
<tr>
<td>Urogenital infection<xref ref-type="table-fn" rid="TF1"><sup>a</sup></xref></td>
<td>9</td>
<td>10</td>
<td>46</td></tr>
<tr>
<td>Viral hepatitis<xref ref-type="table-fn" rid="TF1"><sup>a</sup></xref></td>
<td>5</td>
<td>5</td>
<td>10</td></tr>
<tr>
<td>Hemorrhagic fever</td>
<td>4</td>
<td>4</td>
<td>37</td></tr>
<tr>
<td>Zoonosis</td>
<td>7</td>
<td>6</td>
<td>87</td></tr>
<tr>
<td>Arbovirus infection</td>
<td>5</td>
<td>5</td>
<td>110</td></tr>
<tr>
<td>Antibiotics resistance<xref ref-type="table-fn" rid="TF1"><sup>a</sup></xref></td>
<td>6</td>
<td>6</td>
<td>83</td></tr>
<tr>
<td>Bioterrorism</td>
<td>8</td>
<td>8</td>
<td>83</td></tr>
<tr>
<td>Total<xref ref-type="table-fn" rid="TF2"><sup>b</sup></xref></td>
<td>66</td>
<td>70</td>
<td>611</td></tr></tbody></table>
<table-wrap-foot>
<fn id="TF1"><p><sup>a</sup>Diseases, pathogens and biomarkers without overlapping with other groups.</p></fn>
<fn id="TF2"><p><sup>b</sup>Total number of diseases, pathogens and biomarkers without overlapping.</p></fn>
</table-wrap-foot></table-wrap></p></sec>
<sec><title>DATABASE DESIGN AND CONTENTS</title>
<p>IDBD primarily consists of the three main tables: disease, pathogen and biomarker arranged in one Oracle schema (<xref ref-type="bibr" rid="B12">12</xref>). Infectious diseases are divided into 10 subgroups according to the infection site and the unique features of the pathogen or disease: gastrointestinal infection, respiratory infection, neurological infection, urogenital infection, viral hepatitis, hemorrhagic fever, zoonosis, arbovirus infection, antibiotics resistance and bioterrorism. In total, 10 disease subgroups contain 66 diseases (<xref ref-type="table" rid="T1">Table 1</xref>). Each disease at IDBD is characterized by a number of attributes such as general information, pathogen, infection, symptom, diagnosis, treatment and prevention. Pathogens are grouped into bacteria, virus, fungi and parasite, currently comprising 70 pathogens of mostly bacteria and virus. Each pathogen is characterized by general information, disease, biomarker list and related infection. Validated and potential biomarker entries are divided into three categories of detection/diagnosis, pathogen typing and virulence factor, and users can then access the data according to these criteria (<xref ref-type="fig" rid="F1">Figure 1</xref>A).
<fig id="F1"><label><bold>Figure 1.</bold></label><caption><p>A screenshot of IDBD showing (<bold>A</bold>) the list of biomarkers at the page of pathogen, classified according to detection/diagnosis, pathogen typing and virulence factor, and the biomarker subtype page, (<bold>B</bold>) the list of biomarkers in alphabetical order, with two search options: Simple Search and Complex Search, (<bold>C</bold>) Complex Search page, (<bold>D</bold>) search results and (<bold>E</bold>) retrieved sequences viewed in a separate window.</p></caption><graphic xlink:href="gkm925f1"></graphic></fig></p>
<p>The database contains approximately 8–9 biomarkers per pathogen (<xref ref-type="table" rid="T1">Table 1</xref>), comprising proteins, nucleic acids, carbohydrates and small molecules. Each biomarker contains a number of categories of information: general information, detection, mechanism, pathogen link, sequence information, NCBI link, secondary structure, tertiary structure, PDB link and reference. Biological functions or roles of biomarkers are also included, if available. Sequences are obtained from databases of protein and nucleic acid sequences of the National Center for Biotechnology Information (NCBI) (<xref ref-type="bibr" rid="B13">13</xref>). Information of secondary and tertiary structures is obtained from PDBsum at the European Bioinformatics Institute (EBI) (<xref ref-type="bibr" rid="B14">14</xref>) and Protein Data Bank (PDB) (<xref ref-type="bibr" rid="B15">15</xref>), respectively.</p></sec>
<sec><title>DATA RETRIEVAL</title>
<p>Biomarker data can be retrieved efficiently through establishment of entry portals for search functions. Users can access biomarker records from the front page by clicking Biomarker at the top menu, which then allows browsing of biomarkers in alphabetical order (<xref ref-type="fig" rid="F1">Figure 1</xref>B). Two different search options are provided: Simple Search can query the complete database by selecting one or all three groups of biomarkers (protein, nucleic acid and carbohydrate). Only one small molecule, a catechol siderophore, is currently deposited. Specific database queries can be defined using the Complex Search feature (<xref ref-type="fig" rid="F1">Figure 1</xref>C), where fields of interest (class of pathogen, molecular type, pathogen name, biomarker name and NCBI accession number) can be selected from pull-down menus. Users can iterate and append the fields in the pull-down menus by clicking the Add or Delete button and in turn combining by AND or OR operators. Both Simple and Complex Search returns a result list of distinct biomarkers that matches the search criteria (<xref ref-type="fig" rid="F1">Figure 1</xref>D). The listed entries of biomarkers are linked to detailed information (general information, detection, mechanism, etc.), which can be viewed by clicking the name of each biomarker. The sequence information in the displayed list can be retrieved in a separate window (<xref ref-type="fig" rid="F1">Figure 1</xref>E), as amino acid sequence in single letter abbreviation (protein) or nucleotide sequence in FASTA format (nucleic acids) of the selected biomarkers.</p>
<p>The complete contents of IDBD as well as other Web resources can be searched via its user-friendly interface. Three different search options are provided: Internal, External and News Search (<xref ref-type="fig" rid="F2">Figure 2</xref>A). Internal Search can query via either title or content search which extracts textual content stored in the IDBD database including disease, pathogens and biomarkers (<xref ref-type="fig" rid="F2">Figure 2</xref>B). In the case of External Search, users can submit a single query to the NCBI PubMed, NCBI Entrez sequence database, PDB structure database and Centers for Disease Control and Prevention (CDC) (<xref ref-type="fig" rid="F2">Figure 2</xref>C). Details of published articles, sequence and structural data or disease and pathogen information can be viewed in abstract terms and sorted with regard to the information items. More detailed information can be retrieved by clicking the posting title of sorted search data. News Search provides accurate and timely information on the outbreaks and sporadic cases of any infectious diseases. Users can search current news or archives by entering keywords from scientific resources including BBC News, ScienceNow from Science magazine and Yahoo! News. More detailed information can be displayed by clicking on the title of news articles sorted by date.
<fig id="F2"><label><bold>Figure 2.</bold></label><caption><p>Search examples showing (<bold>A</bold>) three search options: Internal, External and News Search, (<bold>B</bold>) Internal Search results and (<bold>C</bold>) External Search results.</p></caption><graphic xlink:href="gkm925f2"></graphic></fig></p></sec>
<sec><title>DATA ANALYSIS</title>
<p>On the biomarker list page, IDBD allows access to sequence and structure analysis tools by clicking ‘Data analysis new window’ on the left-hand navigation bar. The user can select sequences of interest obtained from biomarker search (<xref ref-type="fig" rid="F1">Figure 1</xref>E), prepare an input data by clicking ‘Sequence alignment’, and conduct multiple sequence alignment by direct submission or upload a file of the chosen sequences to CLUSTALW tool of EBI (<xref ref-type="bibr" rid="B16">16</xref>). On the result page (<xref ref-type="fig" rid="F3">Figure 3</xref>A), the alignment can then be exported for phylogenetic tree construction. The sequence analysis also includes standard BLAST services (blastn and blastp) on external network connectivity (<xref ref-type="bibr" rid="B17">17</xref>), pairwise distance and synonymous—non-synonymous ratio analysis. In the case of structure analysis, users may submit an amino acid sequence or multiple sequences aligned to a set of methods for secondary (PSA) and tertiary structure (Geno3d) prediction (18,19). The predicted tertiary structures can be modeled by using Jmol either with a PDB file or PDB ID, if available (<xref ref-type="fig" rid="F3">Figure 3</xref>B).
<fig id="F3"><label><bold>Figure 3.</bold></label><caption><p>The sequence and structure analysis tools showing (<bold>A</bold>) analysis results using selected sequences of biomarker data: sequence alignment and phylogenetic tree, and (<bold>B</bold>) predicted 3D structure of a biomarker viewed with Jmol.</p></caption><graphic xlink:href="gkm925f3"></graphic></fig></p></sec>
<sec><title>FUTURE DIRECTIONS</title>
<p>Pathogen-specific biomarkers can provide information necessary for diagnosis, detection and treatment of various infectious diseases. Recent concerns about bioterrorism and emerging infectious diseases have led to a new focus on the development of biomarkers, and molecular diagnostics are growing fast in infectious diseases. Currently, there are 611 biomarkers in IDBD among which 239 are validated ones. The content of biomarkers in IDBD is expanding rapidly, and our goal is to collect a complete dataset of validated or potential biomarkers used in the detection of infectious diseases and to generate a knowledgebase that would be a valuable tool for users interested in the discovery of infectious disease biomarkers. The main challenge in the future is to keep IDBD up to date with the growing number of biomarkers experimentally verified and published in peer reviewed journals. We will thus implement text-mining support for database curation in the near future. Toward this goal, a network of biomarker expert groups at the Center for Infectious Diseases and the Center for Immunology and Pathology at KNIH and advisory committee outside KNIH has been formed to coordinate database management and validation of novel biomarkers.</p>
<p>Another challenge is to provide IDBD with regional epidemiological trends of some infectious diseases. Epidemiological surveillance is key to control and monitor diseases such as cholera, shigellosis, typhoid fever, paratyphoid fever, rabies, etc. Since information on infectious agents is essential in preventing and controlling the spread of infectious diseases, it is necessary to collect, analyze and publish the relevant information on a regional scale, to the benefit of the researchers studying infectious diseases as well as the public. New insights into innate immunity initiated by host–pathogen interaction are changing the way we think about pathogenesis of infectious diseases. Different approaches are employed for the characterization of immune responses by evaluating the epitopes recognized by antigen-specific receptors of immune systems. We intend to construct additional tools useful for molecular immunological and etiological applications. IDBD will collect intrinsic epitope features, seasonal patterns of sequences and epitope responses to T and B cells, and develop software for epitope analysis and prediction.</p></sec>
<sec><title>USER MANAGEMENT</title>
<p>The IDBD management system allows users to access the biomarker database without registration. However, user registration is required for adding and editing database contents, and user support can be obtained by e-mailing <email>graduate@korea.ac.kr</email>. Readers are encouraged to contact us if they wish to provide new data for inclusion in IDBD, assist with curation or have any suggestions for improvements.</p></sec>
<sec><title>IMPLEMENTATION</title>
<p>IDBD was developed as a relational database using Oracle 10g applications (<xref ref-type="bibr" rid="B12">12</xref>) on the Windows operating system. Two open source softwares, the Apache HTTP Server and Apache Tomcat, were used as HTTP server and servlet container for Web service, respectively. Perl scripts were used to provide common gateway interface for sequence alignment using ClustalW, and Java applet was used to link Jmol for displaying 3D models. IDBD can be publicly accessed from any Web browser at <ext-link ext-link-type="uri" xlink:href="http://biomarker.cdc.go.kr">http://biomarker.cdc.go.kr</ext-link> and <ext-link ext-link-type="uri" xlink:href="http://biomarker.korea.ac.kr">http://biomarker.korea.ac.kr</ext-link>.</p></sec>
</body>
<back>
<ack><title>ACKNOWLEDGEMENTS</title>
<p>We wish to acknowledge the technical support from Mr K.S. Kim from Keewis Co., Seoul, Korea. We extend our thanks to J.H. Lee and H.J. Shin for data collection. We thank Prof. Min Ja Kim for contribution of images of infectious diseases and Prof. Art Cho for his comments on the manuscript. This work was supported by the Korea National Institute of Health, Korea (KNIH). K.J.C. was supported by Post BK21 program of the Ministry of Education, Korea. Funding to pay the Open Access publication charges for this article was provided by the KNIH.</p>
<p><italic>Conflict of interest statement</italic>. None declared.</p></ack>
<ref-list><title>REFERENCES</title>
<ref id="B1"><label>1</label><nlm-citation citation-type="journal"><person-group person-group-type="author"><name><surname>Morens</surname><given-names>DM</given-names></name><name><surname>Folkers</surname><given-names>GK</given-names></name><name><surname>Fauci</surname><given-names>AS</given-names></name></person-group><article-title>The challenge of emerging and re-emerging infectious diseases</article-title><source>Nature</source><year>2004</year><volume>430</volume><fpage>242</fpage><lpage>249</lpage></nlm-citation></ref>
<ref id="B2"><label>2</label><nlm-citation citation-type="journal"><person-group person-group-type="author"><name><surname>Li</surname><given-names>W</given-names></name><name><surname>Shi</surname><given-names>Z</given-names></name><name><surname>Yu</surname><given-names>M</given-names></name><name><surname>Ren</surname><given-names>W</given-names></name><name><surname>Smith</surname><given-names>C</given-names></name><name><surname>Epstein</surname><given-names>JH</given-names></name><name><surname>Wang</surname><given-names>H</given-names></name><name><surname>Crameri</surname><given-names>G</given-names></name><name><surname>Hu</surname><given-names>Z</given-names></name><etal></etal></person-group><article-title>Bats are natural reservoirs of SARS-like coronaviruses</article-title><source>Science</source><year>2005</year><volume>310</volume><fpage>676</fpage><lpage>679</lpage></nlm-citation></ref>
<ref id="B3"><label>3</label><nlm-citation citation-type="journal"><person-group person-group-type="author"><name><surname>Doherty</surname><given-names>PC</given-names></name><name><surname>Turner</surname><given-names>SJ</given-names></name><name><surname>Webby</surname><given-names>RS</given-names></name><name><surname>Thomas</surname><given-names>PG</given-names></name></person-group><article-title>Influenza and the challenge for immunology</article-title><source>Nat. Immunol.</source><year>2006</year><volume>7</volume><fpage>449</fpage><lpage>455</lpage></nlm-citation></ref>
<ref id="B4"><label>4</label><nlm-citation citation-type="journal"><collab>WHO</collab><article-title>The world health report 2004 – changing history</article-title><source>The World Health Report</source><year>2004</year></nlm-citation></ref>
<ref id="B5"><label>5</label><nlm-citation citation-type="journal"><person-group person-group-type="author"><name><surname>Baker</surname><given-names>M</given-names></name></person-group><article-title>In biomarker we trust?</article-title><source>Nat. Biotechnol.</source><year>2005</year><volume>23</volume><fpage>297</fpage><lpage>304</lpage></nlm-citation></ref>
<ref id="B6"><label>6</label><nlm-citation citation-type="journal"><person-group person-group-type="author"><name><surname>Rifai</surname><given-names>N</given-names></name><name><surname>Gillette</surname><given-names>MA</given-names></name><name><surname>Carr</surname><given-names>SA</given-names></name></person-group><article-title>Protein biomarker discovery and validation: the long and uncertain path to clinical utility</article-title><source>Nat. Biotechnol.</source><year>2006</year><volume>24</volume><fpage>971</fpage><lpage>983</lpage></nlm-citation></ref>
<ref id="B7"><label>7</label><nlm-citation citation-type="journal"><person-group person-group-type="author"><name><surname>Srinivas</surname><given-names>PR</given-names></name><name><surname>Kramer</surname><given-names>BS</given-names></name><name><surname>Srivastava</surname><given-names>S</given-names></name></person-group><article-title>Trends in biomarker research for cancer detection</article-title><source>Lancet Oncol.</source><year>2001</year><volume>2</volume><fpage>6</fpage></nlm-citation></ref>
<ref id="B8"><label>8</label><nlm-citation citation-type="journal"><person-group person-group-type="author"><name><surname>Lee</surname><given-names>BTK</given-names></name><name><surname>Song</surname><given-names>CM</given-names></name><name><surname>Yeo</surname><given-names>BH</given-names></name><name><surname>Chung</surname><given-names>CW</given-names></name><name><surname>Chan</surname><given-names>YL</given-names></name><name><surname>Lim</surname><given-names>TT</given-names></name><name><surname>Chua</surname><given-names>YB</given-names></name><name><surname>Loh</surname><given-names>MCS</given-names></name><name><surname>Ang</surname><given-names>BK</given-names></name><etal></etal></person-group><article-title>Gastric cancer (biomarkers) knowledgebase (GCBKB): a curated and fully integrated knowledgebase of putative biomarkers related to gastric cancer</article-title><source>Biomark Insights</source><year>2006</year><volume>2</volume><fpage>135</fpage><lpage>141</lpage></nlm-citation></ref>
<ref id="B9"><label>9</label><nlm-citation citation-type="journal"><person-group person-group-type="author"><name><surname>Feng</surname><given-names>W</given-names></name><name><surname>Wu</surname><given-names>B</given-names></name><name><surname>Phan</surname><given-names>J</given-names></name><name><surname>Dale</surname><given-names>J</given-names></name><name><surname>Young</surname><given-names>AN</given-names></name><name><surname>Wang</surname><given-names>MD</given-names></name></person-group><article-title>An integrated cancer biomarker information system</article-title><source>Conf. Proc. IEEE Eng. Med. Biol. Soc.</source><year>2005</year><volume>3</volume><fpage>2851</fpage><lpage>2854</lpage></nlm-citation></ref>
<ref id="B10"><label>10</label><nlm-citation citation-type="journal"><person-group person-group-type="author"><name><surname>Lobdell</surname><given-names>DT</given-names></name><name><surname>Mendola</surname><given-names>P</given-names></name></person-group><article-title>Development of a biomarkers database for the national children's study</article-title><source>Toxicol. Appl. Pharmacol.</source><year>2005</year><volume>206</volume><fpage>269</fpage><lpage>273</lpage></nlm-citation></ref>
<ref id="B11"><label>11</label><nlm-citation citation-type="journal"><person-group person-group-type="author"><name><surname>Buonaguro</surname><given-names>FM</given-names></name><name><surname>Lewis</surname><given-names>GK</given-names></name><name><surname>Pelicci</surname><given-names>P</given-names></name></person-group><article-title>Introducing infectious agents and cancer</article-title><source>Infect. agents and cancer</source><year>2006</year><volume>1</volume><fpage>1</fpage><lpage>3</lpage></nlm-citation></ref>
<ref id="B12"><label>12</label><nlm-citation citation-type="journal"><person-group person-group-type="author"><name><surname>Stephens</surname><given-names>SM</given-names></name><name><surname>Chen</surname><given-names>JY</given-names></name><name><surname>Davidson</surname><given-names>MG</given-names></name><name><surname>Thomas</surname><given-names>S</given-names></name><name><surname>Trute</surname><given-names>BM</given-names></name></person-group><article-title>Oracle database 10g: a platform for BLAST search and regular expression pattern matching in life sciences</article-title><source>Nucleic Acids Res.</source><year>2005</year><volume>33</volume><fpage>D675</fpage><lpage>D679</lpage></nlm-citation></ref>
<ref id="B13"><label>13</label><nlm-citation citation-type="journal"><person-group person-group-type="author"><name><surname>Maglott</surname><given-names>DM</given-names></name><name><surname>Ostell</surname><given-names>J</given-names></name><name><surname>Pruitt</surname><given-names>KD</given-names></name><name><surname>Tatusova</surname><given-names>T</given-names></name></person-group><article-title>Entrez gene: gene-centered information at NCBI</article-title><source>Nucleic Acids Res.</source><year>2007</year><volume>35</volume><fpage>D266</fpage><lpage>D268</lpage></nlm-citation></ref>
<ref id="B14"><label>14</label><nlm-citation citation-type="journal"><person-group person-group-type="author"><name><surname>Laskowski</surname><given-names>RA</given-names></name><name><surname>Chistyakov</surname><given-names>VC</given-names></name><name><surname>Thornton</surname><given-names>JM</given-names></name></person-group><article-title>PDBsum more: new summaries and analyses of the known 3D structures of proteins and nucleic acids</article-title><source>Nucleic Acids Res.</source><year>2005</year><volume>33</volume></nlm-citation></ref>
<ref id="B15"><label>15</label><nlm-citation citation-type="journal"><person-group person-group-type="author"><name><surname>Berman</surname><given-names>HM</given-names></name><name><surname>Westbrook</surname><given-names>J</given-names></name><name><surname>Feng</surname><given-names>Z</given-names></name><name><surname>Gilliland</surname><given-names>G</given-names></name><name><surname>Bhat</surname><given-names>TN</given-names></name><name><surname>Weissig</surname><given-names>H</given-names></name><name><surname>Shindyalov</surname><given-names>IN</given-names></name><name><surname>Bourne</surname><given-names>P</given-names></name></person-group><article-title>The protein data bank</article-title><source>Nucleic Acids Res.</source><year>2000</year><volume>28</volume><fpage>235</fpage><lpage>242</lpage></nlm-citation></ref>
<ref id="B16"><label>16</label><nlm-citation citation-type="journal"><person-group person-group-type="author"><name><surname>Thompson</surname><given-names>JD</given-names></name><name><surname>Higgins</surname><given-names>DG</given-names></name><name><surname>Gibson</surname><given-names>TJ</given-names></name></person-group><article-title>CLUSTALW: improving the sensitivity of progressive multiple sequence alignment through sequence weighting, position-specific gap penalties and weight matrix choice</article-title><source>Nucleic Acids Res.</source><year>1994</year><volume>22</volume><fpage>4673</fpage><lpage>4680</lpage></nlm-citation></ref>
<ref id="B17"><label>17</label><nlm-citation citation-type="journal"><person-group person-group-type="author"><name><surname>Altschul</surname><given-names>SF</given-names></name><name><surname>Madden</surname><given-names>TL</given-names></name><name><surname>Schaffer</surname><given-names>AA</given-names></name><name><surname>Zhang</surname><given-names>J</given-names></name><name><surname>Zhang</surname><given-names>Z</given-names></name><name><surname>Miller.</surname><given-names>W</given-names></name><name><surname>Lipman</surname><given-names>DJ</given-names></name></person-group><article-title>Gapped BLAST and PSI-BLAST: a new generation of protein database search programs</article-title><source>Nucleic Acids Res.</source><year>1997</year><volume>25</volume><fpage>3389</fpage><lpage>3402</lpage></nlm-citation></ref>
<ref id="B18"><label>18</label><nlm-citation citation-type="journal"><person-group person-group-type="author"><name><surname>Stultz</surname><given-names>CM</given-names></name><name><surname>White</surname><given-names>JV</given-names></name><name><surname>Smith</surname><given-names>TF</given-names></name></person-group><article-title>Structural analysis based on state-space modeling</article-title><source>Protein Sci.</source><year>1993</year><volume>2</volume><fpage>305</fpage><lpage>314</lpage></nlm-citation></ref>
<ref id="B19"><label>19</label><nlm-citation citation-type="journal"><person-group person-group-type="author"><name><surname>Combet</surname><given-names>C</given-names></name><name><surname>Jambon</surname><given-names>M</given-names></name><name><surname>Deléage</surname><given-names>G</given-names></name><name><surname>Geourjon</surname><given-names>C</given-names></name></person-group><article-title>Geno3D an automated protein modelling Web server</article-title><source>Bioinformatics</source><year>2002</year><volume>18</volume><fpage>213</fpage><lpage>214</lpage></nlm-citation></ref></ref-list></back>
</article></istex:document></istex:metadataXml><mods version="3.6"><titleInfo><title>IDBD: Infectious Disease Biomarker Database</title></titleInfo><titleInfo type="alternative" contentType="CDATA"><title>IDBD: Infectious Disease Biomarker Database</title></titleInfo><name type="personal"><namePart type="given">In Seok</namePart><namePart type="family">Yang</namePart><affiliation>Department of Life Sciences & Biotechnology, School of Life Sciences & Biotechnology, Korea University, Seoul, Korea, Center for Infectious Diseases, Korea National Institute of Health, Seoul, Korea, Genome Institute of Singapore, A*STAR, 60 Biopolis Street, Singapore, Experimental Therapeutics Center, 31 Biopolis Street, Singapore, Division of Information Systems, School of Computer Engineering, Nanyang Technological University, Singapore and Department of Biotechnology & Bioinformatics, College of Science & Technology, Korea University, Chungnam, Korea</affiliation><role><roleTerm type="text">author</roleTerm></role></name><name type="personal"><namePart type="given">Chunsun</namePart><namePart type="family">Ryu</namePart><affiliation>Department of Life Sciences & Biotechnology, School of Life Sciences & Biotechnology, Korea University, Seoul, Korea, Center for Infectious Diseases, Korea National Institute of Health, Seoul, Korea, Genome Institute of Singapore, A*STAR, 60 Biopolis Street, Singapore, Experimental Therapeutics Center, 31 Biopolis Street, Singapore, Division of Information Systems, School of Computer Engineering, Nanyang Technological University, Singapore and Department of Biotechnology & Bioinformatics, College of Science & Technology, Korea University, Chungnam, Korea</affiliation><role><roleTerm type="text">author</roleTerm></role></name><name type="personal"><namePart type="given">Ki Joon</namePart><namePart type="family">Cho</namePart><affiliation>Department of Life Sciences & Biotechnology, School of Life Sciences & Biotechnology, Korea University, Seoul, Korea, Center for Infectious Diseases, Korea National Institute of Health, Seoul, Korea, Genome Institute of Singapore, A*STAR, 60 Biopolis Street, Singapore, Experimental Therapeutics Center, 31 Biopolis Street, Singapore, Division of Information Systems, School of Computer Engineering, Nanyang Technological University, Singapore and Department of Biotechnology & Bioinformatics, College of Science & Technology, Korea University, Chungnam, Korea</affiliation><role><roleTerm type="text">author</roleTerm></role></name><name type="personal"><namePart type="given">Jin Kwang</namePart><namePart type="family">Kim</namePart><affiliation>Department of Life Sciences & Biotechnology, School of Life Sciences & Biotechnology, Korea University, Seoul, Korea, Center for Infectious Diseases, Korea National Institute of Health, Seoul, Korea, Genome Institute of Singapore, A*STAR, 60 Biopolis Street, Singapore, Experimental Therapeutics Center, 31 Biopolis Street, Singapore, Division of Information Systems, School of Computer Engineering, Nanyang Technological University, Singapore and Department of Biotechnology & Bioinformatics, College of Science & Technology, Korea University, Chungnam, Korea</affiliation><role><roleTerm type="text">author</roleTerm></role></name><name type="personal"><namePart type="given">Swee Hoe</namePart><namePart type="family">Ong</namePart><affiliation>Department of Life Sciences & Biotechnology, School of Life Sciences & Biotechnology, Korea University, Seoul, Korea, Center for Infectious Diseases, Korea National Institute of Health, Seoul, Korea, Genome Institute of Singapore, A*STAR, 60 Biopolis Street, Singapore, Experimental Therapeutics Center, 31 Biopolis Street, Singapore, Division of Information Systems, School of Computer Engineering, Nanyang Technological University, Singapore and Department of Biotechnology & Bioinformatics, College of Science & Technology, Korea University, Chungnam, Korea</affiliation><role><roleTerm type="text">author</roleTerm></role></name><name type="personal"><namePart type="given">Wayne P.</namePart><namePart type="family">Mitchell</namePart><affiliation>Department of Life Sciences & Biotechnology, School of Life Sciences & Biotechnology, Korea University, Seoul, Korea, Center for Infectious Diseases, Korea National Institute of Health, Seoul, Korea, Genome Institute of Singapore, A*STAR, 60 Biopolis Street, Singapore, Experimental Therapeutics Center, 31 Biopolis Street, Singapore, Division of Information Systems, School of Computer Engineering, Nanyang Technological University, Singapore and Department of Biotechnology & Bioinformatics, College of Science & Technology, Korea University, Chungnam, Korea</affiliation><role><roleTerm type="text">author</roleTerm></role></name><name type="personal"><namePart type="given">Bong Su</namePart><namePart type="family">Kim</namePart><affiliation>Department of Life Sciences & Biotechnology, School of Life Sciences & Biotechnology, Korea University, Seoul, Korea, Center for Infectious Diseases, Korea National Institute of Health, Seoul, Korea, Genome Institute of Singapore, A*STAR, 60 Biopolis Street, Singapore, Experimental Therapeutics Center, 31 Biopolis Street, Singapore, Division of Information Systems, School of Computer Engineering, Nanyang Technological University, Singapore and Department of Biotechnology & Bioinformatics, College of Science & Technology, Korea University, Chungnam, Korea</affiliation><role><roleTerm type="text">author</roleTerm></role></name><name type="personal" displayLabel="corresp"><namePart type="given">Hee-Bok</namePart><namePart type="family">Oh</namePart><affiliation>Department of Life Sciences & Biotechnology, School of Life Sciences & Biotechnology, Korea University, Seoul, Korea, Center for Infectious Diseases, Korea National Institute of Health, Seoul, Korea, Genome Institute of Singapore, A*STAR, 60 Biopolis Street, Singapore, Experimental Therapeutics Center, 31 Biopolis Street, Singapore, Division of Information Systems, School of Computer Engineering, Nanyang Technological University, Singapore and Department of Biotechnology & Bioinformatics, College of Science & Technology, Korea University, Chungnam, Korea</affiliation><affiliation>E-mail: khkim@korea.ac.kr</affiliation><role><roleTerm type="text">author</roleTerm></role></name><name type="personal" displayLabel="corresp"><namePart type="given">Kyung Hyun</namePart><namePart type="family">Kim</namePart><affiliation>Department of Life Sciences & Biotechnology, School of Life Sciences & Biotechnology, Korea University, Seoul, Korea, Center for Infectious Diseases, Korea National Institute of Health, Seoul, Korea, Genome Institute of Singapore, A*STAR, 60 Biopolis Street, Singapore, Experimental Therapeutics Center, 31 Biopolis Street, Singapore, Division of Information Systems, School of Computer Engineering, Nanyang Technological University, Singapore and Department of Biotechnology & Bioinformatics, College of Science & Technology, Korea University, Chungnam, Korea</affiliation><affiliation>E-mail: khkim@korea.ac.kr</affiliation><affiliation>*To whom correspondence should be addressed. Tel: 82-2-3290-3444; Fax: 82-2-3290-3945; Email: khkim@korea.ac.kr Correspondence may also be addressed to Hee-Bok Oh. Tel: 82-2-355-5601; Fax: 82-2-382-4891; Email: hboh@nih.go.kr</affiliation><role><roleTerm type="text">author</roleTerm></role></name><typeOfResource>text</typeOfResource><genre type="research-article" displayLabel="research-article" authority="ISTEX" authorityURI="https://content-type.data.istex.fr" valueURI="https://content-type.data.istex.fr/ark:/67375/XTP-1JC4F85T-7">research-article</genre><originInfo><publisher>Oxford University Press</publisher><dateIssued encoding="w3cdtf">2008-01</dateIssued><dateCreated encoding="w3cdtf">2007-10-10</dateCreated><copyrightDate encoding="w3cdtf">2007</copyrightDate></originInfo><abstract>Biomarkers enable early diagnosis, guide molecularly targeted therapy and monitor the activity and therapeutic responses across a variety of diseases. Despite intensified interest and research, however, the overall rate of development of novel biomarkers has been falling. Moreover, no solution is yet available that efficiently retrieves and processes biomarker information pertaining to infectious diseases. Infectious Disease Biomarker Database (IDBD) is one of the first efforts to build an easily accessible and comprehensive literature-derived database covering known infectious disease biomarkers. IDBD is a community annotation database, utilizing collaborative Web 2.0 features, providing a convenient user interface to input and revise data online. It allows users to link infectious diseases or pathogens to protein, gene or carbohydrate biomarkers through the use of search tools. It supports various types of data searches and application tools to analyze sequence and structure features of potential and validated biomarkers. Currently, IDBD integrates 611 biomarkers for 66 infectious diseases and 70 pathogens. It is publicly accessible at http://biomarker.cdc.go.kr and http://biomarker.korea.ac.kr.</abstract><relatedItem type="host"><titleInfo><title>Nucleic Acids Research</title></titleInfo><genre type="journal" authority="ISTEX" authorityURI="https://publication-type.data.istex.fr" valueURI="https://publication-type.data.istex.fr/ark:/67375/JMC-0GLKJH51-B">journal</genre><subject><topic>Articles</topic></subject><identifier type="ISSN">0305-1048</identifier><identifier type="eISSN">1362-4962</identifier><identifier type="PublisherID">nar</identifier><identifier type="PublisherID-hwp">nar</identifier><part><date>2008</date><detail type="title"><title>Database issue</title></detail><detail type="volume"><caption>vol.</caption><number>36</number></detail><detail type="issue"><number>suppl-1</number></detail><extent unit="pages"><start>D455</start><end>D460</end></extent></part></relatedItem><relatedItem type="references" displayLabel="B1"><titleInfo><title>The challenge of emerging and re-emerging infectious diseases</title></titleInfo><name type="personal"><namePart type="given">DM</namePart><namePart type="family">Morens</namePart></name><name type="personal"><namePart type="given">GK</namePart><namePart type="family">Folkers</namePart></name><name type="personal"><namePart type="given">AS</namePart><namePart type="family">Fauci</namePart></name><genre>journal</genre><note>MorensDMFolkersGKFauciASThe challenge of emerging and re-emerging infectious diseasesNature2004430242249</note><relatedItem type="host"><titleInfo><title>Nature</title></titleInfo><part><date>2004</date><detail type="volume"><caption>vol.</caption><number>430</number></detail><extent unit="pages"><start>242</start><end>249</end></extent></part></relatedItem></relatedItem><relatedItem type="references" displayLabel="B2"><titleInfo><title>Bats are natural reservoirs of SARS-like coronaviruses</title></titleInfo><name type="personal"><namePart type="given">W</namePart><namePart type="family">Li</namePart></name><name type="personal"><namePart type="given">Z</namePart><namePart type="family">Shi</namePart></name><name type="personal"><namePart type="given">M</namePart><namePart type="family">Yu</namePart></name><name type="personal"><namePart type="given">W</namePart><namePart type="family">Ren</namePart></name><name type="personal"><namePart type="given">C</namePart><namePart type="family">Smith</namePart></name><name type="personal"><namePart type="given">JH</namePart><namePart type="family">Epstein</namePart></name><name type="personal"><namePart type="given">H</namePart><namePart type="family">Wang</namePart></name><name type="personal"><namePart type="given">G</namePart><namePart type="family">Crameri</namePart></name><name type="personal"><namePart type="given">Z</namePart><namePart type="family">Hu</namePart></name><genre>journal</genre><note>LiWShiZYuMRenWSmithCEpsteinJHWangHCrameriGHuZBats are natural reservoirs of SARS-like coronavirusesScience2005310676679</note><relatedItem type="host"><titleInfo><title>Science</title></titleInfo><part><date>2005</date><detail type="volume"><caption>vol.</caption><number>310</number></detail><extent unit="pages"><start>676</start><end>679</end></extent></part></relatedItem></relatedItem><relatedItem type="references" displayLabel="B3"><titleInfo><title>Influenza and the challenge for immunology</title></titleInfo><name type="personal"><namePart type="given">PC</namePart><namePart type="family">Doherty</namePart></name><name type="personal"><namePart type="given">SJ</namePart><namePart type="family">Turner</namePart></name><name type="personal"><namePart type="given">RS</namePart><namePart type="family">Webby</namePart></name><name type="personal"><namePart type="given">PG</namePart><namePart type="family">Thomas</namePart></name><genre>journal</genre><note>DohertyPCTurnerSJWebbyRSThomasPGInfluenza and the challenge for immunologyNat. Immunol.20067449455</note><relatedItem type="host"><titleInfo><title>Nat. Immunol.</title></titleInfo><part><date>2006</date><detail type="volume"><caption>vol.</caption><number>7</number></detail><extent unit="pages"><start>449</start><end>455</end></extent></part></relatedItem></relatedItem><relatedItem type="references" displayLabel="B4"><titleInfo><title>The world health report 2004 – changing history</title></titleInfo><name type="corporate"><namePart>WHO</namePart></name><genre>journal</genre><note>WHOThe world health report 2004 – changing historyThe World Health Report2004</note><relatedItem type="host"><titleInfo><title>The World Health Report</title></titleInfo><part><date>2004</date></part></relatedItem></relatedItem><relatedItem type="references" displayLabel="B5"><titleInfo><title>In biomarker we trust?</title></titleInfo><name type="personal"><namePart type="given">M</namePart><namePart type="family">Baker</namePart></name><genre>journal</genre><note>BakerMIn biomarker we trust?Nat. Biotechnol.200523297304</note><relatedItem type="host"><titleInfo><title>Nat. Biotechnol.</title></titleInfo><part><date>2005</date><detail type="volume"><caption>vol.</caption><number>23</number></detail><extent unit="pages"><start>297</start><end>304</end></extent></part></relatedItem></relatedItem><relatedItem type="references" displayLabel="B6"><titleInfo><title>Protein biomarker discovery and validation: the long and uncertain path to clinical utility</title></titleInfo><name type="personal"><namePart type="given">N</namePart><namePart type="family">Rifai</namePart></name><name type="personal"><namePart type="given">MA</namePart><namePart type="family">Gillette</namePart></name><name type="personal"><namePart type="given">SA</namePart><namePart type="family">Carr</namePart></name><genre>journal</genre><note>RifaiNGilletteMACarrSAProtein biomarker discovery and validation: the long and uncertain path to clinical utilityNat. Biotechnol.200624971983</note><relatedItem type="host"><titleInfo><title>Nat. Biotechnol.</title></titleInfo><part><date>2006</date><detail type="volume"><caption>vol.</caption><number>24</number></detail><extent unit="pages"><start>971</start><end>983</end></extent></part></relatedItem></relatedItem><relatedItem type="references" displayLabel="B7"><titleInfo><title>Trends in biomarker research for cancer detection</title></titleInfo><name type="personal"><namePart type="given">PR</namePart><namePart type="family">Srinivas</namePart></name><name type="personal"><namePart type="given">BS</namePart><namePart type="family">Kramer</namePart></name><name type="personal"><namePart type="given">S</namePart><namePart type="family">Srivastava</namePart></name><genre>journal</genre><note>SrinivasPRKramerBSSrivastavaSTrends in biomarker research for cancer detectionLancet Oncol.200126</note><relatedItem type="host"><titleInfo><title>Lancet Oncol.</title></titleInfo><part><date>2001</date><detail type="volume"><caption>vol.</caption><number>2</number></detail><extent unit="pages"><start>6</start></extent></part></relatedItem></relatedItem><relatedItem type="references" displayLabel="B8"><titleInfo><title>Gastric cancer (biomarkers) knowledgebase (GCBKB): a curated and fully integrated knowledgebase of putative biomarkers related to gastric cancer</title></titleInfo><name type="personal"><namePart type="given">BTK</namePart><namePart type="family">Lee</namePart></name><name type="personal"><namePart type="given">CM</namePart><namePart type="family">Song</namePart></name><name type="personal"><namePart type="given">BH</namePart><namePart type="family">Yeo</namePart></name><name type="personal"><namePart type="given">CW</namePart><namePart type="family">Chung</namePart></name><name type="personal"><namePart type="given">YL</namePart><namePart type="family">Chan</namePart></name><name type="personal"><namePart type="given">TT</namePart><namePart type="family">Lim</namePart></name><name type="personal"><namePart type="given">YB</namePart><namePart type="family">Chua</namePart></name><name type="personal"><namePart type="given">MCS</namePart><namePart type="family">Loh</namePart></name><name type="personal"><namePart type="given">BK</namePart><namePart type="family">Ang</namePart></name><genre>journal</genre><note>LeeBTKSongCMYeoBHChungCWChanYLLimTTChuaYBLohMCSAngBKGastric cancer (biomarkers) knowledgebase (GCBKB): a curated and fully integrated knowledgebase of putative biomarkers related to gastric cancerBiomark Insights20062135141</note><relatedItem type="host"><titleInfo><title>Biomark Insights</title></titleInfo><part><date>2006</date><detail type="volume"><caption>vol.</caption><number>2</number></detail><extent unit="pages"><start>135</start><end>141</end></extent></part></relatedItem></relatedItem><relatedItem type="references" displayLabel="B9"><titleInfo><title>An integrated cancer biomarker information system</title></titleInfo><name type="personal"><namePart type="given">W</namePart><namePart type="family">Feng</namePart></name><name type="personal"><namePart type="given">B</namePart><namePart type="family">Wu</namePart></name><name type="personal"><namePart type="given">J</namePart><namePart type="family">Phan</namePart></name><name type="personal"><namePart type="given">J</namePart><namePart type="family">Dale</namePart></name><name type="personal"><namePart type="given">AN</namePart><namePart type="family">Young</namePart></name><name type="personal"><namePart type="given">MD</namePart><namePart type="family">Wang</namePart></name><genre>journal</genre><note>FengWWuBPhanJDaleJYoungANWangMDAn integrated cancer biomarker information systemConf. Proc. IEEE Eng. Med. Biol. Soc.2005328512854</note><relatedItem type="host"><titleInfo><title>Conf. Proc. IEEE Eng. Med. Biol. Soc.</title></titleInfo><part><date>2005</date><detail type="volume"><caption>vol.</caption><number>3</number></detail><extent unit="pages"><start>2851</start><end>2854</end></extent></part></relatedItem></relatedItem><relatedItem type="references" displayLabel="B10"><titleInfo><title>Development of a biomarkers database for the national children's study</title></titleInfo><name type="personal"><namePart type="given">DT</namePart><namePart type="family">Lobdell</namePart></name><name type="personal"><namePart type="given">P</namePart><namePart type="family">Mendola</namePart></name><genre>journal</genre><note>LobdellDTMendolaPDevelopment of a biomarkers database for the national children's studyToxicol. Appl. Pharmacol.2005206269273</note><relatedItem type="host"><titleInfo><title>Toxicol. Appl. Pharmacol.</title></titleInfo><part><date>2005</date><detail type="volume"><caption>vol.</caption><number>206</number></detail><extent unit="pages"><start>269</start><end>273</end></extent></part></relatedItem></relatedItem><relatedItem type="references" displayLabel="B11"><titleInfo><title>Introducing infectious agents and cancer</title></titleInfo><name type="personal"><namePart type="given">FM</namePart><namePart type="family">Buonaguro</namePart></name><name type="personal"><namePart type="given">GK</namePart><namePart type="family">Lewis</namePart></name><name type="personal"><namePart type="given">P</namePart><namePart type="family">Pelicci</namePart></name><genre>journal</genre><note>BuonaguroFMLewisGKPelicciPIntroducing infectious agents and cancerInfect. agents and cancer2006113</note><relatedItem type="host"><titleInfo><title>Infect. agents and cancer</title></titleInfo><part><date>2006</date><detail type="volume"><caption>vol.</caption><number>1</number></detail><extent unit="pages"><start>1</start><end>3</end></extent></part></relatedItem></relatedItem><relatedItem type="references" displayLabel="B12"><titleInfo><title>Oracle database 10g: a platform for BLAST search and regular expression pattern matching in life sciences</title></titleInfo><name type="personal"><namePart type="given">SM</namePart><namePart type="family">Stephens</namePart></name><name type="personal"><namePart type="given">JY</namePart><namePart type="family">Chen</namePart></name><name type="personal"><namePart type="given">MG</namePart><namePart type="family">Davidson</namePart></name><name type="personal"><namePart type="given">S</namePart><namePart type="family">Thomas</namePart></name><name type="personal"><namePart type="given">BM</namePart><namePart type="family">Trute</namePart></name><genre>journal</genre><note>StephensSMChenJYDavidsonMGThomasSTruteBMOracle database 10g: a platform for BLAST search and regular expression pattern matching in life sciencesNucleic Acids Res.200533D675D679</note><relatedItem type="host"><titleInfo><title>Nucleic Acids Res.</title></titleInfo><part><date>2005</date><detail type="volume"><caption>vol.</caption><number>33</number></detail><extent unit="pages"><start>D675</start><end>D679</end></extent></part></relatedItem></relatedItem><relatedItem type="references" displayLabel="B13"><titleInfo><title>Entrez gene: gene-centered information at NCBI</title></titleInfo><name type="personal"><namePart type="given">DM</namePart><namePart type="family">Maglott</namePart></name><name type="personal"><namePart type="given">J</namePart><namePart type="family">Ostell</namePart></name><name type="personal"><namePart type="given">KD</namePart><namePart type="family">Pruitt</namePart></name><name type="personal"><namePart type="given">T</namePart><namePart type="family">Tatusova</namePart></name><genre>journal</genre><note>MaglottDMOstellJPruittKDTatusovaTEntrez gene: gene-centered information at NCBINucleic Acids Res.200735D266D268</note><relatedItem type="host"><titleInfo><title>Nucleic Acids Res.</title></titleInfo><part><date>2007</date><detail type="volume"><caption>vol.</caption><number>35</number></detail><extent unit="pages"><start>D266</start><end>D268</end></extent></part></relatedItem></relatedItem><relatedItem type="references" displayLabel="B14"><titleInfo><title>PDBsum more: new summaries and analyses of the known 3D structures of proteins and nucleic acids</title></titleInfo><name type="personal"><namePart type="given">RA</namePart><namePart type="family">Laskowski</namePart></name><name type="personal"><namePart type="given">VC</namePart><namePart type="family">Chistyakov</namePart></name><name type="personal"><namePart type="given">JM</namePart><namePart type="family">Thornton</namePart></name><genre>journal</genre><note>LaskowskiRAChistyakovVCThorntonJMPDBsum more: new summaries and analyses of the known 3D structures of proteins and nucleic acidsNucleic Acids Res.200533</note><relatedItem type="host"><titleInfo><title>Nucleic Acids Res.</title></titleInfo><part><date>2005</date><detail type="volume"><caption>vol.</caption><number>33</number></detail></part></relatedItem></relatedItem><relatedItem type="references" displayLabel="B15"><titleInfo><title>The protein data bank</title></titleInfo><name type="personal"><namePart type="given">HM</namePart><namePart type="family">Berman</namePart></name><name type="personal"><namePart type="given">J</namePart><namePart type="family">Westbrook</namePart></name><name type="personal"><namePart type="given">Z</namePart><namePart type="family">Feng</namePart></name><name type="personal"><namePart type="given">G</namePart><namePart type="family">Gilliland</namePart></name><name type="personal"><namePart type="given">TN</namePart><namePart type="family">Bhat</namePart></name><name type="personal"><namePart type="given">H</namePart><namePart type="family">Weissig</namePart></name><name type="personal"><namePart type="given">IN</namePart><namePart type="family">Shindyalov</namePart></name><name type="personal"><namePart type="given">P</namePart><namePart type="family">Bourne</namePart></name><genre>journal</genre><note>BermanHMWestbrookJFengZGillilandGBhatTNWeissigHShindyalovINBournePThe protein data bankNucleic Acids Res.200028235242</note><relatedItem type="host"><titleInfo><title>Nucleic Acids Res.</title></titleInfo><part><date>2000</date><detail type="volume"><caption>vol.</caption><number>28</number></detail><extent unit="pages"><start>235</start><end>242</end></extent></part></relatedItem></relatedItem><relatedItem type="references" displayLabel="B16"><titleInfo><title>CLUSTALW: improving the sensitivity of progressive multiple sequence alignment through sequence weighting, position-specific gap penalties and weight matrix choice</title></titleInfo><name type="personal"><namePart type="given">JD</namePart><namePart type="family">Thompson</namePart></name><name type="personal"><namePart type="given">DG</namePart><namePart type="family">Higgins</namePart></name><name type="personal"><namePart type="given">TJ</namePart><namePart type="family">Gibson</namePart></name><genre>journal</genre><note>ThompsonJDHigginsDGGibsonTJCLUSTALW: improving the sensitivity of progressive multiple sequence alignment through sequence weighting, position-specific gap penalties and weight matrix choiceNucleic Acids Res.19942246734680</note><relatedItem type="host"><titleInfo><title>Nucleic Acids Res.</title></titleInfo><part><date>1994</date><detail type="volume"><caption>vol.</caption><number>22</number></detail><extent unit="pages"><start>4673</start><end>4680</end></extent></part></relatedItem></relatedItem><relatedItem type="references" displayLabel="B17"><titleInfo><title>Gapped BLAST and PSI-BLAST: a new generation of protein database search programs</title></titleInfo><name type="personal"><namePart type="given">SF</namePart><namePart type="family">Altschul</namePart></name><name type="personal"><namePart type="given">TL</namePart><namePart type="family">Madden</namePart></name><name type="personal"><namePart type="given">AA</namePart><namePart type="family">Schaffer</namePart></name><name type="personal"><namePart type="given">J</namePart><namePart type="family">Zhang</namePart></name><name type="personal"><namePart type="given">Z</namePart><namePart type="family">Zhang</namePart></name><name type="personal"><namePart type="given">W</namePart><namePart type="family">Miller.</namePart></name><name type="personal"><namePart type="given">DJ</namePart><namePart type="family">Lipman</namePart></name><genre>journal</genre><note>AltschulSFMaddenTLSchafferAAZhangJZhangZMiller.WLipmanDJGapped BLAST and PSI-BLAST: a new generation of protein database search programsNucleic Acids Res.19972533893402</note><relatedItem type="host"><titleInfo><title>Nucleic Acids Res.</title></titleInfo><part><date>1997</date><detail type="volume"><caption>vol.</caption><number>25</number></detail><extent unit="pages"><start>3389</start><end>3402</end></extent></part></relatedItem></relatedItem><relatedItem type="references" displayLabel="B18"><titleInfo><title>Structural analysis based on state-space modeling</title></titleInfo><name type="personal"><namePart type="given">CM</namePart><namePart type="family">Stultz</namePart></name><name type="personal"><namePart type="given">JV</namePart><namePart type="family">White</namePart></name><name type="personal"><namePart type="given">TF</namePart><namePart type="family">Smith</namePart></name><genre>journal</genre><note>StultzCMWhiteJVSmithTFStructural analysis based on state-space modelingProtein Sci.19932305314</note><relatedItem type="host"><titleInfo><title>Protein Sci.</title></titleInfo><part><date>1993</date><detail type="volume"><caption>vol.</caption><number>2</number></detail><extent unit="pages"><start>305</start><end>314</end></extent></part></relatedItem></relatedItem><relatedItem type="references" displayLabel="B19"><titleInfo><title>Geno3D an automated protein modelling Web server</title></titleInfo><name type="personal"><namePart type="given">C</namePart><namePart type="family">Combet</namePart></name><name type="personal"><namePart type="given">M</namePart><namePart type="family">Jambon</namePart></name><name type="personal"><namePart type="given">G</namePart><namePart type="family">Deléage</namePart></name><name type="personal"><namePart type="given">C</namePart><namePart type="family">Geourjon</namePart></name><genre>journal</genre><note>CombetCJambonMDeléageGGeourjonCGeno3D an automated protein modelling Web serverBioinformatics200218213214</note><relatedItem type="host"><titleInfo><title>Bioinformatics</title></titleInfo><part><date>2002</date><detail type="volume"><caption>vol.</caption><number>18</number></detail><extent unit="pages"><start>213</start><end>214</end></extent></part></relatedItem></relatedItem><identifier type="istex">AEC135D58A541D17B237B0119D4BB38E8F680BAB</identifier><identifier type="ark">ark:/67375/HXZ-Q2K9CS6F-0</identifier><identifier type="DOI">10.1093/nar/gkm925</identifier><accessCondition type="use and reproduction" contentType="copyright">© 2007 The Author(s)</accessCondition><recordInfo><recordContentSource authority="ISTEX" authorityURI="https://loaded-corpus.data.istex.fr" valueURI="https://loaded-corpus.data.istex.fr/ark:/67375/XBH-GTWS0RDP-M">oup</recordContentSource><recordOrigin>Converted from (version 1.2.10) to MODS version 3.6.</recordOrigin><recordCreationDate encoding="w3cdtf">2020-04-17</recordCreationDate></recordInfo></mods><json:item><extension>json</extension><original>false</original><mimetype>application/json</mimetype><uri>https://api.istex.fr/ark:/67375/HXZ-Q2K9CS6F-0/record.json</uri></json:item></metadata><covers><json:item><extension>html</extension><original>true</original><mimetype>text/html</mimetype><uri>https://api.istex.fr/ark:/67375/HXZ-Q2K9CS6F-0/covers.html</uri></json:item><json:item><extension>tiff</extension><original>true</original><mimetype>image/tiff</mimetype><uri>https://api.istex.fr/document/AEC135D58A541D17B237B0119D4BB38E8F680BAB/covers/tiff</uri></json:item></covers><annexes><json:item><extension>gif</extension><original>true</original><mimetype>image/gif</mimetype><uri>https://api.istex.fr/ark:/67375/HXZ-Q2K9CS6F-0/annexes.gif</uri></json:item><json:item><extension>jpeg</extension><original>true</original><mimetype>image/jpeg</mimetype><uri>https://api.istex.fr/ark:/67375/HXZ-Q2K9CS6F-0/annexes.jpeg</uri></json:item></annexes><serie></serie></istex></record>Pour manipuler ce document sous Unix (Dilib)
EXPLOR_STEP=$WICRI_ROOT/Sante/explor/SrasV1/Data/Istex/Corpus
HfdSelect -h $EXPLOR_STEP/biblio.hfd -nk 001703 | SxmlIndent | more
Ou
HfdSelect -h $EXPLOR_AREA/Data/Istex/Corpus/biblio.hfd -nk 001703 | SxmlIndent | more
Pour mettre un lien sur cette page dans le réseau Wicri
{{Explor lien
|wiki= Sante
|area= SrasV1
|flux= Istex
|étape= Corpus
|type= RBID
|clé= ISTEX:AEC135D58A541D17B237B0119D4BB38E8F680BAB
|texte= IDBD: Infectious Disease Biomarker Database
}}
| This area was generated with Dilib version V0.6.33. |  |