{"status":"ok","message-type":"work","message-version":"1.0.0","message":{"indexed":{"date-parts":[[2025,10,27]],"date-time":"2025-10-27T04:56:57Z","timestamp":1761541017584},"reference-count":29,"publisher":"Springer Science and Business Media LLC","issue":"S6","license":[{"start":{"date-parts":[[2010,10,1]],"date-time":"2010-10-01T00:00:00Z","timestamp":1285891200000},"content-version":"tdm","delay-in-days":0,"URL":"http:\/\/creativecommons.org\/licenses\/by\/2.0"}],"content-domain":{"domain":[],"crossmark-restriction":false},"short-container-title":["BMC Bioinformatics"],"published-print":{"date-parts":[[2010,10]]},"DOI":"10.1186\/1471-2105-11-s6-s4","type":"journal-article","created":{"date-parts":[[2010,10,7]],"date-time":"2010-10-07T14:16:15Z","timestamp":1286460975000},"source":"Crossref","is-referenced-by-count":40,"title":["An FDA bioinformatics tool for microbial genomics research on molecular characterization of bacterial foodborne pathogens using microarrays"],"prefix":"10.1186","volume":"11","author":[{"given":"Hong","family":"Fang","sequence":"first","affiliation":[],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Joshua","family":"Xu","sequence":"additional","affiliation":[],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Don","family":"Ding","sequence":"additional","affiliation":[],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Scott A","family":"Jackson","sequence":"additional","affiliation":[],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Isha R","family":"Patel","sequence":"additional","affiliation":[],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Jonathan G","family":"Frye","sequence":"additional","affiliation":[],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Wen","family":"Zou","sequence":"additional","affiliation":[],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Rajesh","family":"Nayak","sequence":"additional","affiliation":[],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Steven","family":"Foley","sequence":"additional","affiliation":[],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"James","family":"Chen","sequence":"additional","affiliation":[],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Zhenqiang","family":"Su","sequence":"additional","affiliation":[],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Yanbin","family":"Ye","sequence":"additional","affiliation":[],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Steve","family":"Turner","sequence":"additional","affiliation":[],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Steve","family":"Harris","sequence":"additional","affiliation":[],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Guangxu","family":"Zhou","sequence":"additional","affiliation":[],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Carl","family":"Cerniglia","sequence":"additional","affiliation":[],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Weida","family":"Tong","sequence":"additional","affiliation":[],"role":[{"role":"author","vocabulary":"crossref"}]}],"member":"297","published-online":{"date-parts":[[2010,10,7]]},"reference":[{"key":"4213_CR1","unstructured":"CDC: Foodborne Illness.[\n                    http:\/\/www.cdc.gov\/ncidod\/dbmd\/diseaseinfo\/foodborneinfections_t.htm\n                    \n                  ]"},{"key":"4213_CR2","volume-title":"Produce Safety Project","author":"RL Schraff","year":"2010","unstructured":"Schraff RL: Health-related costs from foodborne illness in the United States. Produce Safety Project. Georgetown University, Washington, D.C.; 2010. [\n                    http:\/\/www.producesafetyproject.org\/admin\/assets\/files\/Health-Related-Foodborne-Illness-Costs-Report.pdf-1.pdf\n                    \n                  ]"},{"key":"4213_CR3","unstructured":"Outbreaks: List of foodborne illness outbreaks in the United States.[\n                    http:\/\/en.wikipedia.org\/wiki\/List_of_foodborne_illness_outbreaks_in_the_United_States\n                    \n                  ]"},{"issue":"4","key":"4213_CR4","doi-asserted-by":"publisher","first-page":"430","DOI":"10.1016\/j.meegid.2009.03.004","volume":"9","author":"SL Foley","year":"2009","unstructured":"Foley SL, Lynne AM, Nayak R: Molecular typing methodologies for microbial source tracking and epidemiological investigations of Gram-negative bacterial foodborne pathogens. Infect Genet Evol 2009, 9(4):430\u2013440. 10.1016\/j.meegid.2009.03.004","journal-title":"Infect Genet Evol"},{"issue":"6871","key":"4213_CR5","doi-asserted-by":"publisher","first-page":"530","DOI":"10.1038\/415530a","volume":"415","author":"LJ van 't Veer","year":"2002","unstructured":"van 't Veer LJ, Dai H, van de Vijver MJ, He YD, Hart AA, Mao M, Peterse HL, van der Kooy K, Marton MJ, Witteveen AT, et al.: Gene expression profiling predicts clinical outcome of breast cancer. Nature 2002, 415(6871):530\u2013536. 10.1038\/415530a","journal-title":"Nature"},{"issue":"2","key":"4213_CR6","doi-asserted-by":"publisher","first-page":"250","DOI":"10.1016\/j.canlet.2006.10.016","volume":"250","author":"A Oberthuer","year":"2007","unstructured":"Oberthuer A, Warnat P, Kahlert Y, Westermann F, Spitz R, Brors B, Hero B, Eils R, Schwab M, Berthold F, et al.: Classification of neuroblastoma patients by published gene-expression markers reveals a low sensitivity for unfavorable courses of MYCN non-amplified disease. Cancer Lett 2007, 250(2):250\u2013267. 10.1016\/j.canlet.2006.10.016","journal-title":"Cancer Lett"},{"issue":"46","key":"4213_CR7","doi-asserted-by":"publisher","first-page":"18211","DOI":"10.1073\/pnas.0706987104","volume":"104","author":"PR Bushel","year":"2007","unstructured":"Bushel PR, Heinloth AN, Li J, Huang L, Chou JW, Boorman GA, Malarkey DE, Houle CD, Ward SM, Wilson RE, et al.: Blood gene expression signatures predict exposure levels. Proc Natl Acad Sci U S A 2007, 104(46):18211\u201318216. 10.1073\/pnas.0706987104","journal-title":"Proc Natl Acad Sci U S A"},{"issue":"16","key":"4213_CR8","doi-asserted-by":"publisher","first-page":"9608","DOI":"10.1073\/pnas.1632587100","volume":"100","author":"EC Gunther","year":"2003","unstructured":"Gunther EC, Stone DJ, Gerwien RW, Bento P, Heyes MP: Prediction of clinical drug efficacy by classification of drug-induced genomic expression profiles in vitro. Proc Natl Acad Sci U S A 2003, 100(16):9608\u20139613. 10.1073\/pnas.1632587100","journal-title":"Proc Natl Acad Sci U S A"},{"issue":"8","key":"4213_CR9","doi-asserted-by":"publisher","first-page":"826","DOI":"10.1136\/jcp.2005.025718","volume":"58","author":"N Kaushik","year":"2005","unstructured":"Kaushik N, Fear D, Richards SC, McDermott CR, Nuwaysir EF, Kellam P, Harrison TJ, Wilkinson RJ, Tyrrell DA, Holgate ST, et al.: Gene expression in peripheral blood mononuclear cells from patients with chronic fatigue syndrome. J Clin Pathol 2005, 58(8):826\u2013832. 10.1136\/jcp.2005.025718","journal-title":"J Clin Pathol"},{"issue":"4","key":"4213_CR10","doi-asserted-by":"crossref","first-page":"260","DOI":"10.1038\/nrmicro2319","volume":"8","author":"DI Andersson","year":"2010","unstructured":"Andersson DI, Hughes D: Antibiotic resistance and its cost: is it possible to reverse resistance? Nat Rev Microbiol 2010, 8(4):260\u2013271.","journal-title":"Nat Rev Microbiol"},{"issue":"4","key":"4213_CR11","doi-asserted-by":"publisher","first-page":"251","DOI":"10.1038\/nrmicro2312","volume":"8","author":"HK Allen","year":"2010","unstructured":"Allen HK, Donato J, Wang HH, Cloud-Hansen KA, Davies J, Handelsman J: Call of the wild: antibiotic resistance genes in natural environments. Nat Rev Microbiol 2010, 8(4):251\u2013259. 10.1038\/nrmicro2312","journal-title":"Nat Rev Microbiol"},{"issue":"7","key":"4213_CR12","doi-asserted-by":"publisher","first-page":"3027","DOI":"10.3168\/jds.2008-1773","volume":"92","author":"P Cremonesi","year":"2009","unstructured":"Cremonesi P, Pisoni G, Severgnini M, Consolandi C, Moroni P, Raschetti M, Castiglioni B: Pathogen detection in milk samples by ligation detection reaction-mediated universal array method. J Dairy Sci 2009, 92(7):3027\u20133039. 10.3168\/jds.2008-1773","journal-title":"J Dairy Sci"},{"issue":"9","key":"4213_CR13","doi-asserted-by":"publisher","first-page":"4071","DOI":"10.1128\/JCM.41.9.4071-4080.2003","volume":"41","author":"D Volokhov","year":"2003","unstructured":"Volokhov D, Chizhikov V, Chumakov K, Rasooly A: Microarray-based identification of thermophilic Campylobacter jejuni, C. coli, C. lari, and C. upsaliensis. J Clin Microbiol 2003, 41(9):4071\u20134080. 10.1128\/JCM.41.9.4071-4080.2003","journal-title":"J Clin Microbiol"},{"issue":"21","key":"4213_CR14","doi-asserted-by":"publisher","first-page":"6639","DOI":"10.1128\/AEM.01262-08","volume":"74","author":"JC Janssens","year":"2008","unstructured":"Janssens JC, Steenackers H, Robijns S, Gellens E, Levin J, Zhao H, Hermans K, De Coster D, Verhoeven TL, Marchal K, et al.: Brominated furanones inhibit biofilm formation by Salmonella enterica serovar Typhimurium. Appl Environ Microbiol 2008, 74(21):6639\u20136648. 10.1128\/AEM.01262-08","journal-title":"Appl Environ Microbiol"},{"issue":"1","key":"4213_CR15","doi-asserted-by":"publisher","first-page":"29","DOI":"10.1016\/j.toxlet.2003.08.009","volume":"150","author":"Y Liu-Stratton","year":"2004","unstructured":"Liu-Stratton Y, Roy S, Sen CK: DNA microarray technology in nutraceutical and food safety. Toxicol Lett 2004, 150(1):29\u201342. 10.1016\/j.toxlet.2003.08.009","journal-title":"Toxicol Lett"},{"issue":"7","key":"4213_CR16","doi-asserted-by":"publisher","first-page":"3258","DOI":"10.1128\/AEM.67.7.3258-3263.2001","volume":"67","author":"V Chizhikov","year":"2001","unstructured":"Chizhikov V, Rasooly A, Chumakov K, Levy DD: Microarray analysis of microbial virulence factors. Appl Environ Microbiol 2001, 67(7):3258\u20133263. 10.1128\/AEM.67.7.3258-3263.2001","journal-title":"Appl Environ Microbiol"},{"issue":"4","key":"4213_CR17","doi-asserted-by":"publisher","first-page":"684","DOI":"10.1016\/j.bios.2004.04.030","volume":"20","author":"N Sergeev","year":"2004","unstructured":"Sergeev N, Distler M, Courtney S, Al-Khaldi SF, Volokhov D, Chizhikov V, Rasooly A: Multipathogen oligonucleotide microarray for environmental and biodefense applications. Biosens Bioelectron 2004, 20(4):684\u2013698. 10.1016\/j.bios.2004.04.030","journal-title":"Biosens Bioelectron"},{"key":"4213_CR18","doi-asserted-by":"publisher","first-page":"9","DOI":"10.1089\/mdr.2009.0082","volume":"16","author":"JG Frye","year":"2010","unstructured":"Frye JG, Lindsey RL, Rondeau G, Porwollik S, Long F, McClelland M, Jackson CR, Englen MD, Meinersmann RJ, Berrang ME, et al.: Development of a DNA Microarray to Detect Antimicrobial Resistance Genes Identified in the National Center for Biotechnology Information Database. Microb Drug Resist 2010, 16: 9\u201319. 10.1089\/mdr.2009.0082","journal-title":"Microb Drug Resist"},{"issue":"2-3","key":"4213_CR19","doi-asserted-by":"publisher","first-page":"183","DOI":"10.1016\/j.forsciint.2006.06.079","volume":"168","author":"SA Jackson","year":"2007","unstructured":"Jackson SA, Mammel MK, Patel IR, Mays T, Albert TJ, LeClerc JE, Cebula TA: Interrogating genomic diversity of E. coli O157:H7 using DNA tiling arrays. Forensic Sci Int 2007, 168(2\u20133):183\u2013199. 10.1016\/j.forsciint.2006.06.079","journal-title":"Forensic Sci Int"},{"key":"4213_CR20","volume-title":"BMC Genomics","author":"S Jackson","year":"2010","unstructured":"Jackson S, Patel I: Design, Validation and Application of a Novel and Comprehensive DNA Microarray for Genomic Interrogation of Escherichia coli and Shigella species. BMC Genomics 2010. Submitted Submitted"},{"key":"4213_CR21","volume-title":"The Pathogen Functional Genomics Resource Center at the J. Craig Venter Institute (JCVI) announces a program to obtain the Affymetrix E. coli FDA-ECSG microarray","author":"ECSG","year":"2009","unstructured":"ECSG: The Pathogen Functional Genomics Resource Center at the J. Craig Venter Institute (JCVI) announces a program to obtain the Affymetrix E. coli FDA-ECSG microarray.2009. [\n                    http:\/\/pfgrc.jcvi.org\/index.php\/home\/full_news\/current\/2009_1_9.html\n                    \n                  ]"},{"issue":"2","key":"4213_CR22","doi-asserted-by":"publisher","first-page":"138","DOI":"10.1016\/j.ijantimicag.2005.09.021","volume":"27","author":"JG Frye","year":"2006","unstructured":"Frye JG, Jesse T, Long F, Rondeau G, Porwollik S, McClelland M, Jackson CR, Englen M, Fedorka-Cray PJ: DNA microarray detection of antimicrobial resistance genes in diverse bacteria. Int J Antimicrob Agents 2006, 27(2):138\u2013151. 10.1016\/j.ijantimicag.2005.09.021","journal-title":"Int J Antimicrob Agents"},{"key":"4213_CR23","doi-asserted-by":"publisher","first-page":"96","DOI":"10.1016\/j.mimet.2010.01.024","volume":"81","author":"RL Lindsey","year":"2010","unstructured":"Lindsey RL, Frye JG, Fedorka-Cray PJ, Welch TJ, Meinersmann RJ: An oligonucleotide microarray to characterize multidrug resistant plasmids. J Microbiol Methods 2010, 81: 96\u2013100. 10.1016\/j.mimet.2010.01.024","journal-title":"J Microbiol Methods"},{"issue":"3","key":"4213_CR24","doi-asserted-by":"publisher","first-page":"906","DOI":"10.1111\/j.1365-2672.2009.04270.x","volume":"107","author":"W Zou","year":"2009","unstructured":"Zou W, Frye JG, Chang CW, Liu J, Cerniglia CE, Nayak R: Microarray analysis of antimicrobial resistance genes in Salmonella enterica from preharvest poultry environment. J Appl Microbiol 2009, 107(3):906\u2013914. 10.1111\/j.1365-2672.2009.04270.x","journal-title":"J Appl Microbiol"},{"issue":"15","key":"4213_CR25","doi-asserted-by":"publisher","first-page":"1819","DOI":"10.1289\/ehp.6497","volume":"111","author":"W Tong","year":"2003","unstructured":"Tong W, Cao X, Harris S, Sun H, Fang H, Fuscoe J, Harris A, Hong H, Xie Q, Perkins R, et al.: ArrayTrack--supporting toxicogenomic research at the U.S. Food and Drug Administration National Center for Toxicological Research. Environ Health Perspect 2003, 111(15):1819\u20131826. 10.1289\/ehp.6497","journal-title":"Environ Health Perspect"},{"issue":"1-2","key":"4213_CR26","doi-asserted-by":"publisher","first-page":"241","DOI":"10.1016\/j.mrfmmm.2003.12.024","volume":"549","author":"W Tong","year":"2004","unstructured":"Tong W, Harris S, Cao X, Fang H, Shi L, Sun H, Fuscoe J, Harris A, Hong H, Xie Q, et al.: Development of public toxicogenomics software for microarray data management and analysis. Mutat Res 2004, 549(1\u20132):241\u2013253.","journal-title":"Mutat Res"},{"key":"4213_CR27","doi-asserted-by":"publisher","first-page":"379","DOI":"10.1007\/978-1-60761-175-2_20","volume":"563","author":"H Fang","year":"2009","unstructured":"Fang H, Harris SC, Su Z, Chen M, Qian F, Shi L, Perkins R, Tong W: ArrayTrack: an FDA and public genomic tool. Methods Mol Biol 2009, 563: 379\u2013398. full_text","journal-title":"Methods Mol Biol"},{"issue":"Suppl 2","key":"4213_CR28","doi-asserted-by":"publisher","first-page":"S23","DOI":"10.1186\/1471-2105-7-S2-S23","volume":"7","author":"H Sun","year":"2006","unstructured":"Sun H, Fang H, Chen T, Perkins R, Tong W: GOFFA: gene ontology for functional analysis--a FDA gene ontology tool for analysis of genomic and proteomic data. BMC Bioinformatics 2006, 7(Suppl 2):S23. 10.1186\/1471-2105-7-S2-S23","journal-title":"BMC Bioinformatics"},{"key":"4213_CR29","volume-title":"The NIAID-Supported Pathogen Functional Genomics Resource Center at the J. Craig Venter Institute Offers New Affymetrix Array for Faster Identification of E. Coli and Shigella","author":"Affymetrix_News","year":"2009","unstructured":"Affymetrix_News: The NIAID-Supported Pathogen Functional Genomics Resource Center at the J. Craig Venter Institute Offers New Affymetrix Array for Faster Identification of E. Coli and Shigella.2009. [\n                    http:\/\/phx.corporate-ir.net\/preview\/phoenix.zhtml?c=116408&p=irol-newsArticle&ID=1317038&highlight=ECSG\n                    \n                  ]"}],"container-title":["BMC Bioinformatics"],"original-title":[],"language":"en","link":[{"URL":"http:\/\/link.springer.com\/content\/pdf\/10.1186\/1471-2105-11-S6-S4.pdf","content-type":"application\/pdf","content-version":"vor","intended-application":"text-mining"},{"URL":"http:\/\/link.springer.com\/article\/10.1186\/1471-2105-11-S6-S4\/fulltext.html","content-type":"text\/html","content-version":"vor","intended-application":"text-mining"},{"URL":"http:\/\/link.springer.com\/content\/pdf\/10.1186\/1471-2105-11-S6-S4.pdf","content-type":"application\/pdf","content-version":"vor","intended-application":"similarity-checking"}],"deposited":{"date-parts":[[2020,2,17]],"date-time":"2020-02-17T14:00:01Z","timestamp":1581948001000},"score":1,"resource":{"primary":{"URL":"https:\/\/bmcbioinformatics.biomedcentral.com\/articles\/10.1186\/1471-2105-11-S6-S4"}},"subtitle":[],"short-title":[],"issued":{"date-parts":[[2010,10]]},"references-count":29,"journal-issue":{"issue":"S6","published-print":{"date-parts":[[2010,10]]}},"alternative-id":["4213"],"URL":"https:\/\/doi.org\/10.1186\/1471-2105-11-s6-s4","relation":{},"ISSN":["1471-2105"],"issn-type":[{"value":"1471-2105","type":"electronic"}],"subject":[],"published":{"date-parts":[[2010,10]]},"article-number":"S4"}}