{"status":"ok","message-type":"work","message-version":"1.0.0","message":{"indexed":{"date-parts":[[2025,10,11]],"date-time":"2025-10-11T08:16:08Z","timestamp":1760170568555},"reference-count":22,"publisher":"Springer Science and Business Media LLC","issue":"1","license":[{"start":{"date-parts":[[2010,9,28]],"date-time":"2010-09-28T00:00:00Z","timestamp":1285632000000},"content-version":"tdm","delay-in-days":0,"URL":"http:\/\/creativecommons.org\/licenses\/by\/2.0"}],"content-domain":{"domain":[],"crossmark-restriction":false},"short-container-title":["BioData Mining"],"published-print":{"date-parts":[[2010,12]]},"DOI":"10.1186\/1756-0381-3-6","type":"journal-article","created":{"date-parts":[[2010,9,28]],"date-time":"2010-09-28T02:16:11Z","timestamp":1285640171000},"source":"Crossref","is-referenced-by-count":5,"title":["GeneWaltz\u2013A new method for reducing the false positives of gene finding"],"prefix":"10.1186","volume":"3","author":[{"given":"Kazuharu","family":"Misawa","sequence":"first","affiliation":[],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Reiko F","family":"Kikuno","sequence":"additional","affiliation":[],"role":[{"role":"author","vocabulary":"crossref"}]}],"member":"297","published-online":{"date-parts":[[2010,9,28]]},"reference":[{"key":"27_CR1","doi-asserted-by":"publisher","first-page":"860","DOI":"10.1038\/35057062","volume":"409","author":"ES Lander","year":"2001","unstructured":"Lander ES, Linton LM, Birren B, Nusbaum C, Zody MC, Baldwin J, Devon K, Dewar K, Doyle M, FitzHugh W: Initial sequencing and analysis of the human genome. Nature. 2001, 409: 860-921. 10.1038\/35057062.","journal-title":"Nature"},{"key":"27_CR2","doi-asserted-by":"publisher","first-page":"1304","DOI":"10.1126\/science.1058040","volume":"291","author":"JC Venter","year":"2001","unstructured":"Venter JC, Adams MD, Myers EW, Li PW, Mural RJ, Sutton GG, Smith HO, Yandell M, Evans CA, Holt RA: The sequence of the human genome. Science. 2001, 291: 1304-1351. 10.1126\/science.1058040.","journal-title":"Science"},{"key":"27_CR3","doi-asserted-by":"publisher","first-page":"520","DOI":"10.1038\/nature01262","volume":"420","author":"RH Waterston","year":"2002","unstructured":"Waterston RH, Lindblad-Toh K, Birney E, Rogers J, Abril JF, Agarwal P, Agarwala R, Ainscough R, Alexandersson M, An P: Initial sequencing and comparative analysis of the mouse genome. Nature. 2002, 420: 520-562. 10.1038\/nature01262.","journal-title":"Nature"},{"key":"27_CR4","doi-asserted-by":"publisher","first-page":"493","DOI":"10.1038\/35080529","volume":"2","author":"L Stein","year":"2001","unstructured":"Stein L: Genome annotation: from sequence to biology. Nat Rev Genet. 2001, 2: 493-503. 10.1038\/35080529.","journal-title":"Nat Rev Genet"},{"key":"27_CR5","doi-asserted-by":"publisher","first-page":"315","DOI":"10.1146\/annurev.genom.7.080505.115745","volume":"7","author":"SJ Jones","year":"2006","unstructured":"Jones SJ: Prediction of genomic functional elements. Annu Rev Genomics Hum Genet. 2006, 7: 315-338. 10.1146\/annurev.genom.7.080505.115745.","journal-title":"Annu Rev Genomics Hum Genet"},{"key":"27_CR6","doi-asserted-by":"publisher","first-page":"264","DOI":"10.1016\/j.sbi.2004.05.007","volume":"14","author":"MR Brent","year":"2004","unstructured":"Brent MR, Guigo R: Recent advances in gene structure prediction. Curr Opin Struct Biol. 2004, 14: 264-272. 10.1016\/j.sbi.2004.05.007.","journal-title":"Curr Opin Struct Biol"},{"key":"27_CR7","doi-asserted-by":"publisher","first-page":"78","DOI":"10.1006\/jmbi.1997.0951","volume":"268","author":"C Burge","year":"1997","unstructured":"Burge C, Karlin S: Prediction of complete gene structures in human genomic DNA. J Mol Biol. 1997, 268: 78-94. 10.1006\/jmbi.1997.0951.","journal-title":"J Mol Biol"},{"key":"27_CR8","doi-asserted-by":"publisher","first-page":"W465","DOI":"10.1093\/nar\/gki458","volume":"33","author":"M Stanke","year":"2005","unstructured":"Stanke M, Morgenstern B: AUGUSTUS: a web server for gene prediction in eukaryotes that allows user-defined constraints. Nucleic Acids Res. 2005, 33: W465-467. 10.1093\/nar\/gki458.","journal-title":"Nucleic Acids Res"},{"key":"27_CR9","doi-asserted-by":"publisher","first-page":"108","DOI":"10.1101\/gr.871403","volume":"13","author":"G Parra","year":"2003","unstructured":"Parra G, Agarwal P, Abril JF, Wiehe T, Fickett JW, Guigo R: Comparative gene prediction in human and mouse. Genome Res. 2003, 13: 108-117. 10.1101\/gr.871403.","journal-title":"Genome Res"},{"key":"27_CR10","doi-asserted-by":"publisher","first-page":"1309","DOI":"10.1093\/bioinformatics\/18.10.1309","volume":"18","author":"IM Meyer","year":"2002","unstructured":"Meyer IM, Durbin R: Comparative ab initio prediction of gene structures using pair HMMs. Bioinformatics. 2002, 18: 1309-1318. 10.1093\/bioinformatics\/18.10.1309.","journal-title":"Bioinformatics"},{"key":"27_CR11","doi-asserted-by":"publisher","first-page":"776","DOI":"10.1093\/nar\/gkh211","volume":"32","author":"IM Meyer","year":"2004","unstructured":"Meyer IM, Durbin R: Gene structure conservation aids similarity based gene prediction. Nucleic Acids Res. 2004, 32: 776-783. 10.1093\/nar\/gkh211.","journal-title":"Nucleic Acids Res"},{"issue":"Suppl 1","key":"27_CR12","doi-asserted-by":"publisher","first-page":"S140","DOI":"10.1093\/bioinformatics\/17.suppl_1.S140","volume":"17","author":"I Korf","year":"2001","unstructured":"Korf I, Flicek P, Duan D, Brent MR: Integrating genomic homology into gene structure prediction. Bioinformatics. 2001, 17 (Suppl 1): S140-148.","journal-title":"Bioinformatics"},{"key":"27_CR13","doi-asserted-by":"publisher","first-page":"741","DOI":"10.1038\/nrg1160","volume":"4","author":"J Wang","year":"2003","unstructured":"Wang J, Li S, Zhang Y, Zheng H, Xu Z, Ye J, Yu J, Wong GK: Vertebrate gene predictions and the problem of large genes. Nat Rev Genet. 2003, 4: 741-749. 10.1038\/nrg1160.","journal-title":"Nat Rev Genet"},{"key":"27_CR14","doi-asserted-by":"publisher","first-page":"403","DOI":"10.1016\/S0022-2836(05)80360-2","volume":"215","author":"SF Altschul","year":"1990","unstructured":"Altschul SF, Gish W, Miller W, Myers EW, Lipman DJ: Basic local alignment search tool. J Mol Biol. 1990, 215: 403-410.","journal-title":"J Mol Biol"},{"key":"27_CR15","unstructured":"Dayhoff MO, Schwartz RM, Orcutt BC: A model of evolutionary change in proteins. Atlas of protein sequence and structure. Edited by: Dayhoff MO. 1978, Washington, D.C.: National Biomedical Research Foundation, 5 (3): 345-352."},{"key":"27_CR16","doi-asserted-by":"publisher","first-page":"1190","DOI":"10.1101\/gr.703903","volume":"13","author":"L Zhang","year":"2003","unstructured":"Zhang L, Pavlovic V, Cantor CR, Kasif S: Human-mouse gene identification by comparative evidence integration and evolutionary analysis. Genome Res. 2003, 13: 1190-1202. 10.1101\/gr.703903.","journal-title":"Genome Res"},{"key":"27_CR17","doi-asserted-by":"publisher","first-page":"1960","DOI":"10.1126\/science.1088821","volume":"302","author":"AG Clark","year":"2003","unstructured":"Clark AG, Glanowski S, Nielsen R, Thomas PD, Kejariwal A, Todd MA, Tanenbaum DM, Civello D, Lu F, Murphy B: Inferring nonneutral evolution from human-chimp-mouse orthologous gene trios. Science. 2003, 302: 1960-1963. 10.1126\/science.1088821.","journal-title":"Science"},{"key":"27_CR18","doi-asserted-by":"publisher","first-page":"2264","DOI":"10.1073\/pnas.87.6.2264","volume":"87","author":"S Karlin","year":"1990","unstructured":"Karlin S, Altschul SF: Methods for assessing the statistical significance of molecular sequence features by using general scoring schemes. Proc Natl Acad Sci USA. 1990, 87: 2264-2268. 10.1073\/pnas.87.6.2264.","journal-title":"Proc Natl Acad Sci USA"},{"key":"27_CR19","doi-asserted-by":"publisher","first-page":"9407","DOI":"10.1073\/pnas.95.16.9407","volume":"95","author":"W Makalowski","year":"1998","unstructured":"Makalowski W, Boguski MS: Evolutionary parameters of the transcribed mammalian genome: an analysis of 2,820 orthologous rodent and human sequences. Proc Natl Acad Sci USA. 1998, 95: 9407-9412. 10.1073\/pnas.95.16.9407.","journal-title":"Proc Natl Acad Sci USA"},{"key":"27_CR20","doi-asserted-by":"publisher","first-page":"1135","DOI":"10.1038\/nbt1486","volume":"26","author":"J Shendure","year":"2008","unstructured":"Shendure J, Ji H: Next-generation DNA sequencing. Nat Biotechnol. 2008, 26: 1135-1145. 10.1038\/nbt1486.","journal-title":"Nat Biotechnol"},{"key":"27_CR21","doi-asserted-by":"publisher","first-page":"18","DOI":"10.1016\/j.gene.2008.11.006","volume":"431","author":"K Misawa","year":"2009","unstructured":"Misawa K, Kikuno RF: Evaluation of the effect of CpG hypermutability on human codon substitution. Gene. 2009, 431: 18-22. 10.1016\/j.gene.2008.11.006.","journal-title":"Gene"},{"key":"27_CR22","doi-asserted-by":"publisher","first-page":"167","DOI":"10.1038\/335167a0","volume":"335","author":"AL Hughes","year":"1988","unstructured":"Hughes AL, Nei M: Pattern of nucleotide substitution at major histocompatibility complex class I loci reveals overdominant selection. Nature. 1988, 335: 167-170. 10.1038\/335167a0.","journal-title":"Nature"}],"container-title":["BioData Mining"],"original-title":[],"language":"en","link":[{"URL":"http:\/\/link.springer.com\/article\/10.1186\/1756-0381-3-6\/fulltext.html","content-type":"text\/html","content-version":"vor","intended-application":"text-mining"},{"URL":"http:\/\/link.springer.com\/content\/pdf\/10.1186\/1756-0381-3-6.pdf","content-type":"application\/pdf","content-version":"vor","intended-application":"text-mining"},{"URL":"http:\/\/link.springer.com\/content\/pdf\/10.1186\/1756-0381-3-6","content-type":"unspecified","content-version":"vor","intended-application":"similarity-checking"},{"URL":"http:\/\/link.springer.com\/content\/pdf\/10.1186\/1756-0381-3-6.pdf","content-type":"application\/pdf","content-version":"vor","intended-application":"similarity-checking"}],"deposited":{"date-parts":[[2019,1,21]],"date-time":"2019-01-21T15:38:29Z","timestamp":1548085109000},"score":1,"resource":{"primary":{"URL":"https:\/\/biodatamining.biomedcentral.com\/articles\/10.1186\/1756-0381-3-6"}},"subtitle":[],"short-title":[],"issued":{"date-parts":[[2010,9,28]]},"references-count":22,"journal-issue":{"issue":"1","published-print":{"date-parts":[[2010,12]]}},"alternative-id":["27"],"URL":"https:\/\/doi.org\/10.1186\/1756-0381-3-6","relation":{},"ISSN":["1756-0381"],"issn-type":[{"value":"1756-0381","type":"electronic"}],"subject":[],"published":{"date-parts":[[2010,9,28]]},"article-number":"6"}}