{"status":"ok","message-type":"work","message-version":"1.0.0","message":{"indexed":{"date-parts":[[2025,10,29]],"date-time":"2025-10-29T03:23:48Z","timestamp":1761708228174},"reference-count":37,"publisher":"Springer Science and Business Media LLC","issue":"1","license":[{"start":{"date-parts":[[2008,6,18]],"date-time":"2008-06-18T00:00:00Z","timestamp":1213747200000},"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":[[2008,12]]},"DOI":"10.1186\/1471-2105-9-286","type":"journal-article","created":{"date-parts":[[2008,6,18]],"date-time":"2008-06-18T18:13:50Z","timestamp":1213812830000},"source":"Crossref","is-referenced-by-count":35,"title":["Precise detection of rearrangement breakpoints in mammalian chromosomes"],"prefix":"10.1186","volume":"9","author":[{"given":"Claire","family":"Lemaitre","sequence":"first","affiliation":[],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Eric","family":"Tannier","sequence":"additional","affiliation":[],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Christian","family":"Gautier","sequence":"additional","affiliation":[],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Marie-France","family":"Sagot","sequence":"additional","affiliation":[],"role":[{"role":"author","vocabulary":"crossref"}]}],"member":"297","published-online":{"date-parts":[[2008,6,18]]},"reference":[{"issue":"4","key":"2271_CR1","doi-asserted-by":"publisher","first-page":"369","DOI":"10.1038\/ng1215","volume":"34","author":"DG Albertson","year":"2003","unstructured":"Albertson DG, Collins C, McCormick F, Gray JW: Chromosome aberrations in solid tumors. Nat Genet 2003, 34(4):369\u2013376. 10.1038\/ng1215","journal-title":"Nat Genet"},{"issue":"5634","key":"2271_CR2","doi-asserted-by":"publisher","first-page":"793","DOI":"10.1126\/science.1086132","volume":"301","author":"EE Eichler","year":"2003","unstructured":"Eichler EE, Sankoff D: Structural dynamics of eukaryotic chromosome evolution. Science 2003, 301(5634):793\u2013797. 10.1126\/science.1086132","journal-title":"Science"},{"issue":"7","key":"2271_CR3","doi-asserted-by":"publisher","first-page":"351","DOI":"10.1016\/S0169-5347(01)02187-5","volume":"16","author":"L Rieseberg","year":"2001","unstructured":"Rieseberg L: Chromosomal rearrangements and speciation. Trends Ecol Evol 2001, 16(7):351\u2013358. 10.1016\/S0169-5347(01)02187-5","journal-title":"Trends Ecol Evol"},{"issue":"2","key":"2271_CR4","doi-asserted-by":"publisher","first-page":"74","DOI":"10.1016\/S0168-9525(02)02592-1","volume":"18","author":"P Stankiewicz","year":"2002","unstructured":"Stankiewicz P, Lupski JR: Genome architecture, rearrangements and genomic disorders. Trends Genet 2002, 18(2):74\u201382. 10.1016\/S0168-9525(02)02592-1","journal-title":"Trends Genet"},{"issue":"3","key":"2271_CR5","doi-asserted-by":"publisher","first-page":"814","DOI":"10.1073\/pnas.81.3.814","volume":"81","author":"JH Nadeau","year":"1984","unstructured":"Nadeau JH, Taylor BA: Lengths of chromosomal segments conserved since divergence of man and mouse. Proc Natl Acad Sci USA 1984, 81(3):814\u2013818. 10.1073\/pnas.81.3.814","journal-title":"Proc Natl Acad Sci USA"},{"key":"2271_CR6","doi-asserted-by":"publisher","first-page":"98","DOI":"10.1101\/gr.3002305","volume":"15","author":"G Bourque","year":"2005","unstructured":"Bourque G, Zdobnov EM, Bork P, Pevzner PA, Tesler G: Comparative architectures of mammalian and chicken genomes reveal highly variable rates of genomic rearrangements across different lineages. Genome Res 2005, 15: 98\u2013110. 10.1101\/gr.3002305","journal-title":"Genome Res"},{"key":"2271_CR7","doi-asserted-by":"publisher","first-page":"7672","DOI":"10.1073\/pnas.1330369100","volume":"13","author":"P Pevzner","year":"2003","unstructured":"Pevzner P, Tesler G: Human and mouse genomic sequences reveal extensive breakpoint reuse in mammalian evolution. Proc Natl Acad Sci U S A 2003, 13: 7672\u20137. 10.1073\/pnas.1330369100","journal-title":"Proc Natl Acad Sci U S A"},{"key":"2271_CR8","doi-asserted-by":"publisher","first-page":"90","DOI":"10.1186\/1471-2148-6-90","volume":"6","author":"H Hinsch","year":"2006","unstructured":"Hinsch H, Hannenhalli S: Recurring genomic breaks in independent lineages support genomic fragility. BMC Evol Biol 2006, 6: 90. 10.1186\/1471-2148-6-90","journal-title":"BMC Evol Biol"},{"key":"2271_CR9","doi-asserted-by":"publisher","first-page":"1557","DOI":"10.1101\/gr.5383506","volume":"16","author":"J Ma","year":"2006","unstructured":"Ma J, Zhang L, Suh BB, Raney BJ, Burhans RC, Kent WJ, Blanchette M, Haussler D, Miller W: Reconstructing contiguous regions of an ancestral genome. Genome Res 2006, 16: 1557\u20131565. 10.1101\/gr.5383506","journal-title":"Genome Res"},{"issue":"5734","key":"2271_CR10","doi-asserted-by":"publisher","first-page":"613","DOI":"10.1126\/science.1111387","volume":"309","author":"WJ Murphy","year":"2005","unstructured":"Murphy WJ, Larkin DM, Wind AE, Bourque G, Tesler G, Auvil L, Beever JE, Chowdhary BP, Galibert F, Gatzke L, Hitte C, Meyers SN, Milan D, Ostrander EA, Pape G, Parker HG, Raudsepp T, Rogatcheva MB, Schook LB, Skow LC, Welge M, Womack JE, O'brien SJ, Pevzner PA, Lewin HA: Dynamics of mammalian chromosome evolution inferred from multispecies comparative maps. Science 2005, 309(5734):613\u2013617. 10.1126\/science.1111387","journal-title":"Science"},{"issue":"17","key":"2271_CR11","doi-asserted-by":"publisher","first-page":"2201","DOI":"10.1093\/hmg\/ddg223","volume":"12","author":"L Armengol","year":"2003","unstructured":"Armengol L, Pujana MA, Cheung J, Scherer SW, Estivill X: Enrichment of segmental duplications in regions of breaks of synteny between the human and mouse genomes suggest their involvement in evolutionary rearrangements. Hum Mol Genet 2003, 12(17):2201\u20132208. 10.1093\/hmg\/ddg223","journal-title":"Hum Mol Genet"},{"issue":"4","key":"2271_CR12","doi-asserted-by":"publisher","first-page":"R23","DOI":"10.1186\/gb-2004-5-4-r23","volume":"5","author":"JA Bailey","year":"2004","unstructured":"Bailey JA, Baertsch R, Kent WJ, Haussler D, Eichler EE: Hotspots of mammalian chromosomal evolution. Genome Biol 2004, 5(4):R23. 10.1186\/gb-2004-5-4-r23","journal-title":"Genome Biol"},{"issue":"1\u20133","key":"2271_CR13","doi-asserted-by":"publisher","first-page":"234","DOI":"10.1159\/000080822","volume":"108","author":"A Ruiz-Herrera","year":"2005","unstructured":"Ruiz-Herrera A, Garc\u00eca F, Giulotto E, Attolini C, Egozcue J, Pons\u00e1 M, Garcia M: Evolutionary breakpoints are co-localized with fragile sites and intrachromosomal telomeric sequences in primates. Cytogenet Genome Res 2005, 108(1\u20133):234\u2013247. 10.1159\/000080822","journal-title":"Cytogenet Genome Res"},{"issue":"Suppl 1","key":"2271_CR14","doi-asserted-by":"publisher","first-page":"I318","DOI":"10.1093\/bioinformatics\/bth934","volume":"20","author":"P Trinh","year":"2004","unstructured":"Trinh P, McLysaght A, Sankoff D: Genomic features in the breakpoint regions between syntenic blocks. Bioinformatics 2004, 20(Suppl 1):I318-I325. 10.1093\/bioinformatics\/bth934","journal-title":"Bioinformatics"},{"key":"2271_CR15","doi-asserted-by":"publisher","first-page":"103","DOI":"10.1101\/gr.809403","volume":"13","author":"S Schwartz","year":"2003","unstructured":"Schwartz S, Kent WJ, Smit A, Zhang Z, Baertsch R, Hardison RC, Haussler D, Miller W: Human-mouse alignments with BLASTZ. Genome Res 2003, 13: 103\u2013107. 10.1101\/gr.809403","journal-title":"Genome Res"},{"key":"2271_CR16","unstructured":"Smit A, Hubley R, Green P: RepeatMasker.[ http:\/\/repeatmasker.org ]"},{"key":"2271_CR17","doi-asserted-by":"publisher","first-page":"39","DOI":"10.1007\/BF02458835","volume":"51","author":"I Auger","year":"1989","unstructured":"Auger I, Lawrence C: Algorithms for the optimal identification of segments neighborhoods. Bull Math Biol 1989, 51: 39\u201354.","journal-title":"Bull Math Biol"},{"key":"2271_CR18","doi-asserted-by":"crossref","DOI":"10.1515\/9781400874651","volume-title":"Applied dynamic programming","author":"R Bellman","year":"1962","unstructured":"Bellman R, Dreyfus S: Applied dynamic programming. Princeton University Press; 1962."},{"key":"2271_CR19","doi-asserted-by":"publisher","first-page":"337","DOI":"10.1006\/geno.1996.0209","volume":"33","author":"RW DeBry","year":"1996","unstructured":"DeBry RW, Seldin MF: Human\/Mouse Homology Relationships. Genomics 1996, 33: 337\u2013351. 10.1006\/geno.1996.0209","journal-title":"Genomics"},{"issue":"2","key":"2271_CR20","first-page":"152","volume":"17","author":"A Bhutkar","year":"2006","unstructured":"Bhutkar A, Russo S, Smith TF, Gelbart WM: Techniques for multi-genome synteny analysis to overcome assembly limitations. Genome Inform 2006, 17(2):152\u2013161.","journal-title":"Genome Inform"},{"key":"2271_CR21","doi-asserted-by":"publisher","first-page":"i74","DOI":"10.1093\/bioinformatics\/btg1008","volume":"19","author":"PP Calabrese","year":"2003","unstructured":"Calabrese PP, Chakravarty S, Vision TJ: Fast identification and statistical evaluation of segmental homologies in comparative maps. Bioinformatics 2003, 19: i74-i80. 10.1093\/bioinformatics\/btg1008","journal-title":"Bioinformatics"},{"key":"2271_CR22","first-page":"277","volume-title":"WABI, LCNS","author":"V Choi","year":"2007","unstructured":"Choi V, Zheng C, Zhu Q, Sankoff D: Algorithms for the Extraction of Synteny Blocks from Comparative Maps. In WABI, LCNS. Volume 4645. Springer Berlin\/Heidelberg; 2007:277\u2013288."},{"issue":"7","key":"2271_CR23","doi-asserted-by":"publisher","first-page":"1394","DOI":"10.1101\/gr.2289704","volume":"14","author":"ACE Darling","year":"2004","unstructured":"Darling ACE, Mau B, Blattner FR, Perna NT: Mauve: multiple alignment of conserved genomic sequence with rearrangements. Genome Res 2004, 14(7):1394\u20131403. 10.1101\/gr.2289704","journal-title":"Genome Res"},{"issue":"18","key":"2271_CR24","doi-asserted-by":"publisher","first-page":"3643","DOI":"10.1093\/bioinformatics\/bth397","volume":"20","author":"BJ Haas","year":"2004","unstructured":"Haas BJ, Delcher AL, Wortman JR, Salzberg SL: DAGchainer: a tool for mining segmental genome duplications and synteny. Bioinformatics 2004, 20(18):3643\u20133646. 10.1093\/bioinformatics\/bth397","journal-title":"Bioinformatics"},{"issue":"5","key":"2271_CR25","doi-asserted-by":"publisher","first-page":"999","DOI":"10.1101\/gr.814403","volume":"13","author":"S Hampson","year":"2003","unstructured":"Hampson S, McLysaght A, Gaut B, Baldi P: LineUp: statistical detection of chromosomal homology with application to plant comparative genomics. Genome Res 2003, 13(5):999\u20131010. 10.1101\/gr.814403","journal-title":"Genome Res"},{"issue":"20","key":"2271_CR26","doi-asserted-by":"publisher","first-page":"11484","DOI":"10.1073\/pnas.1932072100","volume":"100","author":"WJ Kent","year":"2003","unstructured":"Kent WJ, Baertsch R, Hinrichs A, Miller W, Haussler D: Evolution's cauldron: duplication, deletion, and rearrangement in the mouse and human genomes. Proc Natl Acad Sci USA 2003, 100(20):11484\u201311489. 10.1073\/pnas.1932072100","journal-title":"Proc Natl Acad Sci USA"},{"issue":"17","key":"2271_CR27","doi-asserted-by":"publisher","first-page":"3461","DOI":"10.1093\/bioinformatics\/bti555","volume":"21","author":"X Pan","year":"2005","unstructured":"Pan X, Stein L, Brendel V: SynBrowse: a synteny browser for comparative sequence analysis. Bioinformatics 2005, 21(17):3461\u20133468. 10.1093\/bioinformatics\/bti555","journal-title":"Bioinformatics"},{"key":"2271_CR28","doi-asserted-by":"publisher","first-page":"37","DOI":"10.1101\/gr.757503","volume":"13","author":"P Pevzner","year":"2003","unstructured":"Pevzner P, Tesler G: Genome rearrangements in mammalian evolution: lessons from human and mouse genomes. Genome Res 2003, 13: 37\u201345. 10.1101\/gr.757503","journal-title":"Genome Res"},{"key":"2271_CR29","doi-asserted-by":"publisher","first-page":"82","DOI":"10.1186\/1471-2105-8-82","volume":"8","author":"AU Sinha","year":"2007","unstructured":"Sinha AU, Meller J: Cinteny: flexible analysis and visualization of synteny and genome rearrangements in multiple organisms. BMC Bioinformatics 2007, 8: 82. 10.1186\/1471-2105-8-82","journal-title":"BMC Bioinformatics"},{"key":"2271_CR30","doi-asserted-by":"publisher","first-page":"e75","DOI":"10.1371\/journal.pcbi.0020075","volume":"2","author":"F Swidan","year":"2006","unstructured":"Swidan F, Rocha EPC, Shmoish M, Pinter RY: An Integrative Method for Accurate Comparative Genome Mapping. PLoS Comput Biol 2006, 2: e75. 10.1371\/journal.pcbi.0020075","journal-title":"PLoS Comput Biol"},{"key":"2271_CR31","doi-asserted-by":"crossref","unstructured":"Hubbard TJP, Aken BL, Beal K, Ballester B, Caccamo M, Chen Y, Clarke L, Coates G, Cunningham F, Cutts T, Down T, Dyer SC, Fitzgerald S, Fernandez-Banet J, Graf S, Haider S, Hammond M, Herrero J, Holland R, Howe K, Howe K, Johnson N, Kahari A, Keefe D, Kokocinski F, Kulesha E, Lawson D, Longden I, Melsopp C, Megy K, Meidl P, Ouverdin B, Parker A, Prlic A, Rice S, Rios D, Schuster M, Sealy I, Severin J, Slater G, Smedley D, Spudich G, Trevanion S, Vilella A, Vogel J, White S, Wood M, Cox T, Curwen V, Durbin R, Fernandez-Suarez XM, Flicek P, Kasprzyk A, Proctor G, Searle S, Smith J, Ureta-Vidal A, Birney E: Ensembl 2007. Nucleic Acids Res 2007, (35 Database):D610-D617. 10.1093\/nar\/gkl996","DOI":"10.1093\/nar\/gkl996"},{"issue":"4","key":"2271_CR32","doi-asserted-by":"publisher","first-page":"507","DOI":"10.1101\/gr.1975204","volume":"14","author":"G Bourque","year":"2004","unstructured":"Bourque G, Pevzner PA, Tesler G: Reconstructing the genomic architecture of ancestral mammals: lessons from human, mouse, and rat genomes. Genome Res 2004, 14(4):507\u2013516. 10.1101\/gr.1975204","journal-title":"Genome Res"},{"key":"2271_CR33","unstructured":"Ensembl[ http:\/\/www.ensembl.org ]"},{"key":"2271_CR34","volume-title":"Nucleic Acids Res","author":"RM Kuhn","year":"2007","unstructured":"Kuhn RM, Karolchik D, Zweig AS, Trumbower H, Thomas DJ, Thakkapallayil A, Sugnet CW, Stanke M, Smith KE, Siepel A, Rosenbloom KR, Rhead B, Raney BJ, Pohl A, Pedersen JS, Hsu F, Hinrichs AS, Harte RA, Diekhans M, Clawson H, Bejerano G, Barber GP, Baertsch R, Haussler D, Kent WJ: The UCSC genome browser database: update 2007. Nucleic Acids Res 2007, (35 Database):D668-D673. 10.1093\/nar\/gkl928"},{"issue":"5","key":"2271_CR35","doi-asserted-by":"publisher","first-page":"479","DOI":"10.1038\/sj.hdy.6801046","volume":"99","author":"F Casals","year":"2007","unstructured":"Casals F, Navarro A: Chromosomal evolution: inversions: the chicken or the egg? Heredity 2007, 99(5):479\u2013480. 10.1038\/sj.hdy.6801046","journal-title":"Heredity"},{"issue":"1\u20133","key":"2271_CR36","doi-asserted-by":"publisher","first-page":"91","DOI":"10.1159\/000080806","volume":"108","author":"H Kehrer-Sawatzki","year":"2005","unstructured":"Kehrer-Sawatzki H, Sandig CA, Goidts V, Hameister H: Breakpoint analysis of the pericentric inversion between chimpanzee chromosome 10 and the homologous chromosome 12 in humans. Cytogenet Genome Res 2005, 108(1\u20133):91\u201397. 10.1159\/000080806","journal-title":"Cytogenet Genome Res"},{"issue":"6","key":"2271_CR37","doi-asserted-by":"publisher","first-page":"e152","DOI":"10.1371\/journal.pbio.0050152","volume":"5","author":"JM Ranz","year":"2007","unstructured":"Ranz JM, Maurin D, Chan YS, von Grotthuss M, Hillier LW, Roote J, Ashburner M, Bergman CM: Principles of Genome Evolution in the Drosophila melanogaster Species Group. PLoS Biol 2007, 5(6):e152. 10.1371\/journal.pbio.0050152","journal-title":"PLoS Biol"}],"container-title":["BMC Bioinformatics"],"original-title":[],"language":"en","link":[{"URL":"http:\/\/link.springer.com\/content\/pdf\/10.1186\/1471-2105-9-286.pdf","content-type":"application\/pdf","content-version":"vor","intended-application":"text-mining"},{"URL":"http:\/\/link.springer.com\/article\/10.1186\/1471-2105-9-286\/fulltext.html","content-type":"text\/html","content-version":"vor","intended-application":"text-mining"},{"URL":"http:\/\/link.springer.com\/content\/pdf\/10.1186\/1471-2105-9-286.pdf","content-type":"application\/pdf","content-version":"vor","intended-application":"similarity-checking"}],"deposited":{"date-parts":[[2019,5,12]],"date-time":"2019-05-12T04:47:49Z","timestamp":1557636469000},"score":1,"resource":{"primary":{"URL":"https:\/\/bmcbioinformatics.biomedcentral.com\/articles\/10.1186\/1471-2105-9-286"}},"subtitle":[],"short-title":[],"issued":{"date-parts":[[2008,6,18]]},"references-count":37,"journal-issue":{"issue":"1","published-print":{"date-parts":[[2008,12]]}},"alternative-id":["2271"],"URL":"https:\/\/doi.org\/10.1186\/1471-2105-9-286","relation":{},"ISSN":["1471-2105"],"issn-type":[{"value":"1471-2105","type":"electronic"}],"subject":[],"published":{"date-parts":[[2008,6,18]]},"article-number":"286"}}