{"status":"ok","message-type":"work","message-version":"1.0.0","message":{"indexed":{"date-parts":[[2023,1,25]],"date-time":"2023-01-25T08:27:52Z","timestamp":1674635272944},"reference-count":15,"publisher":"Springer Science and Business Media LLC","issue":"1","content-domain":{"domain":["link.springer.com"],"crossmark-restriction":false},"short-container-title":["Algorithms Mol Biol"],"published-print":{"date-parts":[[2009,12]]},"abstract":"<jats:title>Abstract<\/jats:title>\n          <jats:sec>\n            <jats:title>Background<\/jats:title>\n            <jats:p>The identification of chromosomal homologous segments (CHS) within and between genomes is essential for comparative genomics. Various processes including insertion\/deletion and inversion could cause the degeneration of CHSs.<\/jats:p>\n          <\/jats:sec>\n          <jats:sec>\n            <jats:title>Results<\/jats:title>\n            <jats:p>Here we present a Java software CHSMiner that detects CHSs based on shared gene content alone. It implements fast greedy search algorithm and rigorous statistical validation, and its friendly graphical interface allows interactive visualization of the results. We tested the software on both simulated and biological realistic data and compared its performance with similar existing software and data source.<\/jats:p>\n          <\/jats:sec>\n          <jats:sec>\n            <jats:title>Conclusion<\/jats:title>\n            <jats:p>CHSMiner is characterized by its integrated workflow, fast speed and convenient usage. It will be useful for both experimentalists and bioinformaticians interested in the structure and evolution of genomes.<\/jats:p>\n          <\/jats:sec>","DOI":"10.1186\/1748-7188-4-2","type":"journal-article","created":{"date-parts":[[2009,1,15]],"date-time":"2009-01-15T19:14:06Z","timestamp":1232046846000},"update-policy":"http:\/\/dx.doi.org\/10.1007\/springer_crossmark_policy","source":"Crossref","is-referenced-by-count":10,"title":["CHSMiner: a GUI tool to identify chromosomal homologous segments"],"prefix":"10.1186","volume":"4","author":[{"given":"Zhen","family":"Wang","sequence":"first","affiliation":[],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Guohui","family":"Ding","sequence":"additional","affiliation":[],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Zhonghao","family":"Yu","sequence":"additional","affiliation":[],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Lei","family":"Liu","sequence":"additional","affiliation":[],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Yixue","family":"Li","sequence":"additional","affiliation":[],"role":[{"role":"author","vocabulary":"crossref"}]}],"member":"297","published-online":{"date-parts":[[2009,1,15]]},"reference":[{"key":"59_CR1","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 Everts-van der A, Bourque G, Tesler G, Auvil L, Beever JE, Chowdhary BP, Galibert F, Gatzke L: Dynamics of mammalian chromosome evolution inferred from multispecies comparative maps. Science. 2005, 309: 613-617.","journal-title":"Science"},{"key":"59_CR2","doi-asserted-by":"publisher","first-page":"752","DOI":"10.1038\/nrg1449","volume":"5","author":"Y Van de Peer","year":"2004","unstructured":"Peer Van de Y: Computational approaches to unveiling ancient genome duplications. Nat Rev Genet. 2004, 5: 752-763.","journal-title":"Nat Rev Genet"},{"key":"59_CR3","doi-asserted-by":"publisher","first-page":"1225","DOI":"10.1002\/bies.20127","volume":"26","author":"C Simillion","year":"2004","unstructured":"Simillion C, Vandepoele K, Peer Van de Y: Recent developments in computational approaches for uncovering genomic homology. 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