{"id":"https://openalex.org/W2160030720","doi":"https://doi.org/10.1093/bioinformatics/btt150","title":"<i>MCScanX-transposed</i>: detecting transposed gene duplications based on multiple colinearity scans","display_name":"<i>MCScanX-transposed</i>: detecting transposed gene duplications based on multiple colinearity scans","publication_year":2013,"publication_date":"2013-03-28","ids":{"openalex":"https://openalex.org/W2160030720","doi":"https://doi.org/10.1093/bioinformatics/btt150","mag":"2160030720","pmid":"https://pubmed.ncbi.nlm.nih.gov/23539305"},"language":"en","primary_location":{"id":"doi:10.1093/bioinformatics/btt150","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bioinformatics/btt150","pdf_url":"https://academic.oup.com/bioinformatics/article-pdf/29/11/1458/50701027/bioinformatics_29_11_1458.pdf","source":{"id":"https://openalex.org/S52395412","display_name":"Bioinformatics","issn_l":"1367-4803","issn":["1367-4803","1367-4811"],"is_oa":false,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310311648","host_organization_name":"Oxford University Press","host_organization_lineage":["https://openalex.org/P4310311648","https://openalex.org/P4310311647"],"host_organization_lineage_names":["Oxford University Press","University of Oxford"],"type":"journal"},"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Bioinformatics","raw_type":"journal-article"},"type":"article","indexed_in":["crossref","doaj","pubmed"],"open_access":{"is_oa":true,"oa_status":"bronze","oa_url":"https://academic.oup.com/bioinformatics/article-pdf/29/11/1458/50701027/bioinformatics_29_11_1458.pdf","any_repository_has_fulltext":false},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5100379840","display_name":"Yupeng Wang","orcid":"https://orcid.org/0000-0002-3002-8069"},"institutions":[{"id":"https://openalex.org/I205783295","display_name":"Cornell University","ror":"https://ror.org/05bnh6r87","country_code":"US","type":"education","lineage":["https://openalex.org/I205783295"]},{"id":"https://openalex.org/I165733156","display_name":"University of Georgia","ror":"https://ror.org/00te3t702","country_code":"US","type":"education","lineage":["https://openalex.org/I165733156"]}],"countries":["US"],"is_corresponding":true,"raw_author_name":"Yupeng Wang","raw_affiliation_strings":["1 Plant Genome Mapping Laboratory, University of Georgia, Athens, GA 30602 and 2Computational Biology Service Unit, Cornell University, Ithaca, NY 14853, USA"],"affiliations":[{"raw_affiliation_string":"1 Plant Genome Mapping Laboratory, University of Georgia, Athens, GA 30602 and 2Computational Biology Service Unit, Cornell University, Ithaca, NY 14853, USA","institution_ids":["https://openalex.org/I165733156","https://openalex.org/I205783295"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5103002017","display_name":"Jingping Li","orcid":"https://orcid.org/0000-0003-4968-2615"},"institutions":[{"id":"https://openalex.org/I205783295","display_name":"Cornell University","ror":"https://ror.org/05bnh6r87","country_code":"US","type":"education","lineage":["https://openalex.org/I205783295"]},{"id":"https://openalex.org/I165733156","display_name":"University of Georgia","ror":"https://ror.org/00te3t702","country_code":"US","type":"education","lineage":["https://openalex.org/I165733156"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Jingping Li","raw_affiliation_strings":["1 Plant Genome Mapping Laboratory, University of Georgia, Athens, GA 30602 and 2Computational Biology Service Unit, Cornell University, Ithaca, NY 14853, USA"],"affiliations":[{"raw_affiliation_string":"1 Plant Genome Mapping Laboratory, University of Georgia, Athens, GA 30602 and 2Computational Biology Service Unit, Cornell University, Ithaca, NY 14853, USA","institution_ids":["https://openalex.org/I165733156","https://openalex.org/I205783295"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5024340880","display_name":"Andrew H. Paterson","orcid":"https://orcid.org/0000-0003-2159-0487"},"institutions":[{"id":"https://openalex.org/I165733156","display_name":"University of Georgia","ror":"https://ror.org/00te3t702","country_code":"US","type":"education","lineage":["https://openalex.org/I165733156"]},{"id":"https://openalex.org/I205783295","display_name":"Cornell University","ror":"https://ror.org/05bnh6r87","country_code":"US","type":"education","lineage":["https://openalex.org/I205783295"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Andrew H. Paterson","raw_affiliation_strings":["1 Plant Genome Mapping Laboratory, University of Georgia, Athens, GA 30602 and 2Computational Biology Service Unit, Cornell University, Ithaca, NY 14853, USA"],"affiliations":[{"raw_affiliation_string":"1 Plant Genome Mapping Laboratory, University of Georgia, Athens, GA 30602 and 2Computational Biology Service Unit, Cornell University, Ithaca, NY 14853, USA","institution_ids":["https://openalex.org/I165733156","https://openalex.org/I205783295"]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":3,"corresponding_author_ids":["https://openalex.org/A5100379840"],"corresponding_institution_ids":["https://openalex.org/I165733156","https://openalex.org/I205783295"],"apc_list":{"value":3618,"currency":"USD","value_usd":3618},"apc_paid":null,"fwci":1.1979,"has_fulltext":true,"cited_by_count":205,"citation_normalized_percentile":{"value":0.79164107,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":{"min":89,"max":100},"biblio":{"volume":"29","issue":"11","first_page":"1458","last_page":"1460"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T10015","display_name":"Genomics and Phylogenetic Studies","score":0.9995999932289124,"subfield":{"id":"https://openalex.org/subfields/1312","display_name":"Molecular Biology"},"field":{"id":"https://openalex.org/fields/13","display_name":"Biochemistry, Genetics and Molecular Biology"},"domain":{"id":"https://openalex.org/domains/1","display_name":"Life Sciences"}},"topics":[{"id":"https://openalex.org/T10015","display_name":"Genomics and Phylogenetic Studies","score":0.9995999932289124,"subfield":{"id":"https://openalex.org/subfields/1312","display_name":"Molecular Biology"},"field":{"id":"https://openalex.org/fields/13","display_name":"Biochemistry, Genetics and Molecular Biology"},"domain":{"id":"https://openalex.org/domains/1","display_name":"Life Sciences"}},{"id":"https://openalex.org/T10434","display_name":"Chromosomal and Genetic Variations","score":0.9988999962806702,"subfield":{"id":"https://openalex.org/subfields/1110","display_name":"Plant Science"},"field":{"id":"https://openalex.org/fields/11","display_name":"Agricultural and Biological Sciences"},"domain":{"id":"https://openalex.org/domains/1","display_name":"Life Sciences"}},{"id":"https://openalex.org/T12858","display_name":"Plant Disease Resistance and Genetics","score":0.9923999905586243,"subfield":{"id":"https://openalex.org/subfields/1110","display_name":"Plant Science"},"field":{"id":"https://openalex.org/fields/11","display_name":"Agricultural and Biological Sciences"},"domain":{"id":"https://openalex.org/domains/1","display_name":"Life Sciences"}}],"keywords":[{"id":"https://openalex.org/keywords/gene-duplication","display_name":"Gene duplication","score":0.6010347604751587},{"id":"https://openalex.org/keywords/biology","display_name":"Biology","score":0.49322599172592163},{"id":"https://openalex.org/keywords/computational-biology","display_name":"Computational biology","score":0.48705556988716125},{"id":"https://openalex.org/keywords/gene","display_name":"Gene","score":0.4760268032550812},{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.47146064043045044},{"id":"https://openalex.org/keywords/genetics","display_name":"Genetics","score":0.4030993580818176}],"concepts":[{"id":"https://openalex.org/C7602840","wikidata":"https://www.wikidata.org/wiki/Q746284","display_name":"Gene duplication","level":3,"score":0.6010347604751587},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.49322599172592163},{"id":"https://openalex.org/C70721500","wikidata":"https://www.wikidata.org/wiki/Q177005","display_name":"Computational biology","level":1,"score":0.48705556988716125},{"id":"https://openalex.org/C104317684","wikidata":"https://www.wikidata.org/wiki/Q7187","display_name":"Gene","level":2,"score":0.4760268032550812},{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.47146064043045044},{"id":"https://openalex.org/C54355233","wikidata":"https://www.wikidata.org/wiki/Q7162","display_name":"Genetics","level":1,"score":0.4030993580818176}],"mesh":[{"descriptor_ui":"D000465","descriptor_name":"Algorithms","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D000465","descriptor_name":"Algorithms","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D000465","descriptor_name":"Algorithms","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D012984","descriptor_name":"Software","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D012984","descriptor_name":"Software","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D012984","descriptor_name":"Software","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D019143","descriptor_name":"Evolution, Molecular","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D019143","descriptor_name":"Evolution, Molecular","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D019143","descriptor_name":"Evolution, Molecular","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D020440","descriptor_name":"Gene Duplication","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D020440","descriptor_name":"Gene Duplication","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D020440","descriptor_name":"Gene Duplication","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D023281","descriptor_name":"Genomics","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D023281","descriptor_name":"Genomics","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D023281","descriptor_name":"Genomics","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false}],"locations_count":2,"locations":[{"id":"doi:10.1093/bioinformatics/btt150","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bioinformatics/btt150","pdf_url":"https://academic.oup.com/bioinformatics/article-pdf/29/11/1458/50701027/bioinformatics_29_11_1458.pdf","source":{"id":"https://openalex.org/S52395412","display_name":"Bioinformatics","issn_l":"1367-4803","issn":["1367-4803","1367-4811"],"is_oa":false,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310311648","host_organization_name":"Oxford University Press","host_organization_lineage":["https://openalex.org/P4310311648","https://openalex.org/P4310311647"],"host_organization_lineage_names":["Oxford University Press","University of Oxford"],"type":"journal"},"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Bioinformatics","raw_type":"journal-article"},{"id":"pmid:23539305","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/23539305","pdf_url":null,"source":{"id":"https://openalex.org/S4306525036","display_name":"PubMed","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I1299303238","host_organization_name":"National Institutes of Health","host_organization_lineage":["https://openalex.org/I1299303238"],"host_organization_lineage_names":[],"type":"repository"},"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Bioinformatics (Oxford, England)","raw_type":null}],"best_oa_location":{"id":"doi:10.1093/bioinformatics/btt150","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bioinformatics/btt150","pdf_url":"https://academic.oup.com/bioinformatics/article-pdf/29/11/1458/50701027/bioinformatics_29_11_1458.pdf","source":{"id":"https://openalex.org/S52395412","display_name":"Bioinformatics","issn_l":"1367-4803","issn":["1367-4803","1367-4811"],"is_oa":false,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310311648","host_organization_name":"Oxford University Press","host_organization_lineage":["https://openalex.org/P4310311648","https://openalex.org/P4310311647"],"host_organization_lineage_names":["Oxford University Press","University of Oxford"],"type":"journal"},"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Bioinformatics","raw_type":"journal-article"},"sustainable_development_goals":[],"awards":[{"id":"https://openalex.org/G1273185741","display_name":"Arabidopsis 2010:   Collaborative Research:   Evolution of gene position and function in Arabidopsis using outgroup genomes","funder_award_id":"0821096","funder_id":"https://openalex.org/F4320306076","funder_display_name":"National Science Foundation"},{"id":"https://openalex.org/G1743502439","display_name":null,"funder_award_id":"MCB 0821096","funder_id":"https://openalex.org/F4320306076","funder_display_name":"National Science Foundation"},{"id":"https://openalex.org/G2779850628","display_name":null,"funder_award_id":"10217","funder_id":"https://openalex.org/F4320306076","funder_display_name":"National Science Foundation"},{"id":"https://openalex.org/G3575329826","display_name":"Adapting to a Duplicated Genome","funder_award_id":"1021718","funder_id":"https://openalex.org/F4320306076","funder_display_name":"National Science Foundation"},{"id":"https://openalex.org/G3691468463","display_name":null,"funder_award_id":"DBI 0849896","funder_id":"https://openalex.org/F4320306076","funder_display_name":"National Science Foundation"},{"id":"https://openalex.org/G848032724","display_name":null,"funder_award_id":"Science","funder_id":"https://openalex.org/F4320306076","funder_display_name":"National Science Foundation"},{"id":"https://openalex.org/G8634654565","display_name":null,"funder_award_id":"MCB 1021718","funder_id":"https://openalex.org/F4320306076","funder_display_name":"National Science Foundation"}],"funders":[{"id":"https://openalex.org/F4320306076","display_name":"National Science Foundation","ror":"https://ror.org/021nxhr62"},{"id":"https://openalex.org/F4320334074","display_name":"Georgia Advanced Computing Resource Center, University of Georgia","ror":null}],"has_content":{"grobid_xml":true,"pdf":true},"content_urls":{"pdf":"https://content.openalex.org/works/W2160030720.pdf","grobid_xml":"https://content.openalex.org/works/W2160030720.grobid-xml"},"referenced_works_count":18,"referenced_works":["https://openalex.org/W1907806866","https://openalex.org/W2020134788","https://openalex.org/W2022764347","https://openalex.org/W2056871145","https://openalex.org/W2057857382","https://openalex.org/W2084250422","https://openalex.org/W2094237369","https://openalex.org/W2097460046","https://openalex.org/W2102881062","https://openalex.org/W2107079849","https://openalex.org/W2113102777","https://openalex.org/W2126498993","https://openalex.org/W2135123683","https://openalex.org/W2136383371","https://openalex.org/W2161988890","https://openalex.org/W3180274570","https://openalex.org/W4229487902","https://openalex.org/W6639969845"],"related_works":["https://openalex.org/W2082860237","https://openalex.org/W2119695867","https://openalex.org/W2130076355","https://openalex.org/W1990804418","https://openalex.org/W2304205445","https://openalex.org/W2050456981","https://openalex.org/W1912284124","https://openalex.org/W3025364102","https://openalex.org/W3127109662","https://openalex.org/W2034625591"],"abstract_inverted_index":{"Supplementary":[0],"data":[1],"are":[2],"available":[3],"at":[4],"Bioinformatics":[5],"online.":[6]},"counts_by_year":[{"year":2026,"cited_by_count":10},{"year":2025,"cited_by_count":24},{"year":2024,"cited_by_count":38},{"year":2023,"cited_by_count":27},{"year":2022,"cited_by_count":35},{"year":2021,"cited_by_count":24},{"year":2020,"cited_by_count":17},{"year":2019,"cited_by_count":9},{"year":2018,"cited_by_count":10},{"year":2017,"cited_by_count":3},{"year":2016,"cited_by_count":3},{"year":2015,"cited_by_count":4},{"year":2013,"cited_by_count":1}],"updated_date":"2026-04-15T08:11:43.952461","created_date":"2016-06-24T00:00:00"}
