{"id":"https://openalex.org/W75669182","doi":null,"title":"Two Problems in Computational Genomics","display_name":"Two Problems in Computational Genomics","publication_year":2011,"publication_date":"2011-02-14","ids":{"openalex":"https://openalex.org/W75669182","mag":"75669182"},"language":"en","primary_location":{"id":"pmh:oai:CiteSeerX.psu:10.1.1.974.7521","doi":null,"is_oa":false,"landing_page_url":"http://citeseerx.ist.psu.edu/viewdoc/summary?doi=10.1.1.974.7521","pdf_url":null,"source":null,"license":null,"license_id":null,"version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"https://theses.lib.vt.edu/theses/available/etd-02262011-120333/unrestricted/Belal_NA_D_2011.pdf","raw_type":"text"},"volume":null,"type":"article","is_traditional":true,"indexed_in":[],"open_access":{"is_oa":false,"oa_status":"closed","oa_url":null,"any_repository_has_fulltext":false},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5029756985","display_name":"Nahla A. Belal","orcid":"https://orcid.org/0000-0001-5053-8739","observed_orcids":["https://orcid.org/0000-0001-5053-8739"]},"institutions":[],"countries":[],"is_corresponding":true,"raw_author_name":"Nahla A. Belal","raw_affiliation_strings":[],"raw_orcid":"https://orcid.org/0000-0001-5053-8739","affiliations":[]}],"institutions":[],"countries_distinct_count":0,"institutions_distinct_count":0,"corresponding_author_ids":["https://openalex.org/A5029756985"],"corresponding_institution_ids":[],"apc_list":null,"apc_paid":null,"fwci":0.0,"has_fulltext":false,"cited_by_count":0,"citation_normalized_percentile":{"value":0.00470998,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":null,"biblio":{"volume":null,"issue":null,"first_page":null,"last_page":null},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T10015","display_name":"Genomics and Phylogenetic Studies","score":0.5464000105857849,"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":0.5464000105857849,"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/T13664","display_name":"Genome Rearrangement Algorithms","score":0.4458000063896179,"subfield":{"id":"https://openalex.org/subfields/1311","display_name":"Genetics"},"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/T11269","display_name":"Algorithms and Data Compression","score":0.003000000026077032,"subfield":{"id":"https://openalex.org/subfields/2614","display_name":"Theoretical Computer Science"},"field":{"id":"https://openalex.org/fields/26","display_name":"Mathematics"},"domain":{"id":"https://openalex.org/domains/3","display_name":"Physical Sciences"}}],"keywords":[{"id":"https://openalex.org/keywords/whole-genome-alignment","display_name":"whole-genome alignment","score":0.9980000257492065},{"id":"https://openalex.org/keywords/horizontal-gene-transfer","display_name":"horizontal gene transfer","score":0.9629999995231628},{"id":"https://openalex.org/keywords/partial-orders","display_name":"partially ordered sets","score":0.8399999737739563},{"id":"https://openalex.org/keywords/np-completeness","display_name":"NP-completeness","score":0.968999981880188},{"id":"https://openalex.org/keywords/dynamic-programming-heuristic","display_name":"dynamic programming heuristic","score":0.7540000081062317},{"id":"https://openalex.org/keywords/greedy-algorithm","display_name":"greedy algorithm","score":0.890999972820282},{"id":"https://openalex.org/keywords/reversal","display_name":"reversal","score":0.746999979019165},{"id":"https://openalex.org/keywords/gene-trees","display_name":"gene trees","score":0.49000000953674316},{"id":"https://openalex.org/keywords/comparative-genomics","display_name":"comparative genomics","score":0.7070000171661377}],"concepts":[{"id":"https://openalex.org/C189206191","wikidata":"https://www.wikidata.org/wiki/Q222046","display_name":"Genomics","level":4,"score":0.6362805366516113},{"id":"https://openalex.org/C70721500","wikidata":"https://www.wikidata.org/wiki/Q177005","display_name":"Computational biology","level":1,"score":0.5938020348548889},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.42580878734588623},{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.39208245277404785},{"id":"https://openalex.org/C2522767166","wikidata":"https://www.wikidata.org/wiki/Q2374463","display_name":"Data science","level":1,"score":0.34841668605804443},{"id":"https://openalex.org/C54355233","wikidata":"https://www.wikidata.org/wiki/Q7162","display_name":"Genetics","level":1,"score":0.32190096378326416},{"id":"https://openalex.org/C141231307","wikidata":"https://www.wikidata.org/wiki/Q7020","display_name":"Genome","level":3,"score":0.18444666266441345},{"id":"https://openalex.org/C104317684","wikidata":"https://www.wikidata.org/wiki/Q7187","display_name":"Gene","level":2,"score":0.07214313745498657}],"mesh":[],"locations_count":3,"locations":[{"id":"pmh:oai:CiteSeerX.psu:10.1.1.974.7521","doi":null,"is_oa":false,"landing_page_url":"http://citeseerx.ist.psu.edu/viewdoc/summary?doi=10.1.1.974.7521","pdf_url":null,"source":null,"license":null,"license_id":null,"version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"https://theses.lib.vt.edu/theses/available/etd-02262011-120333/unrestricted/Belal_NA_D_2011.pdf","raw_type":"text"},{"id":"pmh:oai:vtechworks.lib.vt.edu:10919/26318","doi":null,"is_oa":false,"landing_page_url":"http://hdl.handle.net/10919/26318","pdf_url":null,"source":{"id":"https://openalex.org/S4306400248","display_name":"VTechWorks (Virginia Tech)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"listed_in":[],"host_organization":"https://openalex.org/I859038795","host_organization_name":"Virginia Tech","host_organization_lineage":["https://openalex.org/I859038795"],"host_organization_lineage_names":[],"type":"repository"},"license":null,"license_id":null,"version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":null,"raw_type":"Dissertation"},{"id":"mag:75669182","doi":null,"is_oa":false,"landing_page_url":"https://vtechworks.lib.vt.edu/handle/10919/26318","pdf_url":null,"source":null,"license":null,"license_id":null,"version":null,"is_accepted":false,"is_published":false,"raw_source_name":null,"raw_type":null}],"best_oa_location":null,"sustainable_development_goals":[],"study_designs":[],"awards":[],"funders":[],"has_content":{"grobid_xml":false,"pdf":false},"content_urls":null,"referenced_works_count":93,"referenced_works":["https://openalex.org/W573589039","https://openalex.org/W579549911","https://openalex.org/W1482360569","https://openalex.org/W1506631190","https://openalex.org/W1508575821","https://openalex.org/W1511559917","https://openalex.org/W1521833875","https://openalex.org/W1541557835","https://openalex.org/W1589530536","https://openalex.org/W1652298321","https://openalex.org/W1963760691","https://openalex.org/W1965914343","https://openalex.org/W1986137550","https://openalex.org/W1987542209","https://openalex.org/W1987643311","https://openalex.org/W1999199327","https://openalex.org/W2002252750","https://openalex.org/W2007447692","https://openalex.org/W2008386840","https://openalex.org/W2009570821","https://openalex.org/W2010178891","https://openalex.org/W2010275335","https://openalex.org/W2011039300","https://openalex.org/W2014149181","https://openalex.org/W2015732991","https://openalex.org/W2024811317","https://openalex.org/W2029832497","https://openalex.org/W2033850030","https://openalex.org/W2038434982","https://openalex.org/W2040745248","https://openalex.org/W2041024561","https://openalex.org/W2044992198","https://openalex.org/W2045403483","https://openalex.org/W2045765967","https://openalex.org/W2055043387","https://openalex.org/W2055298722","https://openalex.org/W2058014283","https://openalex.org/W2059103564","https://openalex.org/W2059805279","https://openalex.org/W2062354928","https://openalex.org/W2074231493","https://openalex.org/W2076523323","https://openalex.org/W2083354900","https://openalex.org/W2086449672","https://openalex.org/W2086915432","https://openalex.org/W2087064593","https://openalex.org/W2095824228","https://openalex.org/W2097054300","https://openalex.org/W2098816661","https://openalex.org/W2103485833","https://openalex.org/W2106882534","https://openalex.org/W2107282968","https://openalex.org/W2110291136","https://openalex.org/W2110887002","https://openalex.org/W2112132489","https://openalex.org/W2112780227","https://openalex.org/W2113824405","https://openalex.org/W2114058116","https://openalex.org/W2119595037","https://openalex.org/W2124817677","https://openalex.org/W2127421312","https://openalex.org/W2133783550","https://openalex.org/W2134424061","https://openalex.org/W2137296148","https://openalex.org/W2137441463","https://openalex.org/W2138369959","https://openalex.org/W2139636599","https://openalex.org/W2140698423","https://openalex.org/W2142268426","https://openalex.org/W2142385590","https://openalex.org/W2142795693","https://openalex.org/W2144866873","https://openalex.org/W2149628296","https://openalex.org/W2150917623","https://openalex.org/W2151043165","https://openalex.org/W2151229046","https://openalex.org/W2151443606","https://openalex.org/W2152331922","https://openalex.org/W2153928190","https://openalex.org/W2157914171","https://openalex.org/W2160522424","https://openalex.org/W2163059672","https://openalex.org/W2164755456","https://openalex.org/W2164786886","https://openalex.org/W2165686834","https://openalex.org/W2166718648","https://openalex.org/W2167673155","https://openalex.org/W2170945060","https://openalex.org/W2175953840","https://openalex.org/W2395351226","https://openalex.org/W3083083886","https://openalex.org/W7095603021","https://openalex.org/W7097764011"],"related_works":["https://openalex.org/W2266649130","https://openalex.org/W1985450615","https://openalex.org/W4285225080","https://openalex.org/W2607928097","https://openalex.org/W4360813093","https://openalex.org/W2059103564","https://openalex.org/W1912224565","https://openalex.org/W2294450475","https://openalex.org/W1492180884","https://openalex.org/W2119621847"],"abstract_inverted_index":{"This":[0,189],"work":[1,97,190],"addresses":[2],"two":[3,31],"novel":[4],"problems":[5,32],"in":[6,95,144],"the":[7,19,41,76,102,115,197],"field":[8],"of":[9,90,183],"computational":[10],"genomics.":[11],"The":[12,62,154],"first":[13],"is":[14,21,65,79,85,104,109],"whole":[15,42],"genome":[16,43],"alignment":[17,47],"and":[18,33,54,140,170],"second":[20],"inferring":[22,124],"horizontal":[23,125,145,184],"gene":[24,126,146,185],"transfer":[25,147],"using":[26],"posets.":[27],"We":[28],"define":[29,46,55,94,129],"these":[30],"present":[34],"algorithmic":[35],"approaches":[36],"for":[37,49,59,87,121,151,162,172,196,200],"solving":[38],"them.":[39],"For":[40,123],"alignment,":[44],"we":[45,93,128],"graphs":[48],"representing":[50],"different":[51,138,152],"evolutionary":[52],"events,":[53],"a":[56,80,88,105,160],"scoring":[57],"function":[58],"those":[60],"graphs.":[61],"problem":[63],"defined":[64],"proven":[66],"to":[67,74,137,158,178],"be":[68],"NP-complete.":[69],"Two":[70],"heuristics":[71],"are":[72,156,167,181],"presented":[73],"solve":[75],"problem,":[77],"one":[78],"dynamic":[81,116],"programming":[82,117],"approach":[83,107],"that":[84,92,108,180],"optimal":[86],"class":[89],"sequences":[91],"this":[96],"as":[98],"breakable":[99],"arrangements.":[100],"And,":[101],"other":[103],"greedy":[106],"not":[110],"necessarily":[111],"optimal,":[112],"however,":[113],"unlike":[114],"approach,":[118],"it":[119],"allows":[120],"reversals.":[122],"transfer,":[127],"partial":[130],"order":[131],"sets":[132],"among":[133],"species,":[134],"with":[135],"respect":[136],"genes,":[139],"infer":[141],"genes":[142,179],"involved":[143],"by":[148,193],"comparing":[149],"posets":[150,155],"genes.":[153],"used":[157],"construct":[159],"tree":[161],"each":[163],"gene.":[164],"Those":[165],"trees":[166,176],"then":[168],"compared":[169],"tested":[171],"contradiction,":[173],"where":[174],"contradictory":[175],"correspond":[177],"candidates":[182],"transfer.":[186],"GRANT":[187],"INFORMATION":[188],"was":[191],"supported":[192],"NSF-ITR":[194],"Grant-0428344":[195],"Computational":[198],"Models":[199],"Gene":[201],"Silencing":[202],"project.":[203]},"counts_by_year":[],"updated_date":"2026-11-04T10:54:05.112534","created_date":"2016-06-24T00:00:00"}