{"id":"https://openalex.org/W3160029165","doi":"https://doi.org/10.3390/a14050152","title":"Predicting the Evolution of Syntenies\u2014An Algorithmic Review","display_name":"Predicting the Evolution of Syntenies\u2014An Algorithmic Review","publication_year":2021,"publication_date":"2021-05-11","ids":{"openalex":"https://openalex.org/W3160029165","doi":"https://doi.org/10.3390/a14050152","mag":"3160029165"},"language":"en","primary_location":{"id":"doi:10.3390/a14050152","is_oa":true,"landing_page_url":"https://doi.org/10.3390/a14050152","pdf_url":"https://www.mdpi.com/1999-4893/14/5/152/pdf?version=1620875436","source":{"id":"https://openalex.org/S190629608","display_name":"Algorithms","issn_l":"1999-4893","issn":["1999-4893"],"is_oa":true,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310310987","host_organization_name":"Multidisciplinary Digital Publishing Institute","host_organization_lineage":["https://openalex.org/P4310310987"],"host_organization_lineage_names":["Multidisciplinary Digital Publishing Institute"],"type":"journal"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Algorithms","raw_type":"journal-article"},"type":"article","indexed_in":["crossref","doaj"],"open_access":{"is_oa":true,"oa_status":"gold","oa_url":"https://www.mdpi.com/1999-4893/14/5/152/pdf?version=1620875436","any_repository_has_fulltext":true},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5041470344","display_name":"Nadia El-Mabrouk","orcid":"https://orcid.org/0000-0002-5385-1015"},"institutions":[{"id":"https://openalex.org/I70931966","display_name":"Universit\u00e9 de Montr\u00e9al","ror":"https://ror.org/0161xgx34","country_code":"CA","type":"education","lineage":["https://openalex.org/I70931966"]}],"countries":["CA"],"is_corresponding":true,"raw_author_name":"Nadia El-Mabrouk","raw_affiliation_strings":["D\u00e9partement d\u2019Informatique et de Recherche Op\u00e9rationnelle, Universit\u00e9 de Montr\u00e9al, CP 6128 succ Centre-Ville, Montreal, QC H3C 3J7, Canada"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"D\u00e9partement d\u2019Informatique et de Recherche Op\u00e9rationnelle, Universit\u00e9 de Montr\u00e9al, CP 6128 succ Centre-Ville, Montreal, QC H3C 3J7, Canada","institution_ids":["https://openalex.org/I70931966"]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":1,"corresponding_author_ids":["https://openalex.org/A5041470344"],"corresponding_institution_ids":["https://openalex.org/I70931966"],"apc_list":{"value":1600,"currency":"CHF","value_usd":1782},"apc_paid":{"value":1600,"currency":"CHF","value_usd":1782},"fwci":1.0602,"has_fulltext":false,"cited_by_count":8,"citation_normalized_percentile":{"value":0.78185151,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":{"min":89,"max":98},"biblio":{"volume":"14","issue":"5","first_page":"152","last_page":"152"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T13664","display_name":"Genome Rearrangement Algorithms","score":0.9991999864578247,"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"}},"topics":[{"id":"https://openalex.org/T13664","display_name":"Genome Rearrangement Algorithms","score":0.9991999864578247,"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/T10015","display_name":"Genomics and Phylogenetic Studies","score":0.9930999875068665,"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/T11617","display_name":"Enzyme Production and Characterization","score":0.9663000106811523,"subfield":{"id":"https://openalex.org/subfields/1305","display_name":"Biotechnology"},"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"}}],"keywords":[{"id":"https://openalex.org/keywords/gene","display_name":"Gene","score":0.704504132270813},{"id":"https://openalex.org/keywords/gene-duplication","display_name":"Gene duplication","score":0.5791647434234619},{"id":"https://openalex.org/keywords/gene-family","display_name":"Gene family","score":0.5649380683898926},{"id":"https://openalex.org/keywords/generalization","display_name":"Generalization","score":0.5286092162132263},{"id":"https://openalex.org/keywords/extant-taxon","display_name":"Extant taxon","score":0.5162879824638367},{"id":"https://openalex.org/keywords/biology","display_name":"Biology","score":0.499981164932251},{"id":"https://openalex.org/keywords/similarity","display_name":"Similarity (geometry)","score":0.4768330156803131},{"id":"https://openalex.org/keywords/order","display_name":"Order (exchange)","score":0.46988916397094727},{"id":"https://openalex.org/keywords/tree","display_name":"Tree (set theory)","score":0.4403063952922821},{"id":"https://openalex.org/keywords/phylogenetic-tree","display_name":"Phylogenetic tree","score":0.4387741684913635},{"id":"https://openalex.org/keywords/genetics","display_name":"Genetics","score":0.43007442355155945},{"id":"https://openalex.org/keywords/computational-biology","display_name":"Computational biology","score":0.4184381365776062},{"id":"https://openalex.org/keywords/evolutionary-biology","display_name":"Evolutionary biology","score":0.40201354026794434},{"id":"https://openalex.org/keywords/genome","display_name":"Genome","score":0.31905820965766907},{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.31435656547546387},{"id":"https://openalex.org/keywords/artificial-intelligence","display_name":"Artificial intelligence","score":0.14296627044677734},{"id":"https://openalex.org/keywords/mathematics","display_name":"Mathematics","score":0.13051143288612366},{"id":"https://openalex.org/keywords/combinatorics","display_name":"Combinatorics","score":0.09454429149627686}],"concepts":[{"id":"https://openalex.org/C104317684","wikidata":"https://www.wikidata.org/wiki/Q7187","display_name":"Gene","level":2,"score":0.704504132270813},{"id":"https://openalex.org/C7602840","wikidata":"https://www.wikidata.org/wiki/Q746284","display_name":"Gene duplication","level":3,"score":0.5791647434234619},{"id":"https://openalex.org/C5911399","wikidata":"https://www.wikidata.org/wiki/Q2278983","display_name":"Gene family","level":4,"score":0.5649380683898926},{"id":"https://openalex.org/C177148314","wikidata":"https://www.wikidata.org/wiki/Q170084","display_name":"Generalization","level":2,"score":0.5286092162132263},{"id":"https://openalex.org/C178300618","wikidata":"https://www.wikidata.org/wiki/Q1898509","display_name":"Extant taxon","level":2,"score":0.5162879824638367},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.499981164932251},{"id":"https://openalex.org/C103278499","wikidata":"https://www.wikidata.org/wiki/Q254465","display_name":"Similarity (geometry)","level":3,"score":0.4768330156803131},{"id":"https://openalex.org/C182306322","wikidata":"https://www.wikidata.org/wiki/Q1779371","display_name":"Order (exchange)","level":2,"score":0.46988916397094727},{"id":"https://openalex.org/C113174947","wikidata":"https://www.wikidata.org/wiki/Q2859736","display_name":"Tree (set theory)","level":2,"score":0.4403063952922821},{"id":"https://openalex.org/C193252679","wikidata":"https://www.wikidata.org/wiki/Q242125","display_name":"Phylogenetic tree","level":3,"score":0.4387741684913635},{"id":"https://openalex.org/C54355233","wikidata":"https://www.wikidata.org/wiki/Q7162","display_name":"Genetics","level":1,"score":0.43007442355155945},{"id":"https://openalex.org/C70721500","wikidata":"https://www.wikidata.org/wiki/Q177005","display_name":"Computational biology","level":1,"score":0.4184381365776062},{"id":"https://openalex.org/C78458016","wikidata":"https://www.wikidata.org/wiki/Q840400","display_name":"Evolutionary biology","level":1,"score":0.40201354026794434},{"id":"https://openalex.org/C141231307","wikidata":"https://www.wikidata.org/wiki/Q7020","display_name":"Genome","level":3,"score":0.31905820965766907},{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.31435656547546387},{"id":"https://openalex.org/C154945302","wikidata":"https://www.wikidata.org/wiki/Q11660","display_name":"Artificial intelligence","level":1,"score":0.14296627044677734},{"id":"https://openalex.org/C33923547","wikidata":"https://www.wikidata.org/wiki/Q395","display_name":"Mathematics","level":0,"score":0.13051143288612366},{"id":"https://openalex.org/C114614502","wikidata":"https://www.wikidata.org/wiki/Q76592","display_name":"Combinatorics","level":1,"score":0.09454429149627686},{"id":"https://openalex.org/C134306372","wikidata":"https://www.wikidata.org/wiki/Q7754","display_name":"Mathematical analysis","level":1,"score":0.0},{"id":"https://openalex.org/C10138342","wikidata":"https://www.wikidata.org/wiki/Q43015","display_name":"Finance","level":1,"score":0.0},{"id":"https://openalex.org/C162324750","wikidata":"https://www.wikidata.org/wiki/Q8134","display_name":"Economics","level":0,"score":0.0},{"id":"https://openalex.org/C115961682","wikidata":"https://www.wikidata.org/wiki/Q860623","display_name":"Image (mathematics)","level":2,"score":0.0}],"mesh":[],"locations_count":3,"locations":[{"id":"doi:10.3390/a14050152","is_oa":true,"landing_page_url":"https://doi.org/10.3390/a14050152","pdf_url":"https://www.mdpi.com/1999-4893/14/5/152/pdf?version=1620875436","source":{"id":"https://openalex.org/S190629608","display_name":"Algorithms","issn_l":"1999-4893","issn":["1999-4893"],"is_oa":true,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310310987","host_organization_name":"Multidisciplinary Digital Publishing Institute","host_organization_lineage":["https://openalex.org/P4310310987"],"host_organization_lineage_names":["Multidisciplinary Digital Publishing Institute"],"type":"journal"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Algorithms","raw_type":"journal-article"},{"id":"pmh:oai:doaj.org/article:af7419aac2514dfeb84f317d21ab4a91","is_oa":true,"landing_page_url":"https://doaj.org/article/af7419aac2514dfeb84f317d21ab4a91","pdf_url":null,"source":{"id":"https://openalex.org/S4306401280","display_name":"DOAJ (DOAJ: Directory of Open Access Journals)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":null,"host_organization_name":null,"host_organization_lineage":[],"host_organization_lineage_names":[],"type":"repository"},"license":"cc-by-sa","license_id":"https://openalex.org/licenses/cc-by-sa","version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"Algorithms, Vol 14, Iss 5, p 152 (2021)","raw_type":"article"},{"id":"pmh:oai:mdpi.com:/1999-4893/14/5/152/","is_oa":true,"landing_page_url":"https://dx.doi.org/10.3390/a14050152","pdf_url":null,"source":{"id":"https://openalex.org/S4306400947","display_name":"MDPI (MDPI AG)","issn_l":null,"issn":null,"is_oa":true,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I4210097602","host_organization_name":"Multidisciplinary Digital Publishing Institute (Switzerland)","host_organization_lineage":["https://openalex.org/I4210097602"],"host_organization_lineage_names":[],"type":"repository"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"Algorithms; Volume 14; Issue 5; Pages: 152","raw_type":"Text"}],"best_oa_location":{"id":"doi:10.3390/a14050152","is_oa":true,"landing_page_url":"https://doi.org/10.3390/a14050152","pdf_url":"https://www.mdpi.com/1999-4893/14/5/152/pdf?version=1620875436","source":{"id":"https://openalex.org/S190629608","display_name":"Algorithms","issn_l":"1999-4893","issn":["1999-4893"],"is_oa":true,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310310987","host_organization_name":"Multidisciplinary Digital Publishing Institute","host_organization_lineage":["https://openalex.org/P4310310987"],"host_organization_lineage_names":["Multidisciplinary Digital Publishing Institute"],"type":"journal"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Algorithms","raw_type":"journal-article"},"sustainable_development_goals":[{"display_name":"Life in Land","id":"https://metadata.un.org/sdg/15","score":0.7400000095367432}],"awards":[],"funders":[{"id":"https://openalex.org/F4320334593","display_name":"Natural Sciences and Engineering Research Council of Canada","ror":"https://ror.org/01h531d29"}],"has_content":{"pdf":true,"grobid_xml":false},"content_urls":{"pdf":"https://content.openalex.org/works/W3160029165.pdf"},"referenced_works_count":145,"referenced_works":["https://openalex.org/W108028637","https://openalex.org/W157609093","https://openalex.org/W164099422","https://openalex.org/W170458380","https://openalex.org/W1137980060","https://openalex.org/W1154231003","https://openalex.org/W1494919299","https://openalex.org/W1495473427","https://openalex.org/W1516878686","https://openalex.org/W1517399014","https://openalex.org/W1517959117","https://openalex.org/W1538981962","https://openalex.org/W1553810969","https://openalex.org/W1572339952","https://openalex.org/W1590427239","https://openalex.org/W1780575089","https://openalex.org/W1848641690","https://openalex.org/W1918663757","https://openalex.org/W1963713243","https://openalex.org/W1964086051","https://openalex.org/W1964112927","https://openalex.org/W1968904197","https://openalex.org/W1970909551","https://openalex.org/W1972157500","https://openalex.org/W1972818612","https://openalex.org/W1978858440","https://openalex.org/W1983129102","https://openalex.org/W1985348819","https://openalex.org/W1985530443","https://openalex.org/W1986009232","https://openalex.org/W1987811475","https://openalex.org/W1989978323","https://openalex.org/W1991217882","https://openalex.org/W1992584622","https://openalex.org/W1993092519","https://openalex.org/W1997501731","https://openalex.org/W2011167904","https://openalex.org/W2016679861","https://openalex.org/W2019359462","https://openalex.org/W2022472106","https://openalex.org/W2024812560","https://openalex.org/W2032755410","https://openalex.org/W2034466254","https://openalex.org/W2041328910","https://openalex.org/W2041389612","https://openalex.org/W2043950637","https://openalex.org/W2044007697","https://openalex.org/W2047479519","https://openalex.org/W2049260160","https://openalex.org/W2051551591","https://openalex.org/W2061646232","https://openalex.org/W2064516600","https://openalex.org/W2065973977","https://openalex.org/W2078109763","https://openalex.org/W2079384285","https://openalex.org/W2088179629","https://openalex.org/W2090619251","https://openalex.org/W2095104721","https://openalex.org/W2096466922","https://openalex.org/W2102210316","https://openalex.org/W2103141682","https://openalex.org/W2103546861","https://openalex.org/W2113035810","https://openalex.org/W2113317197","https://openalex.org/W2116565399","https://openalex.org/W2117000771","https://openalex.org/W2118207809","https://openalex.org/W2118949423","https://openalex.org/W2124105487","https://openalex.org/W2124862004","https://openalex.org/W2130775582","https://openalex.org/W2131180151","https://openalex.org/W2132023322","https://openalex.org/W2132318428","https://openalex.org/W2132553324","https://openalex.org/W2133090982","https://openalex.org/W2135281627","https://openalex.org/W2135611147","https://openalex.org/W2139679291","https://openalex.org/W2140222156","https://openalex.org/W2140810179","https://openalex.org/W2144178222","https://openalex.org/W2144642668","https://openalex.org/W2144653577","https://openalex.org/W2145772946","https://openalex.org/W2146058063","https://openalex.org/W2147496016","https://openalex.org/W2148231054","https://openalex.org/W2149049580","https://openalex.org/W2149628296","https://openalex.org/W2151070329","https://openalex.org/W2151229046","https://openalex.org/W2152554673","https://openalex.org/W2156815152","https://openalex.org/W2157394198","https://openalex.org/W2159070430","https://openalex.org/W2159892619","https://openalex.org/W2160030720","https://openalex.org/W2160389343","https://openalex.org/W2165308125","https://openalex.org/W2166106146","https://openalex.org/W2168696662","https://openalex.org/W2169813053","https://openalex.org/W2169940135","https://openalex.org/W2174961330","https://openalex.org/W2234592502","https://openalex.org/W2248270393","https://openalex.org/W2326939325","https://openalex.org/W2340667260","https://openalex.org/W2341168710","https://openalex.org/W2383593302","https://openalex.org/W2577202510","https://openalex.org/W2593592813","https://openalex.org/W2593661024","https://openalex.org/W2607495137","https://openalex.org/W2618312940","https://openalex.org/W2763373928","https://openalex.org/W2767078779","https://openalex.org/W2767768606","https://openalex.org/W2773595093","https://openalex.org/W2777191074","https://openalex.org/W2799352212","https://openalex.org/W2883395410","https://openalex.org/W2890159479","https://openalex.org/W2890613572","https://openalex.org/W2937178077","https://openalex.org/W2940808208","https://openalex.org/W2962842745","https://openalex.org/W2976303698","https://openalex.org/W3013037082","https://openalex.org/W3022735613","https://openalex.org/W3023128033","https://openalex.org/W3090324809","https://openalex.org/W3101082440","https://openalex.org/W3106450156","https://openalex.org/W3174688402","https://openalex.org/W3182507784","https://openalex.org/W3183973818","https://openalex.org/W3210690626","https://openalex.org/W4210611525","https://openalex.org/W4231886136","https://openalex.org/W4237142329","https://openalex.org/W6606931827","https://openalex.org/W6680058235","https://openalex.org/W7049090446"],"related_works":["https://openalex.org/W3016239368","https://openalex.org/W1914610732","https://openalex.org/W3126460685","https://openalex.org/W3025364102","https://openalex.org/W2999254484","https://openalex.org/W2002623332","https://openalex.org/W3040603050","https://openalex.org/W1970221653","https://openalex.org/W2810780526","https://openalex.org/W4236246458"],"abstract_inverted_index":{"Syntenies":[0],"are":[1,62],"genomic":[2,70],"segments":[3,139],"of":[4,19,58,93,128,146,180,202,227],"consecutive":[5],"genes":[6,181],"identified":[7],"by":[8],"a":[9,44,76,81,192,196],"certain":[10,45,82],"conservation":[11,20],"in":[12,47,53,135,167],"gene":[13,33,36,48,83,136,143,153,175,193,242,245],"content":[14,166],"and":[15,35,50,155,195,220,236,244],"order.":[16,56],"The":[17],"notion":[18],"may":[21],"vary":[22],"from":[23,75,111,182],"one":[24,183],"definition":[25],"to":[26,67,96,103,115,152,185,214,217,221],"another,":[27],"the":[28,54,59,64,105,112,116,126,133,141,149,178,188,200,215,228],"more":[29,39],"constrained":[30],"requiring":[31],"identical":[32],"contents":[34],"orders,":[37],"while":[38],"relaxed":[40],"definitions":[41],"just":[42],"require":[43],"similarity":[46],"content,":[49,144],"not":[51],"necessarily":[52],"same":[55,142],"Regardless":[57],"way":[60],"they":[61],"identified,":[63],"goal":[65],"is":[66,100],"characterize":[68],"homologous":[69],"regions,":[71],"i.e.,":[72,177],"regions":[73],"deriving":[74],"common":[77],"ancestral":[78,113,234],"region,":[79],"reflecting":[80],"co-evolution":[84],"that":[85,108],"can":[86],"enlighten":[87],"important":[88],"functional":[89],"properties.":[90],"In":[91,119],"addition":[92],"being":[94],"able":[95],"identify":[97],"them,":[98],"it":[99],"also":[101,159],"necessary":[102],"infer":[104],"evolutionary":[106,150],"history":[107],"has":[109,211],"led":[110],"segment":[114],"extant":[117],"ones.":[118],"this":[120],"field,":[121],"most":[122],"algorithmic":[123,230],"studies":[124],"address":[125],"problem":[127,201],"inferring":[129,203,233],"rearrangement":[130],"scenarios":[131],"explaining":[132],"disruption":[134],"order":[137],"between":[138,191],"with":[140],"some":[145,226],"them":[147],"extending":[148],"model":[151],"insertion":[154],"deletion.":[156],"However,":[157],"syntenies":[158,235],"evolve":[160],"through":[161],"other":[162],"events":[163,205,219],"modifying":[164],"their":[165],"genes,":[168],"such":[169,204],"as":[170],"duplications,":[171],"losses":[172],"or":[173],"horizontal":[174],"transfers,":[176],"movement":[179],"species":[184,197],"another.":[186],"Although":[187],"reconciliation":[189],"approach":[190],"tree":[194,198],"addresses":[199],"for":[206,232],"single-gene":[207],"families,":[208],"little":[209],"effort":[210],"been":[212],"dedicated":[213],"generalization":[216],"segmental":[218],"syntenies.":[222],"This":[223],"paper":[224],"reviews":[225],"main":[229],"methods":[231],"focus":[237],"on":[238],"those":[239],"integrating":[240],"both":[241],"orders":[243],"trees.":[246]},"counts_by_year":[{"year":2025,"cited_by_count":3},{"year":2024,"cited_by_count":4},{"year":2022,"cited_by_count":1}],"updated_date":"2026-07-23T08:03:31.855105","created_date":"2025-10-10T00:00:00"}