{"id":"https://openalex.org/W2166603052","doi":"https://doi.org/10.1093/bioinformatics/btl513","title":"THOR: targeted high-throughput ortholog reconstructor","display_name":"THOR: targeted high-throughput ortholog reconstructor","publication_year":2006,"publication_date":"2006-10-11","ids":{"openalex":"https://openalex.org/W2166603052","doi":"https://doi.org/10.1093/bioinformatics/btl513","mag":"2166603052","pmid":"https://pubmed.ncbi.nlm.nih.gov/17038343"},"language":"en","primary_location":{"id":"doi:10.1093/bioinformatics/btl513","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bioinformatics/btl513","pdf_url":"https://academic.oup.com/bioinformatics/article-pdf/23/19/2622/49858069/bioinformatics_23_19_2622.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/23/19/2622/49858069/bioinformatics_23_19_2622.pdf","any_repository_has_fulltext":false},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5041647239","display_name":"Matthew N. Bainbridge","orcid":"https://orcid.org/0000-0003-3016-1545"},"institutions":[{"id":"https://openalex.org/I1289530486","display_name":"BC Cancer Agency","ror":"https://ror.org/03sfybe47","country_code":"CA","type":"healthcare","lineage":["https://openalex.org/I1289530486"]}],"countries":["CA"],"is_corresponding":true,"raw_author_name":"Matthew N. Bainbridge","raw_affiliation_strings":["British Columbia Cancer Agency (BCCA) Genome Sciences Centre, 675 West 10th Avenue, Vancouver, BC, Canada"],"affiliations":[{"raw_affiliation_string":"British Columbia Cancer Agency (BCCA) Genome Sciences Centre, 675 West 10th Avenue, Vancouver, BC, Canada","institution_ids":["https://openalex.org/I1289530486"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5102829017","display_name":"Ren\u00e9 L. Warren","orcid":"https://orcid.org/0000-0002-9890-2293"},"institutions":[{"id":"https://openalex.org/I1289530486","display_name":"BC Cancer Agency","ror":"https://ror.org/03sfybe47","country_code":"CA","type":"healthcare","lineage":["https://openalex.org/I1289530486"]}],"countries":["CA"],"is_corresponding":false,"raw_author_name":"Ren\u00e9 L. Warren","raw_affiliation_strings":["British Columbia Cancer Agency (BCCA) Genome Sciences Centre, 675 West 10th Avenue, Vancouver, BC, Canada"],"affiliations":[{"raw_affiliation_string":"British Columbia Cancer Agency (BCCA) Genome Sciences Centre, 675 West 10th Avenue, Vancouver, BC, Canada","institution_ids":["https://openalex.org/I1289530486"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5036020184","display_name":"Anyuan He","orcid":"https://orcid.org/0000-0002-2384-9731"},"institutions":[{"id":"https://openalex.org/I1289530486","display_name":"BC Cancer Agency","ror":"https://ror.org/03sfybe47","country_code":"CA","type":"healthcare","lineage":["https://openalex.org/I1289530486"]}],"countries":["CA"],"is_corresponding":false,"raw_author_name":"An He","raw_affiliation_strings":["British Columbia Cancer Agency (BCCA) Genome Sciences Centre, 675 West 10th Avenue, Vancouver, BC, Canada"],"affiliations":[{"raw_affiliation_string":"British Columbia Cancer Agency (BCCA) Genome Sciences Centre, 675 West 10th Avenue, Vancouver, BC, Canada","institution_ids":["https://openalex.org/I1289530486"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5011007639","display_name":"Mikhail Bilenky","orcid":null},"institutions":[{"id":"https://openalex.org/I1289530486","display_name":"BC Cancer Agency","ror":"https://ror.org/03sfybe47","country_code":"CA","type":"healthcare","lineage":["https://openalex.org/I1289530486"]}],"countries":["CA"],"is_corresponding":false,"raw_author_name":"Mikhail Bilenky","raw_affiliation_strings":["British Columbia Cancer Agency (BCCA) Genome Sciences Centre, 675 West 10th Avenue, Vancouver, BC, Canada"],"affiliations":[{"raw_affiliation_string":"British Columbia Cancer Agency (BCCA) Genome Sciences Centre, 675 West 10th Avenue, Vancouver, BC, Canada","institution_ids":["https://openalex.org/I1289530486"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5080866337","display_name":"A. Gordon Robertson","orcid":"https://orcid.org/0000-0002-2839-596X"},"institutions":[{"id":"https://openalex.org/I1289530486","display_name":"BC Cancer Agency","ror":"https://ror.org/03sfybe47","country_code":"CA","type":"healthcare","lineage":["https://openalex.org/I1289530486"]}],"countries":["CA"],"is_corresponding":false,"raw_author_name":"A. Gordon Robertson","raw_affiliation_strings":["British Columbia Cancer Agency (BCCA) Genome Sciences Centre, 675 West 10th Avenue, Vancouver, BC, Canada"],"affiliations":[{"raw_affiliation_string":"British Columbia Cancer Agency (BCCA) Genome Sciences Centre, 675 West 10th Avenue, Vancouver, BC, Canada","institution_ids":["https://openalex.org/I1289530486"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5100728059","display_name":"Steven J.M. Jones","orcid":"https://orcid.org/0000-0003-3394-2208"},"institutions":[{"id":"https://openalex.org/I1289530486","display_name":"BC Cancer Agency","ror":"https://ror.org/03sfybe47","country_code":"CA","type":"healthcare","lineage":["https://openalex.org/I1289530486"]}],"countries":["CA"],"is_corresponding":false,"raw_author_name":"Steven J.M. Jones","raw_affiliation_strings":["British Columbia Cancer Agency (BCCA) Genome Sciences Centre, 675 West 10th Avenue, Vancouver, BC, Canada"],"affiliations":[{"raw_affiliation_string":"British Columbia Cancer Agency (BCCA) Genome Sciences Centre, 675 West 10th Avenue, Vancouver, BC, Canada","institution_ids":["https://openalex.org/I1289530486"]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":6,"corresponding_author_ids":["https://openalex.org/A5041647239"],"corresponding_institution_ids":["https://openalex.org/I1289530486"],"apc_list":{"value":3618,"currency":"USD","value_usd":3618},"apc_paid":null,"fwci":0.2649,"has_fulltext":true,"cited_by_count":10,"citation_normalized_percentile":{"value":0.57875284,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":{"min":97,"max":98},"biblio":{"volume":"23","issue":"19","first_page":"2622","last_page":"2624"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T10015","display_name":"Genomics and Phylogenetic Studies","score":0.9998999834060669,"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":0.9998999834060669,"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/T10521","display_name":"RNA and protein synthesis mechanisms","score":0.9970999956130981,"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/T10222","display_name":"Genomics and Chromatin Dynamics","score":0.9969000220298767,"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"}}],"keywords":[{"id":"https://openalex.org/keywords/sequence","display_name":"Sequence (biology)","score":0.7540198564529419},{"id":"https://openalex.org/keywords/genome","display_name":"Genome","score":0.6927794218063354},{"id":"https://openalex.org/keywords/computational-biology","display_name":"Computational biology","score":0.6175416707992554},{"id":"https://openalex.org/keywords/throughput","display_name":"Throughput","score":0.6092202067375183},{"id":"https://openalex.org/keywords/biology","display_name":"Biology","score":0.5420485734939575},{"id":"https://openalex.org/keywords/set","display_name":"Set (abstract data type)","score":0.5399757027626038},{"id":"https://openalex.org/keywords/whole-genome-sequencing","display_name":"Whole genome sequencing","score":0.41697052121162415},{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.32489144802093506},{"id":"https://openalex.org/keywords/genetics","display_name":"Genetics","score":0.3180171251296997},{"id":"https://openalex.org/keywords/gene","display_name":"Gene","score":0.3127845525741577}],"concepts":[{"id":"https://openalex.org/C2778112365","wikidata":"https://www.wikidata.org/wiki/Q3511065","display_name":"Sequence (biology)","level":2,"score":0.7540198564529419},{"id":"https://openalex.org/C141231307","wikidata":"https://www.wikidata.org/wiki/Q7020","display_name":"Genome","level":3,"score":0.6927794218063354},{"id":"https://openalex.org/C70721500","wikidata":"https://www.wikidata.org/wiki/Q177005","display_name":"Computational biology","level":1,"score":0.6175416707992554},{"id":"https://openalex.org/C157764524","wikidata":"https://www.wikidata.org/wiki/Q1383412","display_name":"Throughput","level":3,"score":0.6092202067375183},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.5420485734939575},{"id":"https://openalex.org/C177264268","wikidata":"https://www.wikidata.org/wiki/Q1514741","display_name":"Set (abstract data type)","level":2,"score":0.5399757027626038},{"id":"https://openalex.org/C24432333","wikidata":"https://www.wikidata.org/wiki/Q2068526","display_name":"Whole genome sequencing","level":4,"score":0.41697052121162415},{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.32489144802093506},{"id":"https://openalex.org/C54355233","wikidata":"https://www.wikidata.org/wiki/Q7162","display_name":"Genetics","level":1,"score":0.3180171251296997},{"id":"https://openalex.org/C104317684","wikidata":"https://www.wikidata.org/wiki/Q7187","display_name":"Gene","level":2,"score":0.3127845525741577},{"id":"https://openalex.org/C76155785","wikidata":"https://www.wikidata.org/wiki/Q418","display_name":"Telecommunications","level":1,"score":0.0},{"id":"https://openalex.org/C199360897","wikidata":"https://www.wikidata.org/wiki/Q9143","display_name":"Programming language","level":1,"score":0.0},{"id":"https://openalex.org/C555944384","wikidata":"https://www.wikidata.org/wiki/Q249","display_name":"Wireless","level":2,"score":0.0}],"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":"D001483","descriptor_name":"Base Sequence","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D001483","descriptor_name":"Base Sequence","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D001483","descriptor_name":"Base Sequence","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D002874","descriptor_name":"Chromosome Mapping","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D002874","descriptor_name":"Chromosome Mapping","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D002874","descriptor_name":"Chromosome Mapping","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D006801","descriptor_name":"Humans","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D006801","descriptor_name":"Humans","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D006801","descriptor_name":"Humans","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D008969","descriptor_name":"Molecular Sequence Data","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D008969","descriptor_name":"Molecular Sequence Data","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D008969","descriptor_name":"Molecular Sequence Data","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D011381","descriptor_name":"Programming Languages","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D011381","descriptor_name":"Programming Languages","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D011381","descriptor_name":"Programming Languages","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D012689","descriptor_name":"Sequence Homology, Nucleic Acid","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D012689","descriptor_name":"Sequence Homology, Nucleic Acid","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D012689","descriptor_name":"Sequence Homology, Nucleic Acid","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":"D015894","descriptor_name":"Genome, Human","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D015894","descriptor_name":"Genome, Human","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D015894","descriptor_name":"Genome, Human","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D016415","descriptor_name":"Sequence Alignment","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D016415","descriptor_name":"Sequence Alignment","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D016415","descriptor_name":"Sequence Alignment","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D017422","descriptor_name":"Sequence Analysis, DNA","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D017422","descriptor_name":"Sequence Analysis, DNA","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D017422","descriptor_name":"Sequence Analysis, DNA","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D018390","descriptor_name":"Gene Targeting","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D018390","descriptor_name":"Gene Targeting","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D018390","descriptor_name":"Gene Targeting","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false}],"locations_count":2,"locations":[{"id":"doi:10.1093/bioinformatics/btl513","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bioinformatics/btl513","pdf_url":"https://academic.oup.com/bioinformatics/article-pdf/23/19/2622/49858069/bioinformatics_23_19_2622.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:17038343","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/17038343","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/btl513","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bioinformatics/btl513","pdf_url":"https://academic.oup.com/bioinformatics/article-pdf/23/19/2622/49858069/bioinformatics_23_19_2622.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":[{"display_name":"Life in Land","id":"https://metadata.un.org/sdg/15","score":0.5}],"awards":[],"funders":[{"id":"https://openalex.org/F4320310787","display_name":"Genome Canada","ror":"https://ror.org/029s29983"},{"id":"https://openalex.org/F4320319965","display_name":"Michael Smith Health Research BC","ror":"https://ror.org/020x39229"}],"has_content":{"pdf":true,"grobid_xml":true},"content_urls":{"pdf":"https://content.openalex.org/works/W2166603052.pdf","grobid_xml":"https://content.openalex.org/works/W2166603052.grobid-xml"},"referenced_works_count":7,"referenced_works":["https://openalex.org/W1841715584","https://openalex.org/W2057998009","https://openalex.org/W2121306329","https://openalex.org/W2138245520","https://openalex.org/W2147154551","https://openalex.org/W2161978970","https://openalex.org/W2162655752"],"related_works":["https://openalex.org/W2136583354","https://openalex.org/W2111238207","https://openalex.org/W2760721665","https://openalex.org/W2086525401","https://openalex.org/W2006735166","https://openalex.org/W2079327011","https://openalex.org/W2053325634","https://openalex.org/W330130819","https://openalex.org/W2152844235","https://openalex.org/W2376454312"],"abstract_inverted_index":{"Low-coverage":[0],"genomes":[1,18],"(LCGs)":[2],"are":[3],"becoming":[4],"an":[5],"increasingly":[6],"important":[7],"source":[8],"of":[9,16,37,48],"data":[10],"for":[11,34],"phylogenetic":[12],"studies.":[13],"However,":[14],"assembly":[15],"these":[17],"is":[19,29],"time":[20],"consuming,":[21],"difficult":[22],"and":[23,76],"lags":[24],"behind":[25],"sequence":[26,38,51],"generation.":[27],"THOR":[28,53],"a":[30,44],"fast,":[31],"stringent":[32],"application":[33],"targeted":[35],"reconstruction":[36,69],"orthologs":[39],"in":[40,64],"unassembled":[41],"LCGs.":[42],"Using":[43],"4x":[45],"coverage":[46],"set":[47],"mouse":[49],"whole-genome":[50],"reads,":[52],"could":[54],"partially":[55],"or":[56],"completely":[57],"reconstruct":[58],"416/1000":[59],"human":[60],"promoter":[61],"ortholog":[62],"regions":[63],"approximately":[65],"7.3":[66],"min/promoter.":[67],"THOR's":[68],"rate":[70],"improves":[71],"markedly":[72],"with":[73],"both":[74],"higher-coverage,":[75],"less":[77],"divergent":[78],"target":[79],"species.":[80]},"counts_by_year":[{"year":2012,"cited_by_count":5}],"updated_date":"2025-11-06T03:46:38.306776","created_date":"2025-10-10T00:00:00"}
