{"id":"https://openalex.org/W2949149057","doi":"https://doi.org/10.1093/bioinformatics/bty415","title":"<i>geck</i> : trio-based comparative benchmarking of variant calls","display_name":"<i>geck</i> : trio-based comparative benchmarking of variant calls","publication_year":2018,"publication_date":"2018-05-22","ids":{"openalex":"https://openalex.org/W2949149057","doi":"https://doi.org/10.1093/bioinformatics/bty415","mag":"2949149057","pmid":"https://pubmed.ncbi.nlm.nih.gov/29850774"},"language":"en","primary_location":{"id":"doi:10.1093/bioinformatics/bty415","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bioinformatics/bty415","pdf_url":"https://academic.oup.com/bioinformatics/article-pdf/34/20/3488/26024345/bty415.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":"cc-by-nc","license_id":"https://openalex.org/licenses/cc-by-nc","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":"hybrid","oa_url":"https://academic.oup.com/bioinformatics/article-pdf/34/20/3488/26024345/bty415.pdf","any_repository_has_fulltext":true},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5050817848","display_name":"P\u00e9ter K\u00f3m\u00e1r","orcid":"https://orcid.org/0000-0003-2886-8568"},"institutions":[{"id":"https://openalex.org/I4210119359","display_name":"Seven Bridges Genomics (United States)","ror":"https://ror.org/02r7ybh06","country_code":"US","type":"company","lineage":["https://openalex.org/I4210119359"]}],"countries":["US"],"is_corresponding":true,"raw_author_name":"P\u00e9ter K\u00f3m\u00e1r","raw_affiliation_strings":["Seven Bridges Inc, Cambridge, MA, USA"],"affiliations":[{"raw_affiliation_string":"Seven Bridges Inc, Cambridge, MA, USA","institution_ids":["https://openalex.org/I4210119359"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5074493247","display_name":"Deniz Kural","orcid":"https://orcid.org/0000-0002-8085-0771"},"institutions":[],"countries":[],"is_corresponding":false,"raw_author_name":"Deniz Kural","raw_affiliation_strings":["Totient Inc, Cambridge, MA, USA"],"affiliations":[{"raw_affiliation_string":"Totient Inc, Cambridge, MA, USA","institution_ids":[]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":2,"corresponding_author_ids":["https://openalex.org/A5050817848"],"corresponding_institution_ids":["https://openalex.org/I4210119359"],"apc_list":{"value":3618,"currency":"USD","value_usd":3618},"apc_paid":{"value":3618,"currency":"USD","value_usd":3618},"fwci":1.0753,"has_fulltext":true,"cited_by_count":10,"citation_normalized_percentile":{"value":0.80965772,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":{"min":89,"max":97},"biblio":{"volume":"34","issue":"20","first_page":"3488","last_page":"3495"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T10012","display_name":"Genetic diversity and population structure","score":0.9976999759674072,"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/T10012","display_name":"Genetic diversity and population structure","score":0.9976999759674072,"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/T10261","display_name":"Genetic Associations and Epidemiology","score":0.9976000189781189,"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/T11468","display_name":"Genetic Mapping and Diversity in Plants and Animals","score":0.9970999956130981,"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"}}],"keywords":[{"id":"https://openalex.org/keywords/benchmarking","display_name":"Benchmarking","score":0.8667649626731873},{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.6831573843955994},{"id":"https://openalex.org/keywords/imputation","display_name":"Imputation (statistics)","score":0.5104974508285522},{"id":"https://openalex.org/keywords/python","display_name":"Python (programming language)","score":0.47089770436286926},{"id":"https://openalex.org/keywords/data-mining","display_name":"Data mining","score":0.46946680545806885},{"id":"https://openalex.org/keywords/precision-and-recall","display_name":"Precision and recall","score":0.46603721380233765},{"id":"https://openalex.org/keywords/probabilistic-logic","display_name":"Probabilistic logic","score":0.4251863360404968},{"id":"https://openalex.org/keywords/artificial-intelligence","display_name":"Artificial intelligence","score":0.3415377140045166},{"id":"https://openalex.org/keywords/machine-learning","display_name":"Machine learning","score":0.3000991940498352},{"id":"https://openalex.org/keywords/missing-data","display_name":"Missing data","score":0.13118648529052734}],"concepts":[{"id":"https://openalex.org/C86251818","wikidata":"https://www.wikidata.org/wiki/Q816754","display_name":"Benchmarking","level":2,"score":0.8667649626731873},{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.6831573843955994},{"id":"https://openalex.org/C58041806","wikidata":"https://www.wikidata.org/wiki/Q1660484","display_name":"Imputation (statistics)","level":3,"score":0.5104974508285522},{"id":"https://openalex.org/C519991488","wikidata":"https://www.wikidata.org/wiki/Q28865","display_name":"Python (programming language)","level":2,"score":0.47089770436286926},{"id":"https://openalex.org/C124101348","wikidata":"https://www.wikidata.org/wiki/Q172491","display_name":"Data mining","level":1,"score":0.46946680545806885},{"id":"https://openalex.org/C81669768","wikidata":"https://www.wikidata.org/wiki/Q2359161","display_name":"Precision and recall","level":2,"score":0.46603721380233765},{"id":"https://openalex.org/C49937458","wikidata":"https://www.wikidata.org/wiki/Q2599292","display_name":"Probabilistic logic","level":2,"score":0.4251863360404968},{"id":"https://openalex.org/C154945302","wikidata":"https://www.wikidata.org/wiki/Q11660","display_name":"Artificial intelligence","level":1,"score":0.3415377140045166},{"id":"https://openalex.org/C119857082","wikidata":"https://www.wikidata.org/wiki/Q2539","display_name":"Machine learning","level":1,"score":0.3000991940498352},{"id":"https://openalex.org/C9357733","wikidata":"https://www.wikidata.org/wiki/Q6878417","display_name":"Missing data","level":2,"score":0.13118648529052734},{"id":"https://openalex.org/C111919701","wikidata":"https://www.wikidata.org/wiki/Q9135","display_name":"Operating system","level":1,"score":0.0},{"id":"https://openalex.org/C162853370","wikidata":"https://www.wikidata.org/wiki/Q39809","display_name":"Marketing","level":1,"score":0.0},{"id":"https://openalex.org/C144133560","wikidata":"https://www.wikidata.org/wiki/Q4830453","display_name":"Business","level":0,"score":0.0}],"mesh":[{"descriptor_ui":"D005838","descriptor_name":"Genotype","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D005838","descriptor_name":"Genotype","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D005838","descriptor_name":"Genotype","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D016678","descriptor_name":"Genome","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D016678","descriptor_name":"Genome","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D016678","descriptor_name":"Genome","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D019985","descriptor_name":"Benchmarking","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D019985","descriptor_name":"Benchmarking","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D019985","descriptor_name":"Benchmarking","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D020641","descriptor_name":"Polymorphism, Single Nucleotide","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D020641","descriptor_name":"Polymorphism, Single Nucleotide","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D020641","descriptor_name":"Polymorphism, Single Nucleotide","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D059014","descriptor_name":"High-Throughput Nucleotide Sequencing","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D059014","descriptor_name":"High-Throughput Nucleotide Sequencing","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D059014","descriptor_name":"High-Throughput Nucleotide Sequencing","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false}],"locations_count":4,"locations":[{"id":"doi:10.1093/bioinformatics/bty415","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bioinformatics/bty415","pdf_url":"https://academic.oup.com/bioinformatics/article-pdf/34/20/3488/26024345/bty415.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":"cc-by-nc","license_id":"https://openalex.org/licenses/cc-by-nc","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Bioinformatics","raw_type":"journal-article"},{"id":"pmid:29850774","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/29850774","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},{"id":"pmh:oai:europepmc.org:5137015","is_oa":false,"landing_page_url":"http://europepmc.org/pmc/articles/PMC6184596","pdf_url":null,"source":{"id":"https://openalex.org/S4306400806","display_name":"Europe PMC (PubMed Central)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I1303153112","host_organization_name":"European Bioinformatics Institute","host_organization_lineage":["https://openalex.org/I1303153112"],"host_organization_lineage_names":[],"type":"repository"},"license":null,"license_id":null,"version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"","raw_type":"Text"},{"id":"pmh:oai:pubmedcentral.nih.gov:6184596","is_oa":true,"landing_page_url":"https://www.ncbi.nlm.nih.gov/pmc/articles/6184596","pdf_url":null,"source":{"id":"https://openalex.org/S2764455111","display_name":"PubMed Central","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":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"Bioinformatics","raw_type":"Text"}],"best_oa_location":{"id":"doi:10.1093/bioinformatics/bty415","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bioinformatics/bty415","pdf_url":"https://academic.oup.com/bioinformatics/article-pdf/34/20/3488/26024345/bty415.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":"cc-by-nc","license_id":"https://openalex.org/licenses/cc-by-nc","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Bioinformatics","raw_type":"journal-article"},"sustainable_development_goals":[{"score":0.4699999988079071,"id":"https://metadata.un.org/sdg/16","display_name":"Peace, Justice and strong institutions"}],"awards":[],"funders":[{"id":"https://openalex.org/F4320319994","display_name":"Department of Health and Social Care","ror":"https://ror.org/03sbpja79"}],"has_content":{"pdf":true,"grobid_xml":true},"content_urls":{"pdf":"https://content.openalex.org/works/W2949149057.pdf","grobid_xml":"https://content.openalex.org/works/W2949149057.grobid-xml"},"referenced_works_count":39,"referenced_works":["https://openalex.org/W963499106","https://openalex.org/W1579111454","https://openalex.org/W1919257374","https://openalex.org/W1963666037","https://openalex.org/W1996723946","https://openalex.org/W2015530630","https://openalex.org/W2017895692","https://openalex.org/W2031296193","https://openalex.org/W2043771791","https://openalex.org/W2061596350","https://openalex.org/W2076093244","https://openalex.org/W2076359272","https://openalex.org/W2090307617","https://openalex.org/W2091494564","https://openalex.org/W2096890220","https://openalex.org/W2103441770","https://openalex.org/W2104549677","https://openalex.org/W2113725057","https://openalex.org/W2114847949","https://openalex.org/W2119180969","https://openalex.org/W2119232685","https://openalex.org/W2145546981","https://openalex.org/W2146128933","https://openalex.org/W2147733682","https://openalex.org/W2150131459","https://openalex.org/W2154608513","https://openalex.org/W2155306111","https://openalex.org/W2158336776","https://openalex.org/W2168133698","https://openalex.org/W2190569576","https://openalex.org/W2230548884","https://openalex.org/W2522993044","https://openalex.org/W2590415818","https://openalex.org/W2791294221","https://openalex.org/W2951529834","https://openalex.org/W2952067146","https://openalex.org/W2952870794","https://openalex.org/W3098304617","https://openalex.org/W4249101476"],"related_works":["https://openalex.org/W4238897586","https://openalex.org/W435179959","https://openalex.org/W2619091065","https://openalex.org/W2059640416","https://openalex.org/W1490753184","https://openalex.org/W2284465472","https://openalex.org/W2291782699","https://openalex.org/W1993948687","https://openalex.org/W2000169967","https://openalex.org/W2112883198"],"abstract_inverted_index":{"Supplementary":[0],"data":[1],"are":[2],"available":[3],"at":[4],"Bioinformatics":[5],"online.":[6]},"counts_by_year":[{"year":2025,"cited_by_count":1},{"year":2024,"cited_by_count":1},{"year":2023,"cited_by_count":1},{"year":2022,"cited_by_count":1},{"year":2020,"cited_by_count":3},{"year":2019,"cited_by_count":2},{"year":2018,"cited_by_count":1}],"updated_date":"2025-11-23T05:10:03.516525","created_date":"2019-06-27T00:00:00"}
