{"id":"https://openalex.org/W2513006861","doi":"https://doi.org/10.1093/bib/bbw072","title":"Benchmarking computational tools for polymorphic transposable element detection","display_name":"Benchmarking computational tools for polymorphic transposable element detection","publication_year":2016,"publication_date":"2016-08-14","ids":{"openalex":"https://openalex.org/W2513006861","doi":"https://doi.org/10.1093/bib/bbw072","mag":"2513006861","pmid":"https://pubmed.ncbi.nlm.nih.gov/27524380"},"language":"en","primary_location":{"id":"doi:10.1093/bib/bbw072","is_oa":false,"landing_page_url":"https://doi.org/10.1093/bib/bbw072","pdf_url":null,"source":{"id":"https://openalex.org/S91767247","display_name":"Briefings in Bioinformatics","issn_l":"1467-5463","issn":["1467-5463","1477-4054"],"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":"public-domain","license_id":"https://openalex.org/licenses/public-domain","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Briefings in Bioinformatics","raw_type":"journal-article"},"type":"article","indexed_in":["crossref","doaj","pubmed"],"open_access":{"is_oa":true,"oa_status":"green","oa_url":"http://europepmc.org/pmc/articles/PMC5808724","any_repository_has_fulltext":true},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5031916073","display_name":"Lavanya Rishishwar","orcid":"https://orcid.org/0000-0002-2055-9392"},"institutions":[{"id":"https://openalex.org/I130701444","display_name":"Georgia Institute of Technology","ror":"https://ror.org/01zkghx44","country_code":"US","type":"education","lineage":["https://openalex.org/I130701444"]},{"id":"https://openalex.org/I4210161795","display_name":"PanAmerican Bioinformatics Institute","ror":"https://ror.org/05p4yqc22","country_code":"CO","type":"education","lineage":["https://openalex.org/I4210161795"]}],"countries":["CO","US"],"is_corresponding":false,"raw_author_name":"Lavanya Rishishwar","raw_affiliation_strings":["Applied Bioinformatics Laboratory, Atlanta, GA, USA","BIOS Centro de Bioinform\u00e1tica y Biolog\u00eda Computacional, Manizales, Caldas, Colombia","PanAmerican Bioinformatics Institute, Cali, Valle del Cauca, Colombia","School of Biology, Georgia Institute of Technology, Atlanta, GA, USA"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Applied Bioinformatics Laboratory, Atlanta, GA, USA","institution_ids":[]},{"raw_affiliation_string":"BIOS Centro de Bioinform\u00e1tica y Biolog\u00eda Computacional, Manizales, Caldas, Colombia","institution_ids":[]},{"raw_affiliation_string":"PanAmerican Bioinformatics Institute, Cali, Valle del Cauca, Colombia","institution_ids":["https://openalex.org/I4210161795"]},{"raw_affiliation_string":"School of Biology, Georgia Institute of Technology, Atlanta, GA, USA","institution_ids":["https://openalex.org/I130701444"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5079340857","display_name":"Leonardo Mari\u00f1o\u2010Ram\u00edrez","orcid":"https://orcid.org/0000-0002-5716-8512"},"institutions":[{"id":"https://openalex.org/I1299303238","display_name":"National Institutes of Health","ror":"https://ror.org/01cwqze88","country_code":"US","type":"government","lineage":["https://openalex.org/I1299022934","https://openalex.org/I1299303238"]},{"id":"https://openalex.org/I4210109390","display_name":"National Center for Biotechnology Information","ror":"https://ror.org/02meqm098","country_code":"US","type":"facility","lineage":["https://openalex.org/I1299022934","https://openalex.org/I1299303238","https://openalex.org/I2800548410","https://openalex.org/I4210109390"]},{"id":"https://openalex.org/I4210161795","display_name":"PanAmerican Bioinformatics Institute","ror":"https://ror.org/05p4yqc22","country_code":"CO","type":"education","lineage":["https://openalex.org/I4210161795"]}],"countries":["CO","US"],"is_corresponding":true,"raw_author_name":"Leonardo Mari\u00f1o-Ram\u00edrez","raw_affiliation_strings":["National Center for Biotechnology Information, National Library of Medicine, National Institutes of Health, Bethesda, MD, USA","PanAmerican Bioinformatics Institute, Cali, Valle del Cauca, Colombia"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"National Center for Biotechnology Information, National Library of Medicine, National Institutes of Health, Bethesda, MD, USA","institution_ids":["https://openalex.org/I1299303238","https://openalex.org/I4210109390"]},{"raw_affiliation_string":"PanAmerican Bioinformatics Institute, Cali, Valle del Cauca, Colombia","institution_ids":["https://openalex.org/I4210161795"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5062048502","display_name":"I. King Jordan","orcid":"https://orcid.org/0000-0003-4996-2203"},"institutions":[{"id":"https://openalex.org/I130701444","display_name":"Georgia Institute of Technology","ror":"https://ror.org/01zkghx44","country_code":"US","type":"education","lineage":["https://openalex.org/I130701444"]},{"id":"https://openalex.org/I4210161795","display_name":"PanAmerican Bioinformatics Institute","ror":"https://ror.org/05p4yqc22","country_code":"CO","type":"education","lineage":["https://openalex.org/I4210161795"]}],"countries":["CO","US"],"is_corresponding":true,"raw_author_name":"I. King Jordan","raw_affiliation_strings":["Applied Bioinformatics Laboratory, Atlanta, GA, USA","BIOS Centro de Bioinform\u00e1tica y Biolog\u00eda Computacional, Manizales, Caldas, Colombia","PanAmerican Bioinformatics Institute, Cali, Valle del Cauca, Colombia","School of Biology, Georgia Institute of Technology, Atlanta, GA, USA"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Applied Bioinformatics Laboratory, Atlanta, GA, USA","institution_ids":[]},{"raw_affiliation_string":"BIOS Centro de Bioinform\u00e1tica y Biolog\u00eda Computacional, Manizales, Caldas, Colombia","institution_ids":[]},{"raw_affiliation_string":"PanAmerican Bioinformatics Institute, Cali, Valle del Cauca, Colombia","institution_ids":["https://openalex.org/I4210161795"]},{"raw_affiliation_string":"School of Biology, Georgia Institute of Technology, Atlanta, GA, USA","institution_ids":["https://openalex.org/I130701444"]}]}],"institutions":[],"countries_distinct_count":2,"institutions_distinct_count":4,"corresponding_author_ids":["https://openalex.org/A5062048502","https://openalex.org/A5079340857"],"corresponding_institution_ids":["https://openalex.org/I1299303238","https://openalex.org/I130701444","https://openalex.org/I4210109390","https://openalex.org/I4210161795"],"apc_list":{"value":4011,"currency":"USD","value_usd":4011},"apc_paid":null,"fwci":26.2895,"has_fulltext":false,"cited_by_count":83,"citation_normalized_percentile":{"value":0.99509261,"is_in_top_1_percent":true,"is_in_top_10_percent":true},"cited_by_percentile_year":{"min":94,"max":100},"biblio":{"volume":"18","issue":"6","first_page":"bbw072","last_page":"bbw072"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T10434","display_name":"Chromosomal and Genetic Variations","score":0.9997000098228455,"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"}},"topics":[{"id":"https://openalex.org/T10434","display_name":"Chromosomal and Genetic Variations","score":0.9997000098228455,"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/T10015","display_name":"Genomics and Phylogenetic Studies","score":0.9944999814033508,"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/T11213","display_name":"Genomic variations and chromosomal abnormalities","score":0.9850000143051147,"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":0.9402906894683838},{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.7109742760658264},{"id":"https://openalex.org/keywords/set","display_name":"Set (abstract data type)","score":0.5793241858482361},{"id":"https://openalex.org/keywords/pace","display_name":"Pace","score":0.5554568767547607},{"id":"https://openalex.org/keywords/human-genome","display_name":"Human genome","score":0.546265184879303},{"id":"https://openalex.org/keywords/data-mining","display_name":"Data mining","score":0.4269106388092041},{"id":"https://openalex.org/keywords/transposable-element","display_name":"Transposable element","score":0.424521267414093},{"id":"https://openalex.org/keywords/reliability","display_name":"Reliability (semiconductor)","score":0.4200015068054199},{"id":"https://openalex.org/keywords/genome","display_name":"Genome","score":0.35301512479782104},{"id":"https://openalex.org/keywords/genetics","display_name":"Genetics","score":0.1695379614830017},{"id":"https://openalex.org/keywords/biology","display_name":"Biology","score":0.1504247486591339},{"id":"https://openalex.org/keywords/gene","display_name":"Gene","score":0.10015973448753357}],"concepts":[{"id":"https://openalex.org/C86251818","wikidata":"https://www.wikidata.org/wiki/Q816754","display_name":"Benchmarking","level":2,"score":0.9402906894683838},{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.7109742760658264},{"id":"https://openalex.org/C177264268","wikidata":"https://www.wikidata.org/wiki/Q1514741","display_name":"Set (abstract data type)","level":2,"score":0.5793241858482361},{"id":"https://openalex.org/C2777526511","wikidata":"https://www.wikidata.org/wiki/Q691543","display_name":"Pace","level":2,"score":0.5554568767547607},{"id":"https://openalex.org/C197077220","wikidata":"https://www.wikidata.org/wiki/Q720988","display_name":"Human genome","level":4,"score":0.546265184879303},{"id":"https://openalex.org/C124101348","wikidata":"https://www.wikidata.org/wiki/Q172491","display_name":"Data mining","level":1,"score":0.4269106388092041},{"id":"https://openalex.org/C4918238","wikidata":"https://www.wikidata.org/wiki/Q121438","display_name":"Transposable element","level":4,"score":0.424521267414093},{"id":"https://openalex.org/C43214815","wikidata":"https://www.wikidata.org/wiki/Q7310987","display_name":"Reliability (semiconductor)","level":3,"score":0.4200015068054199},{"id":"https://openalex.org/C141231307","wikidata":"https://www.wikidata.org/wiki/Q7020","display_name":"Genome","level":3,"score":0.35301512479782104},{"id":"https://openalex.org/C54355233","wikidata":"https://www.wikidata.org/wiki/Q7162","display_name":"Genetics","level":1,"score":0.1695379614830017},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.1504247486591339},{"id":"https://openalex.org/C104317684","wikidata":"https://www.wikidata.org/wiki/Q7187","display_name":"Gene","level":2,"score":0.10015973448753357},{"id":"https://openalex.org/C121332964","wikidata":"https://www.wikidata.org/wiki/Q413","display_name":"Physics","level":0,"score":0.0},{"id":"https://openalex.org/C205649164","wikidata":"https://www.wikidata.org/wiki/Q1071","display_name":"Geography","level":0,"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/C13280743","wikidata":"https://www.wikidata.org/wiki/Q131089","display_name":"Geodesy","level":1,"score":0.0},{"id":"https://openalex.org/C62520636","wikidata":"https://www.wikidata.org/wiki/Q944","display_name":"Quantum mechanics","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},{"id":"https://openalex.org/C163258240","wikidata":"https://www.wikidata.org/wiki/Q25342","display_name":"Power (physics)","level":2,"score":0.0},{"id":"https://openalex.org/C199360897","wikidata":"https://www.wikidata.org/wiki/Q9143","display_name":"Programming language","level":1,"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":"D000465","descriptor_name":"Algorithms","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D004251","descriptor_name":"DNA Transposable Elements","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D004251","descriptor_name":"DNA Transposable Elements","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D004251","descriptor_name":"DNA Transposable Elements","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D004251","descriptor_name":"DNA Transposable Elements","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"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":"D006801","descriptor_name":"Humans","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":"D012984","descriptor_name":"Software","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D015894","descriptor_name":"Genome, Human","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D015894","descriptor_name":"Genome, Human","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D015894","descriptor_name":"Genome, Human","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D015894","descriptor_name":"Genome, Human","qualifier_ui":null,"qualifier_name":null,"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":"D017422","descriptor_name":"Sequence Analysis, DNA","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D019985","descriptor_name":"Benchmarking","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D019985","descriptor_name":"Benchmarking","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D019985","descriptor_name":"Benchmarking","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D019985","descriptor_name":"Benchmarking","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D020641","descriptor_name":"Polymorphism, Single Nucleotide","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D020641","descriptor_name":"Polymorphism, Single Nucleotide","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D020641","descriptor_name":"Polymorphism, Single Nucleotide","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D020641","descriptor_name":"Polymorphism, Single Nucleotide","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true}],"locations_count":4,"locations":[{"id":"doi:10.1093/bib/bbw072","is_oa":false,"landing_page_url":"https://doi.org/10.1093/bib/bbw072","pdf_url":null,"source":{"id":"https://openalex.org/S91767247","display_name":"Briefings in Bioinformatics","issn_l":"1467-5463","issn":["1467-5463","1477-4054"],"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":"public-domain","license_id":"https://openalex.org/licenses/public-domain","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Briefings in Bioinformatics","raw_type":"journal-article"},{"id":"pmid:27524380","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/27524380","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":"Briefings in bioinformatics","raw_type":null},{"id":"pmh:oai:europepmc.org:5156011","is_oa":true,"landing_page_url":"http://europepmc.org/pmc/articles/PMC5808724","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":"public-domain","license_id":"https://openalex.org/licenses/public-domain","version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"","raw_type":"Text"},{"id":"pmh:oai:pubmedcentral.nih.gov:5808724","is_oa":true,"landing_page_url":"https://www.ncbi.nlm.nih.gov/pmc/articles/5808724","pdf_url":null,"source":{"id":"https://openalex.org/S2764455111","display_name":"PubMed Central","issn_l":null,"issn":null,"is_oa":true,"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":"public-domain","license_id":"https://openalex.org/licenses/public-domain","version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"Brief Bioinform","raw_type":"Text"}],"best_oa_location":{"id":"pmh:oai:europepmc.org:5156011","is_oa":true,"landing_page_url":"http://europepmc.org/pmc/articles/PMC5808724","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":"public-domain","license_id":"https://openalex.org/licenses/public-domain","version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"","raw_type":"Text"},"sustainable_development_goals":[],"awards":[{"id":"https://openalex.org/G202981822","display_name":null,"funder_award_id":"Z99 LM999999","funder_id":"https://openalex.org/F4320332161","funder_display_name":"National Institutes of Health"},{"id":"https://openalex.org/G6323470848","display_name":null,"funder_award_id":"ZIA LM082713","funder_id":"https://openalex.org/F4320332161","funder_display_name":"National Institutes of Health"}],"funders":[{"id":"https://openalex.org/F4320332161","display_name":"National Institutes of Health","ror":"https://ror.org/01cwqze88"}],"has_content":{"grobid_xml":false,"pdf":false},"content_urls":null,"referenced_works_count":41,"referenced_works":["https://openalex.org/W1482190741","https://openalex.org/W1563166241","https://openalex.org/W1912672559","https://openalex.org/W1972187551","https://openalex.org/W1972195322","https://openalex.org/W1980580454","https://openalex.org/W1988495745","https://openalex.org/W2008522206","https://openalex.org/W2023132255","https://openalex.org/W2032237595","https://openalex.org/W2032547380","https://openalex.org/W2040741651","https://openalex.org/W2059173951","https://openalex.org/W2064629259","https://openalex.org/W2069062868","https://openalex.org/W2070807615","https://openalex.org/W2071501400","https://openalex.org/W2076661005","https://openalex.org/W2080561378","https://openalex.org/W2082081973","https://openalex.org/W2083870688","https://openalex.org/W2086739233","https://openalex.org/W2091279754","https://openalex.org/W2096791516","https://openalex.org/W2103441770","https://openalex.org/W2104549677","https://openalex.org/W2108234281","https://openalex.org/W2109293112","https://openalex.org/W2114924552","https://openalex.org/W2122826014","https://openalex.org/W2129581281","https://openalex.org/W2146821392","https://openalex.org/W2147733682","https://openalex.org/W2153712186","https://openalex.org/W2157539385","https://openalex.org/W2158251329","https://openalex.org/W2168909179","https://openalex.org/W2173273574","https://openalex.org/W2206844597","https://openalex.org/W2327859331","https://openalex.org/W3098304617"],"related_works":["https://openalex.org/W4238897586","https://openalex.org/W2053969879","https://openalex.org/W2082641564","https://openalex.org/W2107333779","https://openalex.org/W2790772971","https://openalex.org/W3108190435","https://openalex.org/W1964419640","https://openalex.org/W2120762351","https://openalex.org/W1969895229","https://openalex.org/W2108497208"],"abstract_inverted_index":{"Transposable":[0],"elements":[1],"(TEs)":[2],"are":[3,192],"an":[4,71],"important":[5,46],"source":[6],"of":[7,19,25,40,50,66,89,96,110,124,135,204,215],"human":[8,51,112,168],"genetic":[9],"variation":[10],"with":[11,92,121,170,194,212],"demonstrable":[12],"effects":[13],"on":[14,138,234],"phenotype.":[15],"Recently,":[16],"a":[17,60,86,122,201,208],"number":[18],"computational":[20],"methods":[21],"for":[22,117,173,180,243],"the":[23,48,80,133,147,167,220,227],"detection":[24,68,101,158,190,246],"polymorphic":[26],"TE":[27,81],"(polyTE)":[28],"insertion":[29,164,205],"sites":[30],"from":[31],"next-generation":[32],"sequence":[33,136],"data":[34,126],"have":[35],"been":[36],"developed.":[37],"The":[38,141],"use":[39,78,97],"such":[41],"tools":[42,69,91,159,191],"will":[43],"become":[44],"increasingly":[45],"as":[47,239,241],"pace":[49],"genome":[52,169],"sequencing":[53],"accelerates.":[54],"For":[55],"this":[56,118],"report,":[57],"we":[58,230],"performed":[59],"comparative":[61],"benchmarking":[62,228],"and":[63,77,98,103,154,176,237],"validation":[64],"analysis":[65],"polyTE":[67,100,113,189,245],"in":[70,166],"effort":[72],"to":[73,94,131,196,199,226],"inform":[74],"their":[75,197],"selection":[76],"by":[79,152],"research":[82],"community.":[83],"We":[84,183],"analyzed":[85],"core":[87],"set":[88,109,203],"seven":[90],"respect":[93,195],"ease":[95],"accessibility,":[99],"performance":[102,150,179],"runtime":[104],"parameters.":[105],"An":[106],"experimentally":[107],"validated":[108],"893":[111],"insertions":[114,175],"was":[115],"used":[116],"purpose,":[119],"along":[120],"series":[123],"simulated":[125],"sets":[127],"that":[128,187],"allowed":[129],"us":[130],"assess":[132],"impact":[134],"coverage":[137],"tool":[139,144,235],"performance.":[140,223],"recently":[142],"developed":[143],"MELT":[145],"showed":[146],"best":[148,161,221],"overall":[149,222],"followed":[151],"Mobster":[153],"then":[155],"RetroSeq.":[156],"PolyTE":[157],"can":[160],"detect":[162,200],"Alu":[163],"events":[165],"reduced":[171],"reliability":[172],"L1":[174],"substantially":[177],"lowered":[178],"SVA":[181],"insertions.":[182],"also":[184,231],"show":[185],"evidence":[186],"different":[188],"complementary":[193],"ability":[198],"complete":[202],"events.":[206],"Accordingly,":[207],"combined":[209],"approach,":[210],"coupled":[211],"manual":[213],"inspection":[214],"individual":[216],"results,":[217,229],"may":[218],"yield":[219],"In":[224],"addition":[225],"provide":[232],"notes":[233],"installation":[236],"usage":[238],"well":[240],"suggestions":[242],"future":[244],"algorithm":[247],"development.":[248]},"counts_by_year":[{"year":2026,"cited_by_count":1},{"year":2025,"cited_by_count":3},{"year":2024,"cited_by_count":4},{"year":2023,"cited_by_count":7},{"year":2022,"cited_by_count":8},{"year":2021,"cited_by_count":9},{"year":2020,"cited_by_count":10},{"year":2019,"cited_by_count":13},{"year":2018,"cited_by_count":13},{"year":2017,"cited_by_count":13},{"year":2016,"cited_by_count":2}],"updated_date":"2026-07-29T09:40:50.615796","created_date":"2025-10-10T00:00:00"}
