{"id":"https://openalex.org/W2561707810","doi":"https://doi.org/10.1186/s12859-016-1431-9","title":"Fast-GBS: a new pipeline for the efficient and highly accurate calling of SNPs from genotyping-by-sequencing data","display_name":"Fast-GBS: a new pipeline for the efficient and highly accurate calling of SNPs from genotyping-by-sequencing data","publication_year":2017,"publication_date":"2017-01-03","ids":{"openalex":"https://openalex.org/W2561707810","doi":"https://doi.org/10.1186/s12859-016-1431-9","mag":"2561707810","pmid":"https://pubmed.ncbi.nlm.nih.gov/28049422"},"language":"en","primary_location":{"id":"doi:10.1186/s12859-016-1431-9","is_oa":true,"landing_page_url":"https://doi.org/10.1186/s12859-016-1431-9","pdf_url":"https://bmcbioinformatics.biomedcentral.com/counter/pdf/10.1186/s12859-016-1431-9","source":{"id":"https://openalex.org/S19032547","display_name":"BMC Bioinformatics","issn_l":"1471-2105","issn":["1471-2105"],"is_oa":true,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310320256","host_organization_name":"BioMed Central","host_organization_lineage":["https://openalex.org/P4310320256","https://openalex.org/P4310319965"],"host_organization_lineage_names":["BioMed Central","Springer Nature"],"type":"journal"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"BMC Bioinformatics","raw_type":"journal-article"},"type":"article","indexed_in":["crossref","doaj","pubmed"],"open_access":{"is_oa":true,"oa_status":"gold","oa_url":"https://bmcbioinformatics.biomedcentral.com/counter/pdf/10.1186/s12859-016-1431-9","any_repository_has_fulltext":true},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5017614266","display_name":"Davoud Torkamaneh","orcid":"https://orcid.org/0000-0002-9782-5695"},"institutions":[{"id":"https://openalex.org/I43406934","display_name":"Universit\u00e9 Laval","ror":"https://ror.org/04sjchr03","country_code":"CA","type":"education","lineage":["https://openalex.org/I43406934"]}],"countries":["CA"],"is_corresponding":false,"raw_author_name":"Davoud Torkamaneh","raw_affiliation_strings":["D\u00e9partement de Phytologie, Universit\u00e9 Laval, Quebec City, QC, Canada","Institut de Biologie Int\u00e9grative et des Syst\u00e8mes (IBIS), Universit\u00e9 Laval, Quebec City, QC, Canada"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"D\u00e9partement de Phytologie, Universit\u00e9 Laval, Quebec City, QC, Canada","institution_ids":["https://openalex.org/I43406934"]},{"raw_affiliation_string":"Institut de Biologie Int\u00e9grative et des Syst\u00e8mes (IBIS), Universit\u00e9 Laval, Quebec City, QC, Canada","institution_ids":["https://openalex.org/I43406934"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5011625765","display_name":"J\u00e9r\u00f4me Laroche","orcid":"https://orcid.org/0000-0002-8460-5669"},"institutions":[{"id":"https://openalex.org/I43406934","display_name":"Universit\u00e9 Laval","ror":"https://ror.org/04sjchr03","country_code":"CA","type":"education","lineage":["https://openalex.org/I43406934"]}],"countries":["CA"],"is_corresponding":false,"raw_author_name":"J\u00e9r\u00f4me Laroche","raw_affiliation_strings":["Institut de Biologie Int\u00e9grative et des Syst\u00e8mes (IBIS), Universit\u00e9 Laval, Quebec City, QC, Canada"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Institut de Biologie Int\u00e9grative et des Syst\u00e8mes (IBIS), Universit\u00e9 Laval, Quebec City, QC, Canada","institution_ids":["https://openalex.org/I43406934"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5113792760","display_name":"Maxime Bastien","orcid":null},"institutions":[{"id":"https://openalex.org/I43406934","display_name":"Universit\u00e9 Laval","ror":"https://ror.org/04sjchr03","country_code":"CA","type":"education","lineage":["https://openalex.org/I43406934"]}],"countries":["CA"],"is_corresponding":false,"raw_author_name":"Maxime Bastien","raw_affiliation_strings":["D\u00e9partement de Phytologie, Universit\u00e9 Laval, Quebec City, QC, Canada","Institut de Biologie Int\u00e9grative et des Syst\u00e8mes (IBIS), Universit\u00e9 Laval, Quebec City, QC, Canada"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"D\u00e9partement de Phytologie, Universit\u00e9 Laval, Quebec City, QC, Canada","institution_ids":["https://openalex.org/I43406934"]},{"raw_affiliation_string":"Institut de Biologie Int\u00e9grative et des Syst\u00e8mes (IBIS), Universit\u00e9 Laval, Quebec City, QC, Canada","institution_ids":["https://openalex.org/I43406934"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5035687315","display_name":"Amina Abed","orcid":null},"institutions":[{"id":"https://openalex.org/I43406934","display_name":"Universit\u00e9 Laval","ror":"https://ror.org/04sjchr03","country_code":"CA","type":"education","lineage":["https://openalex.org/I43406934"]}],"countries":["CA"],"is_corresponding":false,"raw_author_name":"Amina Abed","raw_affiliation_strings":["D\u00e9partement de Phytologie, Universit\u00e9 Laval, Quebec City, QC, Canada","Institut de Biologie Int\u00e9grative et des Syst\u00e8mes (IBIS), Universit\u00e9 Laval, Quebec City, QC, Canada"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"D\u00e9partement de Phytologie, Universit\u00e9 Laval, Quebec City, QC, Canada","institution_ids":["https://openalex.org/I43406934"]},{"raw_affiliation_string":"Institut de Biologie Int\u00e9grative et des Syst\u00e8mes (IBIS), Universit\u00e9 Laval, Quebec City, QC, Canada","institution_ids":["https://openalex.org/I43406934"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5048339945","display_name":"Fran\u00e7ois Belzile","orcid":"https://orcid.org/0000-0001-6893-4529"},"institutions":[{"id":"https://openalex.org/I43406934","display_name":"Universit\u00e9 Laval","ror":"https://ror.org/04sjchr03","country_code":"CA","type":"education","lineage":["https://openalex.org/I43406934"]}],"countries":["CA"],"is_corresponding":true,"raw_author_name":"Fran\u00e7ois Belzile","raw_affiliation_strings":["D\u00e9partement de Phytologie, Universit\u00e9 Laval, Quebec City, QC, Canada. francois.belzile@fsaa.ulaval.ca","Institut de Biologie Int\u00e9grative et des Syst\u00e8mes (IBIS), Universit\u00e9 Laval, Quebec City, QC, Canada. francois.belzile@fsaa.ulaval.ca","Institut de Biologie Int\u00e9grative et des Syst\u00e8mes (IBIS), Universit\u00e9 Laval, Quebec City, QC, Canada"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"D\u00e9partement de Phytologie, Universit\u00e9 Laval, Quebec City, QC, Canada. francois.belzile@fsaa.ulaval.ca","institution_ids":["https://openalex.org/I43406934"]},{"raw_affiliation_string":"Institut de Biologie Int\u00e9grative et des Syst\u00e8mes (IBIS), Universit\u00e9 Laval, Quebec City, QC, Canada. francois.belzile@fsaa.ulaval.ca","institution_ids":["https://openalex.org/I43406934"]},{"raw_affiliation_string":"Institut de Biologie Int\u00e9grative et des Syst\u00e8mes (IBIS), Universit\u00e9 Laval, Quebec City, QC, Canada","institution_ids":["https://openalex.org/I43406934"]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":1,"corresponding_author_ids":["https://openalex.org/A5048339945"],"corresponding_institution_ids":["https://openalex.org/I43406934"],"apc_list":{"value":2790,"currency":"USD","value_usd":2790},"apc_paid":{"value":2790,"currency":"USD","value_usd":2790},"fwci":13.2166,"has_fulltext":true,"cited_by_count":142,"citation_normalized_percentile":{"value":0.99058493,"is_in_top_1_percent":true,"is_in_top_10_percent":true},"cited_by_percentile_year":{"min":96,"max":100},"biblio":{"volume":"18","issue":"1","first_page":"5","last_page":"5"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T10012","display_name":"Genetic diversity and population structure","score":0.38040000200271606,"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":0.38040000200271606,"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/T12571","display_name":"Soybean genetics and cultivation","score":0.1370999962091446,"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":0.07029999792575836,"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/genotyping","display_name":"Genotyping","score":0.7191095948219299},{"id":"https://openalex.org/keywords/indel","display_name":"Indel","score":0.707014262676239},{"id":"https://openalex.org/keywords/genome","display_name":"Genome","score":0.6273422837257385},{"id":"https://openalex.org/keywords/biology","display_name":"Biology","score":0.6245594620704651},{"id":"https://openalex.org/keywords/reference-genome","display_name":"Reference genome","score":0.5298319458961487},{"id":"https://openalex.org/keywords/dna-sequencing","display_name":"DNA sequencing","score":0.5257742404937744},{"id":"https://openalex.org/keywords/computational-biology","display_name":"Computational biology","score":0.4922706186771393},{"id":"https://openalex.org/keywords/whole-genome-sequencing","display_name":"Whole genome sequencing","score":0.47969385981559753},{"id":"https://openalex.org/keywords/genetics","display_name":"Genetics","score":0.4768025577068329},{"id":"https://openalex.org/keywords/single-nucleotide-polymorphism","display_name":"Single-nucleotide polymorphism","score":0.4738222360610962},{"id":"https://openalex.org/keywords/deep-sequencing","display_name":"Deep sequencing","score":0.4673768877983093},{"id":"https://openalex.org/keywords/snp-genotyping","display_name":"SNP genotyping","score":0.44293415546417236},{"id":"https://openalex.org/keywords/genotype","display_name":"Genotype","score":0.37827855348587036},{"id":"https://openalex.org/keywords/gene","display_name":"Gene","score":0.15245354175567627}],"concepts":[{"id":"https://openalex.org/C31467283","wikidata":"https://www.wikidata.org/wiki/Q912147","display_name":"Genotyping","level":4,"score":0.7191095948219299},{"id":"https://openalex.org/C119054055","wikidata":"https://www.wikidata.org/wiki/Q1576681","display_name":"Indel","level":5,"score":0.707014262676239},{"id":"https://openalex.org/C141231307","wikidata":"https://www.wikidata.org/wiki/Q7020","display_name":"Genome","level":3,"score":0.6273422837257385},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.6245594620704651},{"id":"https://openalex.org/C192953774","wikidata":"https://www.wikidata.org/wiki/Q7307127","display_name":"Reference genome","level":4,"score":0.5298319458961487},{"id":"https://openalex.org/C51679486","wikidata":"https://www.wikidata.org/wiki/Q380546","display_name":"DNA sequencing","level":3,"score":0.5257742404937744},{"id":"https://openalex.org/C70721500","wikidata":"https://www.wikidata.org/wiki/Q177005","display_name":"Computational biology","level":1,"score":0.4922706186771393},{"id":"https://openalex.org/C24432333","wikidata":"https://www.wikidata.org/wiki/Q2068526","display_name":"Whole genome sequencing","level":4,"score":0.47969385981559753},{"id":"https://openalex.org/C54355233","wikidata":"https://www.wikidata.org/wiki/Q7162","display_name":"Genetics","level":1,"score":0.4768025577068329},{"id":"https://openalex.org/C153209595","wikidata":"https://www.wikidata.org/wiki/Q501128","display_name":"Single-nucleotide polymorphism","level":4,"score":0.4738222360610962},{"id":"https://openalex.org/C132917006","wikidata":"https://www.wikidata.org/wiki/Q5250436","display_name":"Deep sequencing","level":4,"score":0.4673768877983093},{"id":"https://openalex.org/C163691529","wikidata":"https://www.wikidata.org/wiki/Q7391886","display_name":"SNP genotyping","level":5,"score":0.44293415546417236},{"id":"https://openalex.org/C135763542","wikidata":"https://www.wikidata.org/wiki/Q106016","display_name":"Genotype","level":3,"score":0.37827855348587036},{"id":"https://openalex.org/C104317684","wikidata":"https://www.wikidata.org/wiki/Q7187","display_name":"Gene","level":2,"score":0.15245354175567627}],"mesh":[{"descriptor_ui":"D000483","descriptor_name":"Alleles","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D000483","descriptor_name":"Alleles","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D000483","descriptor_name":"Alleles","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D000483","descriptor_name":"Alleles","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D001467","descriptor_name":"Hordeum","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D001467","descriptor_name":"Hordeum","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D001467","descriptor_name":"Hordeum","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D001467","descriptor_name":"Hordeum","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D004247","descriptor_name":"DNA","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":false},{"descriptor_ui":"D004247","descriptor_name":"DNA","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":false},{"descriptor_ui":"D004247","descriptor_name":"DNA","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":false},{"descriptor_ui":"D004247","descriptor_name":"DNA","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":false},{"descriptor_ui":"D004247","descriptor_name":"DNA","qualifier_ui":"Q000737","qualifier_name":"chemistry","is_major_topic":false},{"descriptor_ui":"D004247","descriptor_name":"DNA","qualifier_ui":"Q000737","qualifier_name":"chemistry","is_major_topic":false},{"descriptor_ui":"D004247","descriptor_name":"DNA","qualifier_ui":"Q000737","qualifier_name":"chemistry","is_major_topic":false},{"descriptor_ui":"D004247","descriptor_name":"DNA","qualifier_ui":"Q000737","qualifier_name":"chemistry","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":"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":"D006239","descriptor_name":"Haplotypes","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D006239","descriptor_name":"Haplotypes","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D006239","descriptor_name":"Haplotypes","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D006239","descriptor_name":"Haplotypes","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D013025","descriptor_name":"Glycine max","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D013025","descriptor_name":"Glycine max","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D013025","descriptor_name":"Glycine max","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D013025","descriptor_name":"Glycine max","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D014584","descriptor_name":"User-Computer Interface","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D014584","descriptor_name":"User-Computer Interface","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D014584","descriptor_name":"User-Computer Interface","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D014584","descriptor_name":"User-Computer Interface","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D018745","descriptor_name":"Genome, Plant","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D018745","descriptor_name":"Genome, Plant","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D018745","descriptor_name":"Genome, Plant","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D018745","descriptor_name":"Genome, Plant","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D020407","descriptor_name":"Internet","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D020407","descriptor_name":"Internet","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D020407","descriptor_name":"Internet","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D020407","descriptor_name":"Internet","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":"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":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D059014","descriptor_name":"High-Throughput Nucleotide Sequencing","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D059014","descriptor_name":"High-Throughput Nucleotide Sequencing","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D059014","descriptor_name":"High-Throughput Nucleotide Sequencing","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D060005","descriptor_name":"Genotyping Techniques","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D060005","descriptor_name":"Genotyping Techniques","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D060005","descriptor_name":"Genotyping Techniques","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D060005","descriptor_name":"Genotyping Techniques","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false}],"locations_count":3,"locations":[{"id":"doi:10.1186/s12859-016-1431-9","is_oa":true,"landing_page_url":"https://doi.org/10.1186/s12859-016-1431-9","pdf_url":"https://bmcbioinformatics.biomedcentral.com/counter/pdf/10.1186/s12859-016-1431-9","source":{"id":"https://openalex.org/S19032547","display_name":"BMC Bioinformatics","issn_l":"1471-2105","issn":["1471-2105"],"is_oa":true,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310320256","host_organization_name":"BioMed Central","host_organization_lineage":["https://openalex.org/P4310320256","https://openalex.org/P4310319965"],"host_organization_lineage_names":["BioMed Central","Springer Nature"],"type":"journal"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"BMC Bioinformatics","raw_type":"journal-article"},{"id":"pmid:28049422","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/28049422","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":"BMC bioinformatics","raw_type":null},{"id":"pmh:oai:pubmedcentral.nih.gov:5210301","is_oa":true,"landing_page_url":"https://www.ncbi.nlm.nih.gov/pmc/articles/5210301","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":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"BMC Bioinformatics","raw_type":"Text"}],"best_oa_location":{"id":"doi:10.1186/s12859-016-1431-9","is_oa":true,"landing_page_url":"https://doi.org/10.1186/s12859-016-1431-9","pdf_url":"https://bmcbioinformatics.biomedcentral.com/counter/pdf/10.1186/s12859-016-1431-9","source":{"id":"https://openalex.org/S19032547","display_name":"BMC Bioinformatics","issn_l":"1471-2105","issn":["1471-2105"],"is_oa":true,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310320256","host_organization_name":"BioMed Central","host_organization_lineage":["https://openalex.org/P4310320256","https://openalex.org/P4310319965"],"host_organization_lineage_names":["BioMed Central","Springer Nature"],"type":"journal"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"BMC Bioinformatics","raw_type":"journal-article"},"sustainable_development_goals":[],"awards":[],"funders":[{"id":"https://openalex.org/F4320310137","display_name":"Universit\u00e9 Laval","ror":"https://ror.org/04sjchr03"},{"id":"https://openalex.org/F4320330224","display_name":"Canadian Field Crop Research Alliance","ror":null}],"has_content":{"pdf":true,"grobid_xml":true},"content_urls":{"pdf":"https://content.openalex.org/works/W2561707810.pdf","grobid_xml":"https://content.openalex.org/works/W2561707810.grobid-xml"},"referenced_works_count":41,"referenced_works":["https://openalex.org/W41890821","https://openalex.org/W592206274","https://openalex.org/W790336629","https://openalex.org/W1122333632","https://openalex.org/W1900413491","https://openalex.org/W1972216668","https://openalex.org/W1980215206","https://openalex.org/W1980702263","https://openalex.org/W2005337711","https://openalex.org/W2033306004","https://openalex.org/W2036897871","https://openalex.org/W2042346872","https://openalex.org/W2044192849","https://openalex.org/W2060965924","https://openalex.org/W2075570000","https://openalex.org/W2081046556","https://openalex.org/W2085315239","https://openalex.org/W2087008771","https://openalex.org/W2102778043","https://openalex.org/W2103441770","https://openalex.org/W2106749357","https://openalex.org/W2107628071","https://openalex.org/W2108524369","https://openalex.org/W2109141600","https://openalex.org/W2110035718","https://openalex.org/W2117853558","https://openalex.org/W2118140755","https://openalex.org/W2118526609","https://openalex.org/W2131016694","https://openalex.org/W2139974331","https://openalex.org/W2149184188","https://openalex.org/W2149992227","https://openalex.org/W2150131459","https://openalex.org/W2159474015","https://openalex.org/W2161184021","https://openalex.org/W2169773990","https://openalex.org/W2170267501","https://openalex.org/W2491237667","https://openalex.org/W2554494200","https://openalex.org/W4247053599","https://openalex.org/W4285719527"],"related_works":["https://openalex.org/W2033001683","https://openalex.org/W2553356891","https://openalex.org/W2015579947","https://openalex.org/W2952824393","https://openalex.org/W2754643976","https://openalex.org/W2951648583","https://openalex.org/W4323313960","https://openalex.org/W2066435382","https://openalex.org/W2108383417","https://openalex.org/W2989047996"],"abstract_inverted_index":{"BACKGROUND:":[0],"Next-generation":[1],"sequencing":[2,80,135,218],"(NGS)":[3],"technologies":[4],"have":[5],"accelerated":[6],"considerably":[7],"the":[8,11,42,62,68,72],"investigation":[9],"into":[10],"composition":[12],"of":[13,27,47,51,57,71,75,85,115,130,139,143,159,169,174,183,227],"genomes":[14],"and":[15,31,45,111,125,147,163,177,191,198,230,235,247],"their":[16],"functions.":[17],"Genotyping-by-sequencing":[18],"(GBS)":[19],"is":[20,67,119,128,137],"a":[21,34,54,94,167,244],"genotyping":[22,46],"approach":[23],"that":[24,165,241],"makes":[25],"use":[26],"NGS":[28],"to":[29,40,49,101,106,112],"rapidly":[30],"economically":[32],"scan":[33],"genome.":[35],"It":[36],"has":[37],"been":[38],"shown":[39],"allow":[41],"simultaneous":[43],"discovery":[44],"thousands":[48],"millions":[50],"SNPs":[52,194,252],"across":[53],"wide":[55],"range":[56,168],"species.":[58],"For":[59],"most":[60],"users,":[61],"main":[63],"challenge":[64],"in":[65,83,156],"GBS":[66,81,96,254],"bioinformatics":[69,97,123],"analysis":[70,223],"large":[73],"amount":[74],"sequence":[76],"information":[77],"derived":[78],"from":[79,133,216,253],"libraries":[82],"view":[84],"calling":[86,251],"alleles":[87],"at":[88],"SNP":[89,209,220],"loci.":[90],"Herein":[91],"we":[92,153,185,205],"describe":[93],"new":[95],"pipeline,":[98],"Fast-GBS,":[99],"designed":[100],"provide":[102],"highly":[103,245],"accurate":[104],"genotyping,":[105],"require":[107],"modest":[108],"computing":[109],"resources":[110],"offer":[113],"ease":[114],"use.":[116],"RESULTS:":[117],"Fast-GBS":[118,242],"built":[120],"upon":[121],"standard":[122],"language":[124],"file":[126],"formats,":[127],"capable":[129,138],"handling":[131],"data":[132,213],"different":[134,141,170],"platforms,":[136],"detecting":[140],"kinds":[142],"variants":[144,155],"(SNPs,":[145],"MNPs,":[146],"Indels).":[148],"To":[149,201],"illustrate":[150],"its":[151],"performance,":[152],"called":[154,186],"three":[157],"collections":[158],"samples":[160],"(soybean,":[161],"barley,":[162,234],"potato)":[164],"cover":[166],"genome":[171,175],"sizes,":[172],"levels":[173],"complexity,":[176],"ploidy.":[178],"Within":[179],"these":[180,207],"small":[181],"sets":[182,214],"samples,":[184],"35":[187],"k,":[188],"32":[189],"k":[190,193],"38":[192],"for":[195,232,250],"soybean,":[196,233],"barley":[197],"potato,":[199,236],"respectively.":[200,237],"assess":[202],"genotype":[203],"accuracy,":[204],"compared":[206],"GBS-derived":[208],"genotypes":[210],"with":[211],"independent":[212],"obtained":[215],"whole-genome":[217],"or":[219],"arrays.":[221],"This":[222],"yielded":[224],"estimated":[225],"accuracies":[226],"98.7,":[228],"95.2,":[229],"94%":[231],"CONCLUSIONS:":[238],"We":[239],"conclude":[240],"provides":[243],"efficient":[246],"reliable":[248],"tool":[249],"data.":[255]},"counts_by_year":[{"year":2026,"cited_by_count":4},{"year":2025,"cited_by_count":8},{"year":2024,"cited_by_count":11},{"year":2023,"cited_by_count":13},{"year":2022,"cited_by_count":21},{"year":2021,"cited_by_count":18},{"year":2020,"cited_by_count":33},{"year":2019,"cited_by_count":16},{"year":2018,"cited_by_count":14},{"year":2017,"cited_by_count":3}],"updated_date":"2026-07-23T08:03:31.855105","created_date":"2025-10-10T00:00:00"}
