{"id":"https://openalex.org/W2336183090","doi":"https://doi.org/10.1093/bioinformatics/btw195","title":"hotspot: software to support sperm-typing for investigating recombination hotspots","display_name":"hotspot: software to support sperm-typing for investigating recombination hotspots","publication_year":2016,"publication_date":"2016-04-13","ids":{"openalex":"https://openalex.org/W2336183090","doi":"https://doi.org/10.1093/bioinformatics/btw195","mag":"2336183090","pmid":"https://pubmed.ncbi.nlm.nih.gov/27153632"},"language":"en","primary_location":{"id":"doi:10.1093/bioinformatics/btw195","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bioinformatics/btw195","pdf_url":"https://academic.oup.com/bioinformatics/article-pdf/32/16/2554/49020473/bioinformatics_32_16_2554.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/32/16/2554/49020473/bioinformatics_32_16_2554.pdf","any_repository_has_fulltext":true},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5057691810","display_name":"Linda Odenthal-Hesse","orcid":"https://orcid.org/0000-0002-5519-2375"},"institutions":[{"id":"https://openalex.org/I4210152351","display_name":"Max Planck Institute for Evolutionary Biology","ror":"https://ror.org/0534re684","country_code":"DE","type":"facility","lineage":["https://openalex.org/I149899117","https://openalex.org/I4210152351"]}],"countries":["DE"],"is_corresponding":false,"raw_author_name":"Linda Odenthal-Hesse","raw_affiliation_strings":["Department of Evolutionary Genetics, Max-Planck-Institute for Evolutionary Biology, Pl\u00f6n, Germany"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Department of Evolutionary Genetics, Max-Planck-Institute for Evolutionary Biology, Pl\u00f6n, Germany","institution_ids":["https://openalex.org/I4210152351"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5068172126","display_name":"Julien Y. Dutheil","orcid":"https://orcid.org/0000-0001-7753-4121"},"institutions":[{"id":"https://openalex.org/I4210152351","display_name":"Max Planck Institute for Evolutionary Biology","ror":"https://ror.org/0534re684","country_code":"DE","type":"facility","lineage":["https://openalex.org/I149899117","https://openalex.org/I4210152351"]}],"countries":["DE"],"is_corresponding":false,"raw_author_name":"Julien Y. Dutheil","raw_affiliation_strings":["Department of Evolutionary Genetics, Max-Planck-Institute for Evolutionary Biology, Pl\u00f6n, Germany"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Department of Evolutionary Genetics, Max-Planck-Institute for Evolutionary Biology, Pl\u00f6n, Germany","institution_ids":["https://openalex.org/I4210152351"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5066401346","display_name":"Fabian Kl\u00f6tzl","orcid":"https://orcid.org/0000-0002-6930-0592"},"institutions":[{"id":"https://openalex.org/I4210152351","display_name":"Max Planck Institute for Evolutionary Biology","ror":"https://ror.org/0534re684","country_code":"DE","type":"facility","lineage":["https://openalex.org/I149899117","https://openalex.org/I4210152351"]}],"countries":["DE"],"is_corresponding":false,"raw_author_name":"Fabian Kl\u00f6tzl","raw_affiliation_strings":["Department of Evolutionary Genetics, Max-Planck-Institute for Evolutionary Biology, Pl\u00f6n, Germany"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Department of Evolutionary Genetics, Max-Planck-Institute for Evolutionary Biology, Pl\u00f6n, Germany","institution_ids":["https://openalex.org/I4210152351"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5083257146","display_name":"Bernhard Haubold","orcid":"https://orcid.org/0000-0001-9442-4012"},"institutions":[{"id":"https://openalex.org/I4210152351","display_name":"Max Planck Institute for Evolutionary Biology","ror":"https://ror.org/0534re684","country_code":"DE","type":"facility","lineage":["https://openalex.org/I149899117","https://openalex.org/I4210152351"]}],"countries":["DE"],"is_corresponding":true,"raw_author_name":"Bernhard Haubold","raw_affiliation_strings":["Department of Evolutionary Genetics, Max-Planck-Institute for Evolutionary Biology, Pl\u00f6n, Germany"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Department of Evolutionary Genetics, Max-Planck-Institute for Evolutionary Biology, Pl\u00f6n, Germany","institution_ids":["https://openalex.org/I4210152351"]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":1,"corresponding_author_ids":["https://openalex.org/A5083257146"],"corresponding_institution_ids":["https://openalex.org/I4210152351"],"apc_list":{"value":3618,"currency":"USD","value_usd":3618},"apc_paid":{"value":3618,"currency":"USD","value_usd":3618},"fwci":0.1603,"has_fulltext":true,"cited_by_count":2,"citation_normalized_percentile":{"value":0.61288643,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":{"min":90,"max":95},"biblio":{"volume":"32","issue":"16","first_page":"2554","last_page":"2555"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T10123","display_name":"DNA Repair Mechanisms","score":0.49059998989105225,"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/T10123","display_name":"DNA Repair Mechanisms","score":0.49059998989105225,"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/T11764","display_name":"Evolution and Genetic Dynamics","score":0.06310000270605087,"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/T10949","display_name":"Genetic Neurodegenerative Diseases","score":0.044199999421834946,"subfield":{"id":"https://openalex.org/subfields/2804","display_name":"Cellular and Molecular Neuroscience"},"field":{"id":"https://openalex.org/fields/28","display_name":"Neuroscience"},"domain":{"id":"https://openalex.org/domains/1","display_name":"Life Sciences"}}],"keywords":[{"id":"https://openalex.org/keywords/hotspot","display_name":"Hotspot (geology)","score":0.6170164942741394},{"id":"https://openalex.org/keywords/biology","display_name":"Biology","score":0.5957702398300171},{"id":"https://openalex.org/keywords/genetics","display_name":"Genetics","score":0.5559699535369873},{"id":"https://openalex.org/keywords/typing","display_name":"Typing","score":0.5505380034446716},{"id":"https://openalex.org/keywords/allele","display_name":"Allele","score":0.5164930820465088},{"id":"https://openalex.org/keywords/computational-biology","display_name":"Computational biology","score":0.500502347946167},{"id":"https://openalex.org/keywords/software","display_name":"Software","score":0.4129626750946045},{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.3226097822189331},{"id":"https://openalex.org/keywords/gene","display_name":"Gene","score":0.17914092540740967},{"id":"https://openalex.org/keywords/programming-language","display_name":"Programming language","score":0.07522943615913391}],"concepts":[{"id":"https://openalex.org/C146481406","wikidata":"https://www.wikidata.org/wiki/Q105131","display_name":"Hotspot (geology)","level":2,"score":0.6170164942741394},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.5957702398300171},{"id":"https://openalex.org/C54355233","wikidata":"https://www.wikidata.org/wiki/Q7162","display_name":"Genetics","level":1,"score":0.5559699535369873},{"id":"https://openalex.org/C2781209916","wikidata":"https://www.wikidata.org/wiki/Q3215756","display_name":"Typing","level":2,"score":0.5505380034446716},{"id":"https://openalex.org/C180754005","wikidata":"https://www.wikidata.org/wiki/Q80726","display_name":"Allele","level":3,"score":0.5164930820465088},{"id":"https://openalex.org/C70721500","wikidata":"https://www.wikidata.org/wiki/Q177005","display_name":"Computational biology","level":1,"score":0.500502347946167},{"id":"https://openalex.org/C2777904410","wikidata":"https://www.wikidata.org/wiki/Q7397","display_name":"Software","level":2,"score":0.4129626750946045},{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.3226097822189331},{"id":"https://openalex.org/C104317684","wikidata":"https://www.wikidata.org/wiki/Q7187","display_name":"Gene","level":2,"score":0.17914092540740967},{"id":"https://openalex.org/C199360897","wikidata":"https://www.wikidata.org/wiki/Q9143","display_name":"Programming language","level":1,"score":0.07522943615913391},{"id":"https://openalex.org/C127313418","wikidata":"https://www.wikidata.org/wiki/Q1069","display_name":"Geology","level":0,"score":0.0},{"id":"https://openalex.org/C8058405","wikidata":"https://www.wikidata.org/wiki/Q46255","display_name":"Geophysics","level":1,"score":0.0}],"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":"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":"D008297","descriptor_name":"Male","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D008297","descriptor_name":"Male","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D008297","descriptor_name":"Male","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D008297","descriptor_name":"Male","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D011995","descriptor_name":"Recombination, Genetic","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D011995","descriptor_name":"Recombination, Genetic","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D011995","descriptor_name":"Recombination, Genetic","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D011995","descriptor_name":"Recombination, Genetic","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":"D012984","descriptor_name":"Software","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D013094","descriptor_name":"Spermatozoa","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D013094","descriptor_name":"Spermatozoa","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D013094","descriptor_name":"Spermatozoa","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D013094","descriptor_name":"Spermatozoa","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D016013","descriptor_name":"Likelihood Functions","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D016013","descriptor_name":"Likelihood Functions","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D016013","descriptor_name":"Likelihood Functions","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D016013","descriptor_name":"Likelihood Functions","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false}],"locations_count":5,"locations":[{"id":"doi:10.1093/bioinformatics/btw195","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bioinformatics/btw195","pdf_url":"https://academic.oup.com/bioinformatics/article-pdf/32/16/2554/49020473/bioinformatics_32_16_2554.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:27153632","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/27153632","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:escidoc.org:escidoc:2305668","is_oa":true,"landing_page_url":"http://hdl.handle.net/11858/00-001M-0000-002B-064D-0","pdf_url":null,"source":{"id":"https://openalex.org/S7407052962","display_name":"Max Planck Digital Library","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":null,"host_organization_name":null,"host_organization_lineage":[],"host_organization_lineage_names":[],"type":"repository"},"license":"other-oa","license_id":"https://openalex.org/licenses/other-oa","version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"","raw_type":"info:eu-repo/semantics/article"},{"id":"pmh:oai:europepmc.org:3943385","is_oa":false,"landing_page_url":"https://www.ncbi.nlm.nih.gov/pmc/articles/4978934","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":null,"raw_type":"Text"},{"id":"pmh:oai:open-archive.highwire.org:bioinfo:32/16/2554","is_oa":false,"landing_page_url":"http://bioinformatics.oxfordjournals.org/cgi/content/short/32/16/2554","pdf_url":null,"source":{"id":"https://openalex.org/S4406923041","display_name":"HighWire Press Open Archive","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":null,"host_organization_name":null,"host_organization_lineage":[],"host_organization_lineage_names":[],"type":"repository"},"license":null,"license_id":null,"version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"","raw_type":"TEXT"}],"best_oa_location":{"id":"doi:10.1093/bioinformatics/btw195","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bioinformatics/btw195","pdf_url":"https://academic.oup.com/bioinformatics/article-pdf/32/16/2554/49020473/bioinformatics_32_16_2554.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":[],"awards":[],"funders":[],"has_content":{"pdf":true,"grobid_xml":true},"content_urls":{"pdf":"https://content.openalex.org/works/W2336183090.pdf","grobid_xml":"https://content.openalex.org/works/W2336183090.grobid-xml"},"referenced_works_count":12,"referenced_works":["https://openalex.org/W1963998725","https://openalex.org/W1987882116","https://openalex.org/W1988896526","https://openalex.org/W1999583821","https://openalex.org/W2008712670","https://openalex.org/W2077770566","https://openalex.org/W2108234281","https://openalex.org/W2142386149","https://openalex.org/W2469018879","https://openalex.org/W2730153167","https://openalex.org/W2743307466","https://openalex.org/W6650284071"],"related_works":["https://openalex.org/W3176169626","https://openalex.org/W2379637199","https://openalex.org/W2405057786","https://openalex.org/W2501832907","https://openalex.org/W2063054109","https://openalex.org/W2079602762","https://openalex.org/W2580355466","https://openalex.org/W1606200072","https://openalex.org/W2765519165","https://openalex.org/W1888682135"],"abstract_inverted_index":{"MOTIVATION:":[0],"In":[1],"many":[2],"organisms,":[3],"including":[4],"humans,":[5],"recombination":[6,9],"clusters":[7],"within":[8],"hotspots.":[10],"The":[11],"standard":[12],"method":[13,78],"for":[14,71,79],"de":[15],"novo":[16],"detection":[17,50],"of":[18,56],"recombinants":[19],"at":[20,30,117],"hotspots":[21],"is":[22,39,93],"sperm":[23],"typing.":[24],"This":[25],"relies":[26],"on":[27],"allele-specific":[28,35,65,69],"PCR":[29],"single":[31],"nucleotide":[32],"polymorphisms.":[33],"Designing":[34],"primers":[36],"by":[37],"hand":[38],"time-consuming.":[40],"We":[41],"have":[42],"therefore":[43],"written":[44,94],"a":[45,76],"package":[46],"to":[47],"support":[48],"hotspot":[49,54,92],"and":[51,63],"analysis.":[52],"RESULTS:":[53],"consists":[55],"four":[57],"programs:":[58],"asp":[59],"looks":[60],"up":[61],"SNPs":[62],"designs":[64],"primers;":[66],"aso":[67],"constructs":[68],"oligos":[70],"mapping":[72],"recombinants;":[73],"xov":[74],"implements":[75],"maximum-likelihood":[77],"estimating":[80],"the":[81,102],"crossover":[82],"rate;":[83],"six,":[84],"finally,":[85],"simulates":[86],"typing":[87],"data.":[88],"AVAILABILITY":[89],"AND":[90],"IMPLEMENTATION:":[91],"in":[95],"C.":[96],"Sources":[97],"are":[98,115],"freely":[99],"available":[100,116],"under":[101],"GNU":[103],"General":[104],"Public":[105],"License":[106],"from":[107],"http://github.com/evolbioinf/hotspot/":[108],"CONTACT:":[109],"haubold@evolbio.mpg.de":[110],"SUPPLEMENTARY":[111],"INFORMATION:":[112],"Supplementary":[113],"data":[114],"Bioinformatics":[118],"online.":[119]},"counts_by_year":[{"year":2025,"cited_by_count":1},{"year":2018,"cited_by_count":1}],"updated_date":"2026-08-01T09:00:35.917206","created_date":"2025-10-10T00:00:00"}
