{"id":"https://openalex.org/W2902950722","doi":"https://doi.org/10.1093/bioinformatics/bty974","title":"TADOSS: computational estimation of tandem domain swap stability","display_name":"TADOSS: computational estimation of tandem domain swap stability","publication_year":2018,"publication_date":"2018-11-28","ids":{"openalex":"https://openalex.org/W2902950722","doi":"https://doi.org/10.1093/bioinformatics/bty974","mag":"2902950722","pmid":"https://pubmed.ncbi.nlm.nih.gov/30500878"},"language":"en","primary_location":{"id":"doi:10.1093/bioinformatics/bty974","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bioinformatics/bty974","pdf_url":"https://academic.oup.com/bioinformatics/article-pdf/35/14/2507/28913325/bty974.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","license_id":"https://openalex.org/licenses/cc-by","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/35/14/2507/28913325/bty974.pdf","any_repository_has_fulltext":true},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5031545090","display_name":"Aleix Lafita","orcid":"https://orcid.org/0000-0003-1549-3162"},"institutions":[{"id":"https://openalex.org/I1303153112","display_name":"European Bioinformatics Institute","ror":"https://ror.org/02catss52","country_code":"GB","type":"facility","lineage":["https://openalex.org/I1303153112","https://openalex.org/I4210138560"]}],"countries":["GB"],"is_corresponding":true,"raw_author_name":"Aleix Lafita","raw_affiliation_strings":["European Molecular Biology Laboratory, European Bioinformatics Institute, Wellcome Genome Campus, Hinxton, Cambridge, UK"],"raw_orcid":"https://orcid.org/0000-0003-1549-3162","affiliations":[{"raw_affiliation_string":"European Molecular Biology Laboratory, European Bioinformatics Institute, Wellcome Genome Campus, Hinxton, Cambridge, UK","institution_ids":["https://openalex.org/I1303153112"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5068477254","display_name":"Pengfei Tian","orcid":"https://orcid.org/0000-0003-0255-8692"},"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/I4210090567","display_name":"National Institute of Diabetes and Digestive and Kidney Diseases","ror":"https://ror.org/00adh9b73","country_code":"US","type":"facility","lineage":["https://openalex.org/I1299022934","https://openalex.org/I1299303238","https://openalex.org/I4210090567"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Pengfei Tian","raw_affiliation_strings":["Laboratory of Chemical Physics, National Institute of Diabetes and Digestive and Kidney Diseases, National Institutes of Health, Bethesda, MD, USA"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Laboratory of Chemical Physics, National Institute of Diabetes and Digestive and Kidney Diseases, National Institutes of Health, Bethesda, MD, USA","institution_ids":["https://openalex.org/I4210090567","https://openalex.org/I1299303238"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5059620610","display_name":"Robert B. Best","orcid":"https://orcid.org/0000-0002-7893-3543"},"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/I4210090567","display_name":"National Institute of Diabetes and Digestive and Kidney Diseases","ror":"https://ror.org/00adh9b73","country_code":"US","type":"facility","lineage":["https://openalex.org/I1299022934","https://openalex.org/I1299303238","https://openalex.org/I4210090567"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Robert B Best","raw_affiliation_strings":["Laboratory of Chemical Physics, National Institute of Diabetes and Digestive and Kidney Diseases, National Institutes of Health, Bethesda, MD, USA"],"raw_orcid":"https://orcid.org/0000-0002-7893-3543","affiliations":[{"raw_affiliation_string":"Laboratory of Chemical Physics, National Institute of Diabetes and Digestive and Kidney Diseases, National Institutes of Health, Bethesda, MD, USA","institution_ids":["https://openalex.org/I4210090567","https://openalex.org/I1299303238"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5059430118","display_name":"Alex Bateman","orcid":"https://orcid.org/0000-0002-6982-4660"},"institutions":[{"id":"https://openalex.org/I1303153112","display_name":"European Bioinformatics Institute","ror":"https://ror.org/02catss52","country_code":"GB","type":"facility","lineage":["https://openalex.org/I1303153112","https://openalex.org/I4210138560"]}],"countries":["GB"],"is_corresponding":false,"raw_author_name":"Alex Bateman","raw_affiliation_strings":["European Molecular Biology Laboratory, European Bioinformatics Institute, Wellcome Genome Campus, Hinxton, Cambridge, UK"],"raw_orcid":"https://orcid.org/0000-0002-6982-4660","affiliations":[{"raw_affiliation_string":"European Molecular Biology Laboratory, European Bioinformatics Institute, Wellcome Genome Campus, Hinxton, Cambridge, UK","institution_ids":["https://openalex.org/I1303153112"]}]}],"institutions":[],"countries_distinct_count":2,"institutions_distinct_count":4,"corresponding_author_ids":["https://openalex.org/A5031545090"],"corresponding_institution_ids":["https://openalex.org/I1303153112"],"apc_list":{"value":3618,"currency":"USD","value_usd":3618},"apc_paid":{"value":3618,"currency":"USD","value_usd":3618},"fwci":0.3712,"has_fulltext":true,"cited_by_count":8,"citation_normalized_percentile":{"value":0.61647807,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":{"min":89,"max":96},"biblio":{"volume":"35","issue":"14","first_page":"2507","last_page":"2508"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T10044","display_name":"Protein Structure and Dynamics","score":0.7878999710083008,"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/T10044","display_name":"Protein Structure and Dynamics","score":0.7878999710083008,"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/T10604","display_name":"RNA Research and Splicing","score":0.05909999832510948,"subfield":{"id":"https://openalex.org/subfields/1312","display_name":"Molecular Biology"},"field":{"id":"https://openalex.org/fields/13","display_name":"Biochemistry, Genetics and Molecular Biology"},"domain":{"id":"https://openalex.org/domains/1","display_name":"Life Sciences"}},{"id":"https://openalex.org/T10222","display_name":"Genomics and Chromatin Dynamics","score":0.031300000846385956,"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/computer-science","display_name":"Computer science","score":0.8119066953659058},{"id":"https://openalex.org/keywords/scalability","display_name":"Scalability","score":0.6392809152603149},{"id":"https://openalex.org/keywords/swap","display_name":"Swap (finance)","score":0.6185144782066345},{"id":"https://openalex.org/keywords/domain","display_name":"Domain (mathematical analysis)","score":0.5706645250320435},{"id":"https://openalex.org/keywords/source-code","display_name":"Source code","score":0.5590062737464905},{"id":"https://openalex.org/keywords/tandem","display_name":"Tandem","score":0.5377410054206848},{"id":"https://openalex.org/keywords/code","display_name":"Code (set theory)","score":0.42772841453552246},{"id":"https://openalex.org/keywords/mit-license","display_name":"MIT License","score":0.4208192229270935},{"id":"https://openalex.org/keywords/data-mining","display_name":"Data mining","score":0.37082618474960327},{"id":"https://openalex.org/keywords/computational-science","display_name":"Computational science","score":0.34302854537963867},{"id":"https://openalex.org/keywords/software","display_name":"Software","score":0.2894582152366638},{"id":"https://openalex.org/keywords/database","display_name":"Database","score":0.20260074734687805},{"id":"https://openalex.org/keywords/programming-language","display_name":"Programming language","score":0.20197981595993042},{"id":"https://openalex.org/keywords/set","display_name":"Set (abstract data type)","score":0.10829716920852661},{"id":"https://openalex.org/keywords/mathematics","display_name":"Mathematics","score":0.1003217101097107}],"concepts":[{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.8119066953659058},{"id":"https://openalex.org/C48044578","wikidata":"https://www.wikidata.org/wiki/Q727490","display_name":"Scalability","level":2,"score":0.6392809152603149},{"id":"https://openalex.org/C99821215","wikidata":"https://www.wikidata.org/wiki/Q1136583","display_name":"Swap (finance)","level":2,"score":0.6185144782066345},{"id":"https://openalex.org/C36503486","wikidata":"https://www.wikidata.org/wiki/Q11235244","display_name":"Domain (mathematical analysis)","level":2,"score":0.5706645250320435},{"id":"https://openalex.org/C43126263","wikidata":"https://www.wikidata.org/wiki/Q128751","display_name":"Source code","level":2,"score":0.5590062737464905},{"id":"https://openalex.org/C2777814067","wikidata":"https://www.wikidata.org/wiki/Q1752317","display_name":"Tandem","level":2,"score":0.5377410054206848},{"id":"https://openalex.org/C2776760102","wikidata":"https://www.wikidata.org/wiki/Q5139990","display_name":"Code (set theory)","level":3,"score":0.42772841453552246},{"id":"https://openalex.org/C174183944","wikidata":"https://www.wikidata.org/wiki/Q334661","display_name":"MIT License","level":3,"score":0.4208192229270935},{"id":"https://openalex.org/C124101348","wikidata":"https://www.wikidata.org/wiki/Q172491","display_name":"Data mining","level":1,"score":0.37082618474960327},{"id":"https://openalex.org/C459310","wikidata":"https://www.wikidata.org/wiki/Q117801","display_name":"Computational science","level":1,"score":0.34302854537963867},{"id":"https://openalex.org/C2777904410","wikidata":"https://www.wikidata.org/wiki/Q7397","display_name":"Software","level":2,"score":0.2894582152366638},{"id":"https://openalex.org/C77088390","wikidata":"https://www.wikidata.org/wiki/Q8513","display_name":"Database","level":1,"score":0.20260074734687805},{"id":"https://openalex.org/C199360897","wikidata":"https://www.wikidata.org/wiki/Q9143","display_name":"Programming language","level":1,"score":0.20197981595993042},{"id":"https://openalex.org/C177264268","wikidata":"https://www.wikidata.org/wiki/Q1514741","display_name":"Set (abstract data type)","level":2,"score":0.10829716920852661},{"id":"https://openalex.org/C33923547","wikidata":"https://www.wikidata.org/wiki/Q395","display_name":"Mathematics","level":0,"score":0.1003217101097107},{"id":"https://openalex.org/C159985019","wikidata":"https://www.wikidata.org/wiki/Q181790","display_name":"Composite material","level":1,"score":0.0},{"id":"https://openalex.org/C10138342","wikidata":"https://www.wikidata.org/wiki/Q43015","display_name":"Finance","level":1,"score":0.0},{"id":"https://openalex.org/C192562407","wikidata":"https://www.wikidata.org/wiki/Q228736","display_name":"Materials science","level":0,"score":0.0},{"id":"https://openalex.org/C162324750","wikidata":"https://www.wikidata.org/wiki/Q8134","display_name":"Economics","level":0,"score":0.0},{"id":"https://openalex.org/C134306372","wikidata":"https://www.wikidata.org/wiki/Q7754","display_name":"Mathematical analysis","level":1,"score":0.0}],"mesh":[{"descriptor_ui":"D011506","descriptor_name":"Proteins","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D011506","descriptor_name":"Proteins","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D011506","descriptor_name":"Proteins","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":"D019295","descriptor_name":"Computational Biology","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D019295","descriptor_name":"Computational Biology","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D019295","descriptor_name":"Computational Biology","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false}],"locations_count":3,"locations":[{"id":"doi:10.1093/bioinformatics/bty974","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bioinformatics/bty974","pdf_url":"https://academic.oup.com/bioinformatics/article-pdf/35/14/2507/28913325/bty974.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","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Bioinformatics","raw_type":"journal-article"},{"id":"pmid:30500878","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/30500878","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:5588744","is_oa":true,"landing_page_url":"https://www.ncbi.nlm.nih.gov/pmc/articles/6612889","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":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":null,"raw_type":"Text"}],"best_oa_location":{"id":"doi:10.1093/bioinformatics/bty974","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bioinformatics/bty974","pdf_url":"https://academic.oup.com/bioinformatics/article-pdf/35/14/2507/28913325/bty974.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","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Bioinformatics","raw_type":"journal-article"},"sustainable_development_goals":[{"id":"https://metadata.un.org/sdg/10","display_name":"Reduced inequalities","score":0.6700000166893005}],"awards":[{"id":"https://openalex.org/G3059163374","display_name":null,"funder_award_id":"ZIA DK075104-06","funder_id":"https://openalex.org/F4320332161","funder_display_name":"National Institutes of Health"},{"id":"https://openalex.org/G5981309544","display_name":null,"funder_award_id":"ZIA DK075104-06","funder_id":"https://openalex.org/F4320314023","funder_display_name":"European Molecular Biology Laboratory"},{"id":"https://openalex.org/G6463500787","display_name":null,"funder_award_id":"ZIA DK075104","funder_id":"https://openalex.org/F4320337357","funder_display_name":"National Institute of Diabetes and Digestive and Kidney Diseases"},{"id":"https://openalex.org/G6820549728","display_name":null,"funder_award_id":"ZIA DK075104","funder_id":"https://openalex.org/F4320332161","funder_display_name":"National Institutes of Health"},{"id":"https://openalex.org/G833866250","display_name":null,"funder_award_id":"ZIA DK075104-06","funder_id":"https://openalex.org/F4320337357","funder_display_name":"National Institute of Diabetes and Digestive and Kidney Diseases"}],"funders":[{"id":"https://openalex.org/F4320314023","display_name":"European Molecular Biology Laboratory","ror":"https://ror.org/050589e39"},{"id":"https://openalex.org/F4320332161","display_name":"National Institutes of Health","ror":"https://ror.org/01cwqze88"},{"id":"https://openalex.org/F4320337357","display_name":"National Institute of Diabetes and Digestive and Kidney Diseases","ror":"https://ror.org/00adh9b73"}],"has_content":{"grobid_xml":true,"pdf":true},"content_urls":{"pdf":"https://content.openalex.org/works/W2902950722.pdf","grobid_xml":"https://content.openalex.org/works/W2902950722.grobid-xml"},"referenced_works_count":12,"referenced_works":["https://openalex.org/W1031578623","https://openalex.org/W1493807054","https://openalex.org/W1604656968","https://openalex.org/W1965827393","https://openalex.org/W1980947093","https://openalex.org/W2114850508","https://openalex.org/W2115005877","https://openalex.org/W2115339329","https://openalex.org/W2137946890","https://openalex.org/W2171546617","https://openalex.org/W2338132158","https://openalex.org/W2365745156"],"related_works":["https://openalex.org/W4309247532","https://openalex.org/W3096946169","https://openalex.org/W2113128227","https://openalex.org/W2144610372","https://openalex.org/W4312114021","https://openalex.org/W4311938462","https://openalex.org/W2121840477","https://openalex.org/W2515936044","https://openalex.org/W3123068371","https://openalex.org/W1518632238"],"abstract_inverted_index":{"SUMMARY:":[0],"Proteins":[1],"with":[2,89],"highly":[3],"similar":[4],"tandem":[5,58],"domains":[6,79],"have":[7,19],"shown":[8],"an":[9,118],"increased":[10],"propensity":[11,91],"for":[12,103],"misfolding":[13],"and":[14,84,101,112],"aggregation.":[15],"Several":[16],"molecular":[17],"explanations":[18],"been":[20],"put":[21],"forward,":[22],"such":[23],"as":[24],"swapping":[25,83],"of":[26,34,57,64],"adjacent":[27],"domains,":[28,66],"but":[29],"there":[30],"is":[31,75,97],"a":[32,50,98],"lack":[33],"computational":[35],"tools":[36],"to":[37,52,77,81,85,92],"systematically":[38],"analyze":[39],"them.":[40],"We":[41],"present":[42],"the":[43,55,62],"TAndem":[44],"DOmain":[45],"Swap":[46],"Stability":[47],"predictor":[48],"(TADOSS),":[49],"method":[51,100],"computationally":[53],"estimate":[54],"stability":[56],"domain-swapped":[59],"conformations":[60],"from":[61],"structures":[63],"single":[65],"based":[67],"on":[68,121],"previous":[69],"coarse-grained":[70],"simulation":[71],"studies.":[72],"The":[73],"tool":[74],"able":[76],"discriminate":[78],"susceptible":[80],"domain":[82],"identify":[86],"structural":[87],"regions":[88],"high":[90],"form":[93],"hinge":[94],"loops.":[95],"TADOSS":[96],"scalable":[99],"suitable":[102],"large":[104],"scale":[105],"analyses.":[106],"AVAILABILITY":[107],"AND":[108],"IMPLEMENTATION:":[109],"Source":[110],"code":[111],"documentation":[113],"are":[114,129],"freely":[115],"available":[116,130],"under":[117],"MIT":[119],"license":[120],"GitHub":[122],"at":[123,131],"https://github.com/lafita/tadoss.":[124],"SUPPLEMENTARY":[125],"INFORMATION:":[126],"Supplementary":[127],"data":[128],"Bioinformatics":[132],"online.":[133]},"counts_by_year":[{"year":2025,"cited_by_count":1},{"year":2024,"cited_by_count":2},{"year":2022,"cited_by_count":1},{"year":2021,"cited_by_count":1},{"year":2020,"cited_by_count":2},{"year":2019,"cited_by_count":1}],"updated_date":"2026-06-24T13:16:06.693445","created_date":"2025-10-10T00:00:00"}
