{"id":"https://openalex.org/W1993841573","doi":"https://doi.org/10.1109/tcbb.2014.2344682","title":"MRFy: Remote Homology Detection for Beta-Structural Proteins Using Markov Random Fields and Stochastic Search","display_name":"MRFy: Remote Homology Detection for Beta-Structural Proteins Using Markov Random Fields and Stochastic Search","publication_year":2014,"publication_date":"2014-07-31","ids":{"openalex":"https://openalex.org/W1993841573","doi":"https://doi.org/10.1109/tcbb.2014.2344682","mag":"1993841573","pmid":"https://pubmed.ncbi.nlm.nih.gov/26357074"},"language":"en","primary_location":{"id":"doi:10.1109/tcbb.2014.2344682","is_oa":false,"landing_page_url":"https://doi.org/10.1109/tcbb.2014.2344682","pdf_url":null,"source":{"id":"https://openalex.org/S36029991","display_name":"IEEE Transactions on Computational Biology and Bioinformatics","issn_l":"1545-5963","issn":["1545-5963","1557-9964","2374-0043","2998-4165"],"is_oa":false,"is_in_doaj":false,"is_core":true,"host_organization":"https://openalex.org/P4310319808","host_organization_name":"Institute of Electrical and Electronics Engineers","host_organization_lineage":["https://openalex.org/P4310319808"],"host_organization_lineage_names":["Institute of Electrical and Electronics Engineers"],"type":"journal"},"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"IEEE/ACM Transactions on Computational Biology and Bioinformatics","raw_type":"journal-article"},"type":"article","indexed_in":["arxiv","crossref","pubmed"],"open_access":{"is_oa":true,"oa_status":"green","oa_url":"https://arxiv.org/pdf/1304.6476","any_repository_has_fulltext":true},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5071391690","display_name":"Noah M. Daniels","orcid":"https://orcid.org/0000-0002-9538-825X"},"institutions":[{"id":"https://openalex.org/I63966007","display_name":"Massachusetts Institute of Technology","ror":"https://ror.org/042nb2s44","country_code":"US","type":"education","lineage":["https://openalex.org/I63966007"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Noah M. Daniels","raw_affiliation_strings":["Mathematics Department and Computer Science and Artificial Intelligence Laboratory, Massachusetts Institute of Technology, Cambridge, MA"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Mathematics Department and Computer Science and Artificial Intelligence Laboratory, Massachusetts Institute of Technology, Cambridge, MA","institution_ids":["https://openalex.org/I63966007"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5033943668","display_name":"Andrew Gallant","orcid":null},"institutions":[{"id":"https://openalex.org/I121934306","display_name":"Tufts University","ror":"https://ror.org/05wvpxv85","country_code":"US","type":"education","lineage":["https://openalex.org/I121934306"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Andrew Gallant","raw_affiliation_strings":["Department of Computer Science, Tufts University, Medford, MA","Dept. of Comput. Sci., Tufts Univ., Medford, MA#TAB#"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Department of Computer Science, Tufts University, Medford, MA","institution_ids":["https://openalex.org/I121934306"]},{"raw_affiliation_string":"Dept. of Comput. Sci., Tufts Univ., Medford, MA#TAB#","institution_ids":["https://openalex.org/I121934306"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5068702687","display_name":"Norman F. Ramsey","orcid":"https://orcid.org/0000-0002-5435-1135"},"institutions":[{"id":"https://openalex.org/I121934306","display_name":"Tufts University","ror":"https://ror.org/05wvpxv85","country_code":"US","type":"education","lineage":["https://openalex.org/I121934306"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Norman Ramsey","raw_affiliation_strings":["Department of Computer Science, Tufts University, Medford, MA","Dept. of Comput. Sci., Tufts Univ., Medford, MA#TAB#"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Department of Computer Science, Tufts University, Medford, MA","institution_ids":["https://openalex.org/I121934306"]},{"raw_affiliation_string":"Dept. of Comput. Sci., Tufts Univ., Medford, MA#TAB#","institution_ids":["https://openalex.org/I121934306"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5026411021","display_name":"Lenore Cowen","orcid":"https://orcid.org/0000-0001-6698-6413"},"institutions":[{"id":"https://openalex.org/I121934306","display_name":"Tufts University","ror":"https://ror.org/05wvpxv85","country_code":"US","type":"education","lineage":["https://openalex.org/I121934306"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Lenore J. Cowen","raw_affiliation_strings":["Department of Computer Science, Tufts University, Medford, MA","Dept. of Comput. Sci., Tufts Univ., Medford, MA#TAB#"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Department of Computer Science, Tufts University, Medford, MA","institution_ids":["https://openalex.org/I121934306"]},{"raw_affiliation_string":"Dept. of Comput. Sci., Tufts Univ., Medford, MA#TAB#","institution_ids":["https://openalex.org/I121934306"]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":2,"corresponding_author_ids":[],"corresponding_institution_ids":[],"apc_list":{"value":2645,"currency":"USD","value_usd":2645},"apc_paid":null,"fwci":0.3932,"has_fulltext":false,"cited_by_count":10,"citation_normalized_percentile":{"value":0.5991853,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":{"min":89,"max":97},"biblio":{"volume":"12","issue":"1","first_page":"4","last_page":"16"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T12254","display_name":"Machine Learning in Bioinformatics","score":0.9994000196456909,"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/T12254","display_name":"Machine Learning in Bioinformatics","score":0.9994000196456909,"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/T10015","display_name":"Genomics and Phylogenetic Studies","score":0.9991000294685364,"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/T10521","display_name":"RNA and protein synthesis mechanisms","score":0.9983999729156494,"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/haskell","display_name":"Haskell","score":0.8270653486251831},{"id":"https://openalex.org/keywords/executable","display_name":"Executable","score":0.7195348739624023},{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.5917720794677734},{"id":"https://openalex.org/keywords/markov-random-field","display_name":"Markov random field","score":0.5834430456161499},{"id":"https://openalex.org/keywords/markov-chain","display_name":"Markov chain","score":0.5832211971282959},{"id":"https://openalex.org/keywords/homology","display_name":"Homology (biology)","score":0.4687780439853668},{"id":"https://openalex.org/keywords/hidden-markov-model","display_name":"Hidden Markov model","score":0.45418137311935425},{"id":"https://openalex.org/keywords/functional-programming","display_name":"Functional programming","score":0.4221714735031128},{"id":"https://openalex.org/keywords/programming-language","display_name":"Programming language","score":0.3658643662929535},{"id":"https://openalex.org/keywords/computational-biology","display_name":"Computational biology","score":0.3461097478866577},{"id":"https://openalex.org/keywords/theoretical-computer-science","display_name":"Theoretical computer science","score":0.3367392420768738},{"id":"https://openalex.org/keywords/artificial-intelligence","display_name":"Artificial intelligence","score":0.299217164516449},{"id":"https://openalex.org/keywords/biology","display_name":"Biology","score":0.24202311038970947},{"id":"https://openalex.org/keywords/machine-learning","display_name":"Machine learning","score":0.16181954741477966},{"id":"https://openalex.org/keywords/genetics","display_name":"Genetics","score":0.15995219349861145},{"id":"https://openalex.org/keywords/segmentation","display_name":"Segmentation","score":0.10130935907363892},{"id":"https://openalex.org/keywords/image-segmentation","display_name":"Image segmentation","score":0.0869508683681488}],"concepts":[{"id":"https://openalex.org/C2780624054","wikidata":"https://www.wikidata.org/wiki/Q34010","display_name":"Haskell","level":3,"score":0.8270653486251831},{"id":"https://openalex.org/C160145156","wikidata":"https://www.wikidata.org/wiki/Q778586","display_name":"Executable","level":2,"score":0.7195348739624023},{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.5917720794677734},{"id":"https://openalex.org/C2778045648","wikidata":"https://www.wikidata.org/wiki/Q176827","display_name":"Markov random field","level":4,"score":0.5834430456161499},{"id":"https://openalex.org/C98763669","wikidata":"https://www.wikidata.org/wiki/Q176645","display_name":"Markov chain","level":2,"score":0.5832211971282959},{"id":"https://openalex.org/C165525559","wikidata":"https://www.wikidata.org/wiki/Q224180","display_name":"Homology (biology)","level":3,"score":0.4687780439853668},{"id":"https://openalex.org/C23224414","wikidata":"https://www.wikidata.org/wiki/Q176769","display_name":"Hidden Markov model","level":2,"score":0.45418137311935425},{"id":"https://openalex.org/C42383842","wikidata":"https://www.wikidata.org/wiki/Q193076","display_name":"Functional programming","level":2,"score":0.4221714735031128},{"id":"https://openalex.org/C199360897","wikidata":"https://www.wikidata.org/wiki/Q9143","display_name":"Programming language","level":1,"score":0.3658643662929535},{"id":"https://openalex.org/C70721500","wikidata":"https://www.wikidata.org/wiki/Q177005","display_name":"Computational biology","level":1,"score":0.3461097478866577},{"id":"https://openalex.org/C80444323","wikidata":"https://www.wikidata.org/wiki/Q2878974","display_name":"Theoretical computer science","level":1,"score":0.3367392420768738},{"id":"https://openalex.org/C154945302","wikidata":"https://www.wikidata.org/wiki/Q11660","display_name":"Artificial intelligence","level":1,"score":0.299217164516449},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.24202311038970947},{"id":"https://openalex.org/C119857082","wikidata":"https://www.wikidata.org/wiki/Q2539","display_name":"Machine learning","level":1,"score":0.16181954741477966},{"id":"https://openalex.org/C54355233","wikidata":"https://www.wikidata.org/wiki/Q7162","display_name":"Genetics","level":1,"score":0.15995219349861145},{"id":"https://openalex.org/C89600930","wikidata":"https://www.wikidata.org/wiki/Q1423946","display_name":"Segmentation","level":2,"score":0.10130935907363892},{"id":"https://openalex.org/C124504099","wikidata":"https://www.wikidata.org/wiki/Q56933","display_name":"Image segmentation","level":3,"score":0.0869508683681488},{"id":"https://openalex.org/C104317684","wikidata":"https://www.wikidata.org/wiki/Q7187","display_name":"Gene","level":2,"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":"D008390","descriptor_name":"Markov Chains","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D008390","descriptor_name":"Markov Chains","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D008390","descriptor_name":"Markov Chains","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D011506","descriptor_name":"Proteins","qualifier_ui":"Q000737","qualifier_name":"chemistry","is_major_topic":false},{"descriptor_ui":"D011506","descriptor_name":"Proteins","qualifier_ui":"Q000737","qualifier_name":"chemistry","is_major_topic":false},{"descriptor_ui":"D011506","descriptor_name":"Proteins","qualifier_ui":"Q000737","qualifier_name":"chemistry","is_major_topic":false},{"descriptor_ui":"D013269","descriptor_name":"Stochastic Processes","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D013269","descriptor_name":"Stochastic Processes","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D013269","descriptor_name":"Stochastic Processes","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D015233","descriptor_name":"Models, Statistical","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D015233","descriptor_name":"Models, Statistical","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D015233","descriptor_name":"Models, Statistical","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D016415","descriptor_name":"Sequence Alignment","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D016415","descriptor_name":"Sequence Alignment","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D016415","descriptor_name":"Sequence Alignment","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D017386","descriptor_name":"Sequence Homology, Amino Acid","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D017386","descriptor_name":"Sequence Homology, Amino Acid","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D017386","descriptor_name":"Sequence Homology, Amino Acid","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D019295","descriptor_name":"Computational Biology","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D019295","descriptor_name":"Computational Biology","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D019295","descriptor_name":"Computational Biology","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D020539","descriptor_name":"Sequence Analysis, Protein","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D020539","descriptor_name":"Sequence Analysis, Protein","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D020539","descriptor_name":"Sequence Analysis, Protein","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D020816","descriptor_name":"Amino Acid Motifs","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D020816","descriptor_name":"Amino Acid Motifs","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D020816","descriptor_name":"Amino Acid Motifs","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false}],"locations_count":3,"locations":[{"id":"doi:10.1109/tcbb.2014.2344682","is_oa":false,"landing_page_url":"https://doi.org/10.1109/tcbb.2014.2344682","pdf_url":null,"source":{"id":"https://openalex.org/S36029991","display_name":"IEEE Transactions on Computational Biology and Bioinformatics","issn_l":"1545-5963","issn":["1545-5963","1557-9964","2374-0043","2998-4165"],"is_oa":false,"is_in_doaj":false,"is_core":true,"host_organization":"https://openalex.org/P4310319808","host_organization_name":"Institute of Electrical and Electronics Engineers","host_organization_lineage":["https://openalex.org/P4310319808"],"host_organization_lineage_names":["Institute of Electrical and Electronics Engineers"],"type":"journal"},"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"IEEE/ACM Transactions on Computational Biology and Bioinformatics","raw_type":"journal-article"},{"id":"pmid:26357074","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/26357074","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":"IEEE/ACM transactions on computational biology and bioinformatics","raw_type":"Journal Article"},{"id":"pmh:oai:arXiv.org:1304.6476","is_oa":true,"landing_page_url":"http://arxiv.org/abs/1304.6476","pdf_url":"https://arxiv.org/pdf/1304.6476","source":{"id":"https://openalex.org/S4306400194","display_name":"arXiv (Cornell University)","issn_l":"2331-8422","issn":["2331-8422"],"is_oa":true,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I205783295","host_organization_name":"Cornell University","host_organization_lineage":["https://openalex.org/I205783295"],"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"}],"best_oa_location":{"id":"pmh:oai:arXiv.org:1304.6476","is_oa":true,"landing_page_url":"http://arxiv.org/abs/1304.6476","pdf_url":"https://arxiv.org/pdf/1304.6476","source":{"id":"https://openalex.org/S4306400194","display_name":"arXiv (Cornell University)","issn_l":"2331-8422","issn":["2331-8422"],"is_oa":true,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I205783295","host_organization_name":"Cornell University","host_organization_lineage":["https://openalex.org/I205783295"],"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"},"sustainable_development_goals":[],"awards":[{"id":"https://openalex.org/G3816602119","display_name":"Computational Methods for Wrapping and Threading Remote Protein Homologs","funder_award_id":"1r01gm080330-01a1","funder_id":"https://openalex.org/F4320332161","funder_display_name":"National Institutes of Health"},{"id":"https://openalex.org/G5265660885","display_name":null,"funder_award_id":"1R01 GM 080330-01A1","funder_id":"https://openalex.org/F4320337354","funder_display_name":"National Institute of General Medical Sciences"}],"funders":[{"id":"https://openalex.org/F4320332161","display_name":"National Institutes of Health","ror":"https://ror.org/01cwqze88"},{"id":"https://openalex.org/F4320337354","display_name":"National Institute of General Medical Sciences","ror":"https://ror.org/04q48ey07"}],"has_content":{"grobid_xml":false,"pdf":false},"content_urls":null,"referenced_works_count":145,"referenced_works":["https://openalex.org/W42654547","https://openalex.org/W65192772","https://openalex.org/W1501210482","https://openalex.org/W1508885706","https://openalex.org/W1560512119","https://openalex.org/W1574111052","https://openalex.org/W1584849983","https://openalex.org/W1591532012","https://openalex.org/W1605007062","https://openalex.org/W1606439713","https://openalex.org/W1774934401","https://openalex.org/W1936662467","https://openalex.org/W1965266514","https://openalex.org/W1965910641","https://openalex.org/W1966041739","https://openalex.org/W1967538863","https://openalex.org/W1971125813","https://openalex.org/W1971650367","https://openalex.org/W1971913854","https://openalex.org/W1978304263","https://openalex.org/W1979132333","https://openalex.org/W1982481323","https://openalex.org/W1984497398","https://openalex.org/W1986155816","https://openalex.org/W1989061197","https://openalex.org/W1990075477","https://openalex.org/W1991133427","https://openalex.org/W1991679665","https://openalex.org/W1991768096","https://openalex.org/W1998452873","https://openalex.org/W2002638840","https://openalex.org/W2003806043","https://openalex.org/W2004178884","https://openalex.org/W2009178117","https://openalex.org/W2010266393","https://openalex.org/W2013570924","https://openalex.org/W2014095962","https://openalex.org/W2020644553","https://openalex.org/W2021953523","https://openalex.org/W2024755629","https://openalex.org/W2026258231","https://openalex.org/W2028263411","https://openalex.org/W2033496784","https://openalex.org/W2033738243","https://openalex.org/W2036126766","https://openalex.org/W2036208875","https://openalex.org/W2039913544","https://openalex.org/W2041966417","https://openalex.org/W2042005140","https://openalex.org/W2043003550","https://openalex.org/W2049355199","https://openalex.org/W2050513584","https://openalex.org/W2051210555","https://openalex.org/W2055043387","https://openalex.org/W2055631962","https://openalex.org/W2069504710","https://openalex.org/W2082667898","https://openalex.org/W2085277871","https://openalex.org/W2086699924","https://openalex.org/W2086889049","https://openalex.org/W2087064593","https://openalex.org/W2087254300","https://openalex.org/W2090617952","https://openalex.org/W2092691595","https://openalex.org/W2095265465","https://openalex.org/W2097555181","https://openalex.org/W2098017286","https://openalex.org/W2101119075","https://openalex.org/W2101220662","https://openalex.org/W2101414350","https://openalex.org/W2102122585","https://openalex.org/W2102245393","https://openalex.org/W2103150692","https://openalex.org/W2106694138","https://openalex.org/W2108067237","https://openalex.org/W2108138353","https://openalex.org/W2108987151","https://openalex.org/W2110397834","https://openalex.org/W2112380236","https://openalex.org/W2113030357","https://openalex.org/W2122687161","https://openalex.org/W2125508389","https://openalex.org/W2125725297","https://openalex.org/W2125838338","https://openalex.org/W2126016150","https://openalex.org/W2128162768","https://openalex.org/W2129046747","https://openalex.org/W2129816388","https://openalex.org/W2130464038","https://openalex.org/W2131410522","https://openalex.org/W2131741851","https://openalex.org/W2132122858","https://openalex.org/W2133307208","https://openalex.org/W2133643592","https://openalex.org/W2133666768","https://openalex.org/W2136280642","https://openalex.org/W2136567909","https://openalex.org/W2137146016","https://openalex.org/W2140244239","https://openalex.org/W2141805605","https://openalex.org/W2141885858","https://openalex.org/W2142529984","https://openalex.org/W2143210482","https://openalex.org/W2143292980","https://openalex.org/W2144363281","https://openalex.org/W2144483796","https://openalex.org/W2145268834","https://openalex.org/W2146084306","https://openalex.org/W2147145103","https://openalex.org/W2147496287","https://openalex.org/W2148077714","https://openalex.org/W2148602530","https://openalex.org/W2149521267","https://openalex.org/W2151831732","https://openalex.org/W2152326664","https://openalex.org/W2152474890","https://openalex.org/W2152811165","https://openalex.org/W2153077385","https://openalex.org/W2155479906","https://openalex.org/W2158714788","https://openalex.org/W2158800284","https://openalex.org/W2158919079","https://openalex.org/W2159080219","https://openalex.org/W2160672912","https://openalex.org/W2163895365","https://openalex.org/W2163910672","https://openalex.org/W2164698543","https://openalex.org/W2165766097","https://openalex.org/W2167938663","https://openalex.org/W2170645275","https://openalex.org/W2171580926","https://openalex.org/W2178467799","https://openalex.org/W2611927968","https://openalex.org/W3022584652","https://openalex.org/W3095583226","https://openalex.org/W4206192975","https://openalex.org/W4233928114","https://openalex.org/W4234467048","https://openalex.org/W4234951153","https://openalex.org/W4240522930","https://openalex.org/W4242606531","https://openalex.org/W4250143236","https://openalex.org/W4253573210","https://openalex.org/W4293662999","https://openalex.org/W6601771889"],"related_works":["https://openalex.org/W2112263414","https://openalex.org/W1602185604","https://openalex.org/W3004782279","https://openalex.org/W2028779182","https://openalex.org/W4242678340","https://openalex.org/W2140654465","https://openalex.org/W2129253059","https://openalex.org/W4296274916","https://openalex.org/W1504459189","https://openalex.org/W1755575651"],"abstract_inverted_index":{"We":[0],"introduce":[1],"MRFy,":[2],"a":[3,20,29,63],"tool":[4],"for":[5,39],"protein":[6],"remote":[7],"homology":[8],"detection":[9],"that":[10],"captures":[11],"beta-strand":[12],"dependencies":[13],"in":[14,33,76],"the":[15,37,40,77],"Markov":[16],"random":[17],"field.":[18],"Over":[19],"set":[21],"of":[22],"11":[23],"SCOP":[24],"beta-structural":[25],"superfamilies,":[26],"MRFy":[27,73,88],"shows":[28],"14":[30,55],"percent":[31,49,56,65],"improvement":[32,50,57,66],"mean":[34],"Area":[35],"Under":[36],"Curve":[38],"motif":[41],"recognition":[42],"problem":[43],"as":[44,51,58,67,91,94,96],"compared":[45,52,59,68],"to":[46,53,60,69],"HMMER,":[47],"25":[48],"RAPTOR,":[54],"HHPred,":[61],"and":[62,71,82],"18":[64],"CNFPred":[70],"RaptorX.":[72],"was":[74],"implemented":[75],"Haskell":[78],"functional":[79],"programming":[80],"language,":[81],"parallelizes":[83],"well":[84,95],"on":[85],"multi-core":[86],"systems.":[87],"is":[89],"available,":[90],"source":[92],"code":[93],"an":[97],"executable,":[98],"from":[99],"http://mrfy.cs.tufts.edu/.":[100]},"counts_by_year":[{"year":2024,"cited_by_count":1},{"year":2021,"cited_by_count":2},{"year":2020,"cited_by_count":3},{"year":2018,"cited_by_count":1},{"year":2017,"cited_by_count":1},{"year":2016,"cited_by_count":1},{"year":2015,"cited_by_count":1}],"updated_date":"2026-08-26T07:47:46.906454","created_date":"2025-10-10T00:00:00"}
