{"id":"https://openalex.org/W2960753992","doi":"https://doi.org/10.1093/database/baz092","title":"Combined alignments of sequences and domains characterize unknown proteins with remotely related protein search PSISearch2D","display_name":"Combined alignments of sequences and domains characterize unknown proteins with remotely related protein search PSISearch2D","publication_year":2019,"publication_date":"2019-01-01","ids":{"openalex":"https://openalex.org/W2960753992","doi":"https://doi.org/10.1093/database/baz092","mag":"2960753992","pmid":"https://pubmed.ncbi.nlm.nih.gov/31317184"},"language":"en","primary_location":{"id":"doi:10.1093/database/baz092","is_oa":true,"landing_page_url":"https://doi.org/10.1093/database/baz092","pdf_url":"https://academic.oup.com/database/article-pdf/doi/10.1093/database/baz092/28939954/baz092.pdf","source":{"id":"https://openalex.org/S4210201630","display_name":"Database","issn_l":"1758-0463","issn":["1758-0463"],"is_oa":true,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310311647","host_organization_name":"University of Oxford","host_organization_lineage":["https://openalex.org/P4310311647"],"host_organization_lineage_names":["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":"Database","raw_type":"journal-article"},"type":"article","indexed_in":["crossref","doaj","pubmed"],"open_access":{"is_oa":true,"oa_status":"gold","oa_url":"https://academic.oup.com/database/article-pdf/doi/10.1093/database/baz092/28939954/baz092.pdf","any_repository_has_fulltext":true},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5040532906","display_name":"Minglei Yang","orcid":"https://orcid.org/0000-0001-9957-7608"},"institutions":[{"id":"https://openalex.org/I157773358","display_name":"Sun Yat-sen University","ror":"https://ror.org/0064kty71","country_code":"CN","type":"education","lineage":["https://openalex.org/I157773358"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Minglei Yang","raw_affiliation_strings":["Zhongshan School of Medicine, Sun Yat-sen University, Guangzhou, China"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Zhongshan School of Medicine, Sun Yat-sen University, Guangzhou, China","institution_ids":["https://openalex.org/I157773358"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5100689217","display_name":"Wenliang Zhang","orcid":"https://orcid.org/0000-0003-0454-6935"},"institutions":[{"id":"https://openalex.org/I157773358","display_name":"Sun Yat-sen University","ror":"https://ror.org/0064kty71","country_code":"CN","type":"education","lineage":["https://openalex.org/I157773358"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Wenliang Zhang","raw_affiliation_strings":["Zhongshan School of Medicine, Sun Yat-sen University, Guangzhou, China"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Zhongshan School of Medicine, Sun Yat-sen University, Guangzhou, China","institution_ids":["https://openalex.org/I157773358"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5020309436","display_name":"Yao Guocai","orcid":"https://orcid.org/0000-0002-9869-5124"},"institutions":[{"id":"https://openalex.org/I157773358","display_name":"Sun Yat-sen University","ror":"https://ror.org/0064kty71","country_code":"CN","type":"education","lineage":["https://openalex.org/I157773358"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Guocai Yao","raw_affiliation_strings":["Zhongshan School of Medicine, Sun Yat-sen University, Guangzhou, China"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Zhongshan School of Medicine, Sun Yat-sen University, Guangzhou, China","institution_ids":["https://openalex.org/I157773358"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5101862826","display_name":"Haiyue Zhang","orcid":"https://orcid.org/0000-0002-7143-9550"},"institutions":[{"id":"https://openalex.org/I157773358","display_name":"Sun Yat-sen University","ror":"https://ror.org/0064kty71","country_code":"CN","type":"education","lineage":["https://openalex.org/I157773358"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Haiyue Zhang","raw_affiliation_strings":["Zhongshan School of Medicine, Sun Yat-sen University, Guangzhou, China"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Zhongshan School of Medicine, Sun Yat-sen University, Guangzhou, China","institution_ids":["https://openalex.org/I157773358"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5101583301","display_name":"Weizhong Li","orcid":"https://orcid.org/0000-0002-9003-7733"},"institutions":[{"id":"https://openalex.org/I157773358","display_name":"Sun Yat-sen University","ror":"https://ror.org/0064kty71","country_code":"CN","type":"education","lineage":["https://openalex.org/I157773358"]}],"countries":["CN"],"is_corresponding":true,"raw_author_name":"Weizhong Li","raw_affiliation_strings":["Center for Precision Medicine, Sun Yat-sen University, Guangzhou, China","Key Laboratory of Tropical Disease Control (Sun Yat-Sen University), Ministry of Education","Zhongshan School of Medicine, Sun Yat-sen University, Guangzhou, China"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Center for Precision Medicine, Sun Yat-sen University, Guangzhou, China","institution_ids":["https://openalex.org/I157773358"]},{"raw_affiliation_string":"Key Laboratory of Tropical Disease Control (Sun Yat-Sen University), Ministry of Education","institution_ids":[]},{"raw_affiliation_string":"Zhongshan School of Medicine, Sun Yat-sen University, Guangzhou, China","institution_ids":["https://openalex.org/I157773358"]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":5,"corresponding_author_ids":["https://openalex.org/A5101583301"],"corresponding_institution_ids":["https://openalex.org/I157773358"],"apc_list":{"value":1415,"currency":"GBP","value_usd":1735},"apc_paid":{"value":1415,"currency":"GBP","value_usd":1735},"fwci":0.1709,"has_fulltext":true,"cited_by_count":2,"citation_normalized_percentile":{"value":0.52606467,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":{"min":89,"max":94},"biblio":{"volume":"2019","issue":null,"first_page":null,"last_page":null},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T10015","display_name":"Genomics and Phylogenetic Studies","score":0.9991999864578247,"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/T10015","display_name":"Genomics and Phylogenetic Studies","score":0.9991999864578247,"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/T11048","display_name":"Bacteriophages and microbial interactions","score":0.996399998664856,"subfield":{"id":"https://openalex.org/subfields/2303","display_name":"Ecology"},"field":{"id":"https://openalex.org/fields/23","display_name":"Environmental Science"},"domain":{"id":"https://openalex.org/domains/3","display_name":"Physical Sciences"}},{"id":"https://openalex.org/T10521","display_name":"RNA and protein synthesis mechanisms","score":0.9962000250816345,"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/uniprot","display_name":"UniProt","score":0.9060302972793579},{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.7523718476295471},{"id":"https://openalex.org/keywords/annotation","display_name":"Annotation","score":0.614304780960083},{"id":"https://openalex.org/keywords/sequence-alignment","display_name":"Sequence alignment","score":0.5249181389808655},{"id":"https://openalex.org/keywords/computational-biology","display_name":"Computational biology","score":0.5165197253227234},{"id":"https://openalex.org/keywords/protein-sequencing","display_name":"Protein sequencing","score":0.4881671071052551},{"id":"https://openalex.org/keywords/visualization","display_name":"Visualization","score":0.47780686616897583},{"id":"https://openalex.org/keywords/data-mining","display_name":"Data mining","score":0.46753594279289246},{"id":"https://openalex.org/keywords/protein-superfamily","display_name":"Protein superfamily","score":0.45439082384109497},{"id":"https://openalex.org/keywords/multiple-sequence-alignment","display_name":"Multiple sequence alignment","score":0.4452539086341858},{"id":"https://openalex.org/keywords/structural-alignment","display_name":"Structural alignment","score":0.44496631622314453},{"id":"https://openalex.org/keywords/smith\u2013waterman-algorithm","display_name":"Smith\u2013Waterman algorithm","score":0.43667951226234436},{"id":"https://openalex.org/keywords/homology-modeling","display_name":"Homology modeling","score":0.4153147041797638},{"id":"https://openalex.org/keywords/artificial-intelligence","display_name":"Artificial intelligence","score":0.3219130337238312},{"id":"https://openalex.org/keywords/peptide-sequence","display_name":"Peptide sequence","score":0.2591298520565033},{"id":"https://openalex.org/keywords/biology","display_name":"Biology","score":0.20635515451431274},{"id":"https://openalex.org/keywords/genetics","display_name":"Genetics","score":0.14397361874580383},{"id":"https://openalex.org/keywords/gene","display_name":"Gene","score":0.10852009057998657}],"concepts":[{"id":"https://openalex.org/C202264299","wikidata":"https://www.wikidata.org/wiki/Q905695","display_name":"UniProt","level":3,"score":0.9060302972793579},{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.7523718476295471},{"id":"https://openalex.org/C2776321320","wikidata":"https://www.wikidata.org/wiki/Q857525","display_name":"Annotation","level":2,"score":0.614304780960083},{"id":"https://openalex.org/C45484198","wikidata":"https://www.wikidata.org/wiki/Q827246","display_name":"Sequence alignment","level":4,"score":0.5249181389808655},{"id":"https://openalex.org/C70721500","wikidata":"https://www.wikidata.org/wiki/Q177005","display_name":"Computational biology","level":1,"score":0.5165197253227234},{"id":"https://openalex.org/C10010492","wikidata":"https://www.wikidata.org/wiki/Q3142557","display_name":"Protein sequencing","level":4,"score":0.4881671071052551},{"id":"https://openalex.org/C36464697","wikidata":"https://www.wikidata.org/wiki/Q451553","display_name":"Visualization","level":2,"score":0.47780686616897583},{"id":"https://openalex.org/C124101348","wikidata":"https://www.wikidata.org/wiki/Q172491","display_name":"Data mining","level":1,"score":0.46753594279289246},{"id":"https://openalex.org/C178180057","wikidata":"https://www.wikidata.org/wiki/Q7251477","display_name":"Protein superfamily","level":3,"score":0.45439082384109497},{"id":"https://openalex.org/C88031987","wikidata":"https://www.wikidata.org/wiki/Q1377767","display_name":"Multiple sequence alignment","level":5,"score":0.4452539086341858},{"id":"https://openalex.org/C4668613","wikidata":"https://www.wikidata.org/wiki/Q4116110","display_name":"Structural alignment","level":5,"score":0.44496631622314453},{"id":"https://openalex.org/C72802188","wikidata":"https://www.wikidata.org/wiki/Q1683352","display_name":"Smith\u2013Waterman algorithm","level":5,"score":0.43667951226234436},{"id":"https://openalex.org/C169627665","wikidata":"https://www.wikidata.org/wiki/Q5767913","display_name":"Homology modeling","level":3,"score":0.4153147041797638},{"id":"https://openalex.org/C154945302","wikidata":"https://www.wikidata.org/wiki/Q11660","display_name":"Artificial intelligence","level":1,"score":0.3219130337238312},{"id":"https://openalex.org/C167625842","wikidata":"https://www.wikidata.org/wiki/Q899763","display_name":"Peptide sequence","level":3,"score":0.2591298520565033},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.20635515451431274},{"id":"https://openalex.org/C54355233","wikidata":"https://www.wikidata.org/wiki/Q7162","display_name":"Genetics","level":1,"score":0.14397361874580383},{"id":"https://openalex.org/C104317684","wikidata":"https://www.wikidata.org/wiki/Q7187","display_name":"Gene","level":2,"score":0.10852009057998657},{"id":"https://openalex.org/C55493867","wikidata":"https://www.wikidata.org/wiki/Q7094","display_name":"Biochemistry","level":1,"score":0.0},{"id":"https://openalex.org/C181199279","wikidata":"https://www.wikidata.org/wiki/Q8047","display_name":"Enzyme","level":2,"score":0.0}],"mesh":[{"descriptor_ui":"D000465","descriptor_name":"Algorithms","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D000465","descriptor_name":"Algorithms","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D000465","descriptor_name":"Algorithms","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D008958","descriptor_name":"Models, Molecular","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D008958","descriptor_name":"Models, Molecular","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D008958","descriptor_name":"Models, Molecular","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D011506","descriptor_name":"Proteins","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":true},{"descriptor_ui":"D011506","descriptor_name":"Proteins","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":true},{"descriptor_ui":"D011506","descriptor_name":"Proteins","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":true},{"descriptor_ui":"D011506","descriptor_name":"Proteins","qualifier_ui":"Q000737","qualifier_name":"chemistry","is_major_topic":true},{"descriptor_ui":"D011506","descriptor_name":"Proteins","qualifier_ui":"Q000737","qualifier_name":"chemistry","is_major_topic":true},{"descriptor_ui":"D011506","descriptor_name":"Proteins","qualifier_ui":"Q000737","qualifier_name":"chemistry","is_major_topic":true},{"descriptor_ui":"D016415","descriptor_name":"Sequence Alignment","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D016415","descriptor_name":"Sequence Alignment","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D016415","descriptor_name":"Sequence Alignment","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D020539","descriptor_name":"Sequence Analysis, Protein","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D020539","descriptor_name":"Sequence Analysis, Protein","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D020539","descriptor_name":"Sequence Analysis, Protein","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D030562","descriptor_name":"Databases, Protein","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D030562","descriptor_name":"Databases, Protein","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D030562","descriptor_name":"Databases, Protein","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true}],"locations_count":3,"locations":[{"id":"doi:10.1093/database/baz092","is_oa":true,"landing_page_url":"https://doi.org/10.1093/database/baz092","pdf_url":"https://academic.oup.com/database/article-pdf/doi/10.1093/database/baz092/28939954/baz092.pdf","source":{"id":"https://openalex.org/S4210201630","display_name":"Database","issn_l":"1758-0463","issn":["1758-0463"],"is_oa":true,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310311647","host_organization_name":"University of Oxford","host_organization_lineage":["https://openalex.org/P4310311647"],"host_organization_lineage_names":["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":"Database","raw_type":"journal-article"},{"id":"pmid:31317184","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/31317184","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":"Database : the journal of biological databases and curation","raw_type":null},{"id":"pmh:oai:europepmc.org:5603037","is_oa":true,"landing_page_url":"https://www.ncbi.nlm.nih.gov/pmc/articles/6637259","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/database/baz092","is_oa":true,"landing_page_url":"https://doi.org/10.1093/database/baz092","pdf_url":"https://academic.oup.com/database/article-pdf/doi/10.1093/database/baz092/28939954/baz092.pdf","source":{"id":"https://openalex.org/S4210201630","display_name":"Database","issn_l":"1758-0463","issn":["1758-0463"],"is_oa":true,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310311647","host_organization_name":"University of Oxford","host_organization_lineage":["https://openalex.org/P4310311647"],"host_organization_lineage_names":["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":"Database","raw_type":"journal-article"},"sustainable_development_goals":[],"awards":[{"id":"https://openalex.org/G4290868357","display_name":null,"funder_award_id":"2016YFC0901604","funder_id":"https://openalex.org/F4320321001","funder_display_name":"National Natural Science Foundation of China"},{"id":"https://openalex.org/G4950669307","display_name":null,"funder_award_id":"31771478","funder_id":"https://openalex.org/F4320321001","funder_display_name":"National Natural Science Foundation of China"},{"id":"https://openalex.org/G8962728536","display_name":null,"funder_award_id":"2018YFC0910401","funder_id":"https://openalex.org/F4320321001","funder_display_name":"National Natural Science Foundation of China"}],"funders":[{"id":"https://openalex.org/F4320321001","display_name":"National Natural Science Foundation of China","ror":"https://ror.org/01h0zpd94"},{"id":"https://openalex.org/F4320321160","display_name":"Sun Yat-sen University","ror":"https://ror.org/0064kty71"}],"has_content":{"grobid_xml":true,"pdf":true},"content_urls":{"pdf":"https://content.openalex.org/works/W2960753992.pdf","grobid_xml":"https://content.openalex.org/works/W2960753992.grobid-xml"},"referenced_works_count":29,"referenced_works":["https://openalex.org/W1972718882","https://openalex.org/W2051210555","https://openalex.org/W2069458148","https://openalex.org/W2087064593","https://openalex.org/W2089499735","https://openalex.org/W2097632784","https://openalex.org/W2101291993","https://openalex.org/W2107158607","https://openalex.org/W2129443011","https://openalex.org/W2138122982","https://openalex.org/W2139271731","https://openalex.org/W2139617657","https://openalex.org/W2142678478","https://openalex.org/W2154139219","https://openalex.org/W2158714788","https://openalex.org/W2163910672","https://openalex.org/W2169150541","https://openalex.org/W2169686324","https://openalex.org/W2171975444","https://openalex.org/W2224056471","https://openalex.org/W2550969987","https://openalex.org/W2557496587","https://openalex.org/W2558272290","https://openalex.org/W2559191318","https://openalex.org/W2560534849","https://openalex.org/W2770307029","https://openalex.org/W2900353268","https://openalex.org/W2900701906","https://openalex.org/W4210702584"],"related_works":["https://openalex.org/W2103737249","https://openalex.org/W2051969447","https://openalex.org/W2468116983","https://openalex.org/W2948014085","https://openalex.org/W2056158083","https://openalex.org/W2187357871","https://openalex.org/W2111937814","https://openalex.org/W2015399150","https://openalex.org/W2029514038","https://openalex.org/W2505756865"],"abstract_inverted_index":{"Iterative":[0],"homology":[1,35],"search":[2,23,36,84],"has":[3,16,65,173],"been":[4],"widely":[5],"used":[6],"in":[7,39,110,149,163,194],"identification":[8],"of":[9,55,126,129,139,151,160,179,188,211],"remotely":[10,86,229],"related":[11,87,230],"proteins.":[12],"Our":[13,167],"previous":[14],"study":[15],"found":[17],"that":[18,79,142,171],"the":[19,52,56,127,137,145,158,203],"query-seeded":[20,81],"sequence":[21,83,108,130,225],"iterative":[22,34,82],"can":[24],"reduce":[25],"homologous":[26],"over-extension":[27],"errors":[28],"and":[29,59,98,103,107,131,154,185,198,218,223],"greatly":[30],"improve":[31,51],"selectivity.":[32],"However,":[33],"remains":[37],"challenging":[38],"protein":[40,88,165,231],"functional":[41],"prediction.":[42],"More":[43],"sensitive":[44],"scoring":[45,114],"models":[46],"are":[47],"highly":[48],"needed":[49],"to":[50,121,214],"predictive":[53],"performance":[54],"alignment":[57,60],"methods,":[58],"annotation":[61,93,175],"with":[62,124,208],"better":[63],"visualization":[64],"also":[66],"become":[67],"imperative":[68],"for":[69,85,100,176,221],"result":[70],"interpretation.":[71],"Here":[72],"we":[73],"report":[74],"an":[75],"open-source":[76],"application":[77],"PSISearch2D":[78,90,143,156,172,227],"runs":[80],"detection.":[89,166],"retrieves":[91],"domain":[92,106,132],"from":[94],"Pfam,":[95],"UniProtKB,":[96,195],"CDD":[97],"PROSITE":[99],"resulting":[101],"hits":[102,123],"demonstrates":[104],"combined":[105],"alignments":[109],"novel":[111],"visualizations.":[112],"A":[113],"model":[115],"called":[116],"C-value":[117,140],"is":[118],"newly":[119],"defined":[120],"re-order":[122],"consideration":[125],"combination":[128],"alignments.":[133],"The":[134],"benchmarking":[135],"on":[136],"use":[138],"indicates":[141],"outperforms":[144],"original":[146,204],"PSISearch2":[147],"tool":[148],"terms":[150],"both":[152],"accuracy":[153],"specificity.":[155],"improves":[157],"characterization":[159,201],"unknown":[161,182,191],"proteins":[162,184,193],"remote":[164],"evaluation":[168],"tests":[169],"show":[170],"provided":[174],"77":[177],"695":[178],"139":[180],"503":[181],"bacteria":[183],"140":[186],"751":[187],"352":[189],"757":[190],"virus":[192],"about":[196],"2.3-fold":[197],"1.8-fold":[199],"more":[200],"than":[202],"PSISearch2,":[205],"respectively.":[206],"Together":[207],"advanced":[209],"features":[210],"auto-iteration":[212],"mode":[213],"handle":[215],"large-scale":[216],"data":[217],"optional":[219],"programs":[220],"global":[222],"local":[224],"alignments,":[226],"enhances":[228],"search.":[232]},"counts_by_year":[{"year":2021,"cited_by_count":1},{"year":2020,"cited_by_count":1}],"updated_date":"2026-05-21T06:26:12.895304","created_date":"2025-10-10T00:00:00"}
