{"id":"https://openalex.org/W2044128415","doi":"https://doi.org/10.1093/nar/gkh367","title":"The web server of IBM's Bioinformatics and Pattern Discovery group: 2004 update","display_name":"The web server of IBM's Bioinformatics and Pattern Discovery group: 2004 update","publication_year":2004,"publication_date":"2004-07-01","ids":{"openalex":"https://openalex.org/W2044128415","doi":"https://doi.org/10.1093/nar/gkh367","mag":"2044128415","pmid":"https://pubmed.ncbi.nlm.nih.gov/15215340"},"language":"en","primary_location":{"id":"doi:10.1093/nar/gkh367","is_oa":true,"landing_page_url":"https://doi.org/10.1093/nar/gkh367","pdf_url":"https://academic.oup.com/nar/article-pdf/32/suppl_2/W10/6207599/gkh367.pdf","source":{"id":"https://openalex.org/S134668137","display_name":"Nucleic Acids Research","issn_l":"0305-1048","issn":["0305-1048","1362-4954","1362-4962"],"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":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Nucleic Acids Research","raw_type":"journal-article"},"type":"article","indexed_in":["crossref","doaj","pubmed"],"open_access":{"is_oa":true,"oa_status":"bronze","oa_url":"https://academic.oup.com/nar/article-pdf/32/suppl_2/W10/6207599/gkh367.pdf","any_repository_has_fulltext":true},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5111979997","display_name":"Toan Huynh","orcid":"https://orcid.org/0000-0002-6455-3056"},"institutions":[],"countries":[],"is_corresponding":false,"raw_author_name":"T. Huynh","raw_affiliation_strings":["Bioinformatics and Pattern Discovery group, IBM T.J. Watson Research Center, PO Box 218, Yorktown Heights, NY 10598, USA"],"affiliations":[{"raw_affiliation_string":"Bioinformatics and Pattern Discovery group, IBM T.J. Watson Research Center, PO Box 218, Yorktown Heights, NY 10598, USA","institution_ids":[]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5054046136","display_name":"Isidore Rigoutsos","orcid":"https://orcid.org/0000-0003-1529-8631"},"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"]},{"id":"https://openalex.org/I1341412227","display_name":"IBM (United States)","ror":"https://ror.org/05hh8d621","country_code":"US","type":"company","lineage":["https://openalex.org/I1341412227"]}],"countries":["US"],"is_corresponding":true,"raw_author_name":"I. Rigoutsos","raw_affiliation_strings":["Bioinformatics and Pattern Discovery group, IBM T.J. Watson Research Center, PO Box 218, Yorktown Heights, NY 10598, USA and","Department of Chemical Engineering, Massachusetts Institute of Technology, Cambridge, MA 02139, USA"],"affiliations":[{"raw_affiliation_string":"Bioinformatics and Pattern Discovery group, IBM T.J. Watson Research Center, PO Box 218, Yorktown Heights, NY 10598, USA and","institution_ids":["https://openalex.org/I1341412227"]},{"raw_affiliation_string":"Department of Chemical Engineering, Massachusetts Institute of Technology, Cambridge, MA 02139, USA","institution_ids":["https://openalex.org/I63966007"]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":2,"corresponding_author_ids":["https://openalex.org/A5054046136"],"corresponding_institution_ids":["https://openalex.org/I1341412227","https://openalex.org/I63966007"],"apc_list":{"value":3630,"currency":"USD","value_usd":3630},"apc_paid":null,"fwci":0.8819,"has_fulltext":true,"cited_by_count":12,"citation_normalized_percentile":{"value":0.71924515,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":{"min":90,"max":96},"biblio":{"volume":"32","issue":"Web Server","first_page":"W10","last_page":"W15"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T11103","display_name":"Antimicrobial Peptides and Activities","score":0.9994000196456909,"subfield":{"id":"https://openalex.org/subfields/2404","display_name":"Microbiology"},"field":{"id":"https://openalex.org/fields/24","display_name":"Immunology and Microbiology"},"domain":{"id":"https://openalex.org/domains/1","display_name":"Life Sciences"}},"topics":[{"id":"https://openalex.org/T11103","display_name":"Antimicrobial Peptides and Activities","score":0.9994000196456909,"subfield":{"id":"https://openalex.org/subfields/2404","display_name":"Microbiology"},"field":{"id":"https://openalex.org/fields/24","display_name":"Immunology and Microbiology"},"domain":{"id":"https://openalex.org/domains/1","display_name":"Life Sciences"}},{"id":"https://openalex.org/T10521","display_name":"RNA and protein synthesis mechanisms","score":0.9984999895095825,"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":0.9980999827384949,"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"}}],"keywords":[{"id":"https://openalex.org/keywords/biology","display_name":"Biology","score":0.6975566148757935},{"id":"https://openalex.org/keywords/ibm","display_name":"IBM","score":0.6152352690696716},{"id":"https://openalex.org/keywords/annotation","display_name":"Annotation","score":0.612199604511261},{"id":"https://openalex.org/keywords/web-server","display_name":"Web server","score":0.550926148891449},{"id":"https://openalex.org/keywords/sequence-database","display_name":"Sequence database","score":0.47899219393730164},{"id":"https://openalex.org/keywords/computational-biology","display_name":"Computational biology","score":0.47420695424079895},{"id":"https://openalex.org/keywords/genome","display_name":"Genome","score":0.45528778433799744},{"id":"https://openalex.org/keywords/bioinformatics","display_name":"Bioinformatics","score":0.4531446397304535},{"id":"https://openalex.org/keywords/genomics","display_name":"Genomics","score":0.4207058250904083},{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.3533051013946533},{"id":"https://openalex.org/keywords/world-wide-web","display_name":"World Wide Web","score":0.29974716901779175},{"id":"https://openalex.org/keywords/genetics","display_name":"Genetics","score":0.278716504573822},{"id":"https://openalex.org/keywords/the-internet","display_name":"The Internet","score":0.2279897928237915},{"id":"https://openalex.org/keywords/gene","display_name":"Gene","score":0.1911267638206482}],"concepts":[{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.6975566148757935},{"id":"https://openalex.org/C70388272","wikidata":"https://www.wikidata.org/wiki/Q5968558","display_name":"IBM","level":2,"score":0.6152352690696716},{"id":"https://openalex.org/C2776321320","wikidata":"https://www.wikidata.org/wiki/Q857525","display_name":"Annotation","level":2,"score":0.612199604511261},{"id":"https://openalex.org/C11392498","wikidata":"https://www.wikidata.org/wiki/Q11288","display_name":"Web server","level":3,"score":0.550926148891449},{"id":"https://openalex.org/C41584329","wikidata":"https://www.wikidata.org/wiki/Q175902","display_name":"Sequence database","level":3,"score":0.47899219393730164},{"id":"https://openalex.org/C70721500","wikidata":"https://www.wikidata.org/wiki/Q177005","display_name":"Computational biology","level":1,"score":0.47420695424079895},{"id":"https://openalex.org/C141231307","wikidata":"https://www.wikidata.org/wiki/Q7020","display_name":"Genome","level":3,"score":0.45528778433799744},{"id":"https://openalex.org/C60644358","wikidata":"https://www.wikidata.org/wiki/Q128570","display_name":"Bioinformatics","level":1,"score":0.4531446397304535},{"id":"https://openalex.org/C189206191","wikidata":"https://www.wikidata.org/wiki/Q222046","display_name":"Genomics","level":4,"score":0.4207058250904083},{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.3533051013946533},{"id":"https://openalex.org/C136764020","wikidata":"https://www.wikidata.org/wiki/Q466","display_name":"World Wide Web","level":1,"score":0.29974716901779175},{"id":"https://openalex.org/C54355233","wikidata":"https://www.wikidata.org/wiki/Q7162","display_name":"Genetics","level":1,"score":0.278716504573822},{"id":"https://openalex.org/C110875604","wikidata":"https://www.wikidata.org/wiki/Q75","display_name":"The Internet","level":2,"score":0.2279897928237915},{"id":"https://openalex.org/C104317684","wikidata":"https://www.wikidata.org/wiki/Q7187","display_name":"Gene","level":2,"score":0.1911267638206482},{"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/C171250308","wikidata":"https://www.wikidata.org/wiki/Q11468","display_name":"Nanotechnology","level":1,"score":0.0}],"mesh":[{"descriptor_ui":"D000890","descriptor_name":"Anti-Infective Agents","qualifier_ui":"Q000737","qualifier_name":"chemistry","is_major_topic":false},{"descriptor_ui":"D000890","descriptor_name":"Anti-Infective Agents","qualifier_ui":"Q000737","qualifier_name":"chemistry","is_major_topic":false},{"descriptor_ui":"D000890","descriptor_name":"Anti-Infective Agents","qualifier_ui":"Q000737","qualifier_name":"chemistry","is_major_topic":false},{"descriptor_ui":"D010455","descriptor_name":"Peptides","qualifier_ui":"Q000737","qualifier_name":"chemistry","is_major_topic":false},{"descriptor_ui":"D010455","descriptor_name":"Peptides","qualifier_ui":"Q000737","qualifier_name":"chemistry","is_major_topic":false},{"descriptor_ui":"D010455","descriptor_name":"Peptides","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":"D011506","descriptor_name":"Proteins","qualifier_ui":"Q000737","qualifier_name":"chemistry","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":"D015870","descriptor_name":"Gene Expression","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D015870","descriptor_name":"Gene Expression","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D015870","descriptor_name":"Gene Expression","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D016678","descriptor_name":"Genome","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D016678","descriptor_name":"Genome","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D016678","descriptor_name":"Genome","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D017421","descriptor_name":"Sequence Analysis","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D017421","descriptor_name":"Sequence Analysis","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D017421","descriptor_name":"Sequence Analysis","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D017433","descriptor_name":"Protein Structure, Secondary","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D017433","descriptor_name":"Protein Structure, Secondary","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D017433","descriptor_name":"Protein Structure, Secondary","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":true},{"descriptor_ui":"D019295","descriptor_name":"Computational Biology","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":true},{"descriptor_ui":"D020407","descriptor_name":"Internet","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D020407","descriptor_name":"Internet","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D020407","descriptor_name":"Internet","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D030541","descriptor_name":"Databases, Genetic","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D030541","descriptor_name":"Databases, Genetic","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D030541","descriptor_name":"Databases, Genetic","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false}],"locations_count":5,"locations":[{"id":"doi:10.1093/nar/gkh367","is_oa":true,"landing_page_url":"https://doi.org/10.1093/nar/gkh367","pdf_url":"https://academic.oup.com/nar/article-pdf/32/suppl_2/W10/6207599/gkh367.pdf","source":{"id":"https://openalex.org/S134668137","display_name":"Nucleic Acids Research","issn_l":"0305-1048","issn":["0305-1048","1362-4954","1362-4962"],"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":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Nucleic Acids Research","raw_type":"journal-article"},{"id":"pmid:15215340","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/15215340","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":"Nucleic acids research","raw_type":null},{"id":"pmh:oai:CiteSeerX.psu:10.1.1.97.4143","is_oa":false,"landing_page_url":"http://citeseerx.ist.psu.edu/viewdoc/summary?doi=10.1.1.97.4143","pdf_url":null,"source":null,"license":null,"license_id":null,"version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"http://nar.oxfordjournals.org/cgi/reprint/32/suppl_2/W10.pdf","raw_type":"text"},{"id":"pmh:oai:europepmc.org:162746","is_oa":false,"landing_page_url":"http://europepmc.org/pmc/articles/PMC441505","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":"","raw_type":"Text"},{"id":"pmh:oai:pubmedcentral.nih.gov:441505","is_oa":true,"landing_page_url":"https://www.ncbi.nlm.nih.gov/pmc/articles/441505","pdf_url":null,"source":{"id":"https://openalex.org/S2764455111","display_name":"PubMed Central","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":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"Nucleic Acids Res","raw_type":"Text"}],"best_oa_location":{"id":"doi:10.1093/nar/gkh367","is_oa":true,"landing_page_url":"https://doi.org/10.1093/nar/gkh367","pdf_url":"https://academic.oup.com/nar/article-pdf/32/suppl_2/W10/6207599/gkh367.pdf","source":{"id":"https://openalex.org/S134668137","display_name":"Nucleic Acids Research","issn_l":"0305-1048","issn":["0305-1048","1362-4954","1362-4962"],"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":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Nucleic Acids Research","raw_type":"journal-article"},"sustainable_development_goals":[],"awards":[],"funders":[],"has_content":{"pdf":true,"grobid_xml":true},"content_urls":{"pdf":"https://content.openalex.org/works/W2044128415.pdf","grobid_xml":"https://content.openalex.org/works/W2044128415.grobid-xml"},"referenced_works_count":24,"referenced_works":["https://openalex.org/W1498281580","https://openalex.org/W1513998118","https://openalex.org/W1531997526","https://openalex.org/W1536270671","https://openalex.org/W1565130750","https://openalex.org/W1993146753","https://openalex.org/W2001273972","https://openalex.org/W2001818631","https://openalex.org/W2004072996","https://openalex.org/W2028903194","https://openalex.org/W2037118986","https://openalex.org/W2037166272","https://openalex.org/W2054602599","https://openalex.org/W2060593022","https://openalex.org/W2066452760","https://openalex.org/W2067591792","https://openalex.org/W2076368829","https://openalex.org/W2104061813","https://openalex.org/W2116569795","https://openalex.org/W2148853951","https://openalex.org/W2154199886","https://openalex.org/W2162828041","https://openalex.org/W4235333781","https://openalex.org/W4389615578"],"related_works":["https://openalex.org/W3126131865","https://openalex.org/W2361861616","https://openalex.org/W2044344400","https://openalex.org/W2263699433","https://openalex.org/W4253186488","https://openalex.org/W2377979023","https://openalex.org/W1996938127","https://openalex.org/W2083611981","https://openalex.org/W2218034408","https://openalex.org/W2105364679"],"abstract_inverted_index":{"In":[0],"this":[1],"report,":[2],"we":[3],"provide":[4],"an":[5,54],"update":[6],"on":[7,15],"the":[8,16,32,49,69,78,85,93,102,144],"services":[9],"and":[10,22,46,77,101,120,127,134],"content":[11],"which":[12,28],"are":[13,123,147],"available":[14,125,148],"web":[17],"server":[18],"of":[19,40,57,71,75,80,87,104],"IBM's":[20],"Bioinformatics":[21],"Pattern":[23],"Discovery":[24],"group.":[25],"The":[26,132],"server,":[27],"is":[29,53],"operational":[30],"around":[31],"clock,":[33],"provides":[34],"access":[35],"to":[36,84,138],"a":[37],"large":[38],"number":[39,56],"methods":[41],"that":[42,59],"have":[43],"been":[44],"developed":[45],"published":[47],"by":[48],"group's":[50],"members.":[51],"There":[52],"increasing":[55],"problems":[58,66],"these":[60,65],"tools":[61,133],"can":[62,128],"help":[63],"tackle;":[64],"range":[67],"from":[68,95,99,141],"discovery":[70,86],"patterns":[72],"in":[73,89],"streams":[74],"events":[76],"computation":[79],"multiple":[81],"sequence":[82],"alignments,":[83],"genes":[88],"nucleic":[90],"acid":[91,106],"sequences,":[92],"identification--directly":[94],"sequence--of":[96],"structural":[97],"deviations":[98],"alpha-helicity":[100],"annotation":[103],"amino":[105],"sequences":[107],"for":[108,113],"antimicrobial":[109],"activity.":[110],"Additionally,":[111],"annotations":[112,146],"more":[114],"than":[115],"130":[116],"archaeal,":[117],"bacterial,":[118],"eukaryotic":[119],"viral":[121],"genomes":[122],"now":[124],"on-line":[126],"be":[129,139],"searched":[130],"interactively.":[131],"code":[135],"bundles":[136],"continue":[137],"accessible":[140],"http://cbcsrv.watson.ibm.com/Tspd.html":[142],"whereas":[143],"genomics":[145],"at":[149],"http://cbcsrv.watson.ibm.com/Annotations/.":[150]},"counts_by_year":[{"year":2019,"cited_by_count":1},{"year":2017,"cited_by_count":1},{"year":2012,"cited_by_count":2}],"updated_date":"2026-04-04T16:13:02.066488","created_date":"2025-10-10T00:00:00"}
