{"id":"https://openalex.org/W2418228460","doi":"https://doi.org/10.1093/bib/bbp031","title":"Editorial","display_name":"Editorial","publication_year":2009,"publication_date":"2009-06-07","ids":{"openalex":"https://openalex.org/W2418228460","doi":"https://doi.org/10.1093/bib/bbp031","mag":"2418228460","pmid":"https://pubmed.ncbi.nlm.nih.gov/19505887"},"language":"nl","primary_location":{"id":"doi:10.1093/bib/bbp031","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bib/bbp031","pdf_url":"https://academic.oup.com/bib/article-pdf/10/4/343/851550/bbp031.pdf","source":{"id":"https://openalex.org/S91767247","display_name":"Briefings in Bioinformatics","issn_l":"1467-5463","issn":["1467-5463","1477-4054"],"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":"Briefings in Bioinformatics","raw_type":"journal-article"},"type":"editorial","indexed_in":["crossref","doaj","pubmed"],"open_access":{"is_oa":true,"oa_status":"bronze","oa_url":"https://academic.oup.com/bib/article-pdf/10/4/343/851550/bbp031.pdf","any_repository_has_fulltext":false},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5096788181","display_name":"W. Dubitzky","orcid":null},"institutions":[],"countries":[],"is_corresponding":true,"raw_author_name":"W. Dubitzky","raw_affiliation_strings":[],"raw_orcid":null,"affiliations":[]}],"institutions":[],"countries_distinct_count":0,"institutions_distinct_count":0,"corresponding_author_ids":["https://openalex.org/A5096788181"],"corresponding_institution_ids":[],"apc_list":{"value":3885,"currency":"USD","value_usd":3885},"apc_paid":null,"fwci":null,"has_fulltext":false,"cited_by_count":3,"citation_normalized_percentile":null,"cited_by_percentile_year":null,"biblio":{"volume":"10","issue":"4","first_page":"343","last_page":"344"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T10885","display_name":"Gene expression and cancer classification","score":0.5146999955177307,"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/T10885","display_name":"Gene expression and cancer classification","score":0.5146999955177307,"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/T12766","display_name":"Interdisciplinary Research and Collaboration","score":0.4848000109195709,"subfield":{"id":"https://openalex.org/subfields/1802","display_name":"Information Systems and Management"},"field":{"id":"https://openalex.org/fields/18","display_name":"Decision Sciences"},"domain":{"id":"https://openalex.org/domains/2","display_name":"Social Sciences"}},{"id":"https://openalex.org/T11970","display_name":"Molecular Biology Techniques and Applications","score":0.4406999945640564,"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":0.5355806946754456}],"concepts":[{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.5355806946754456}],"mesh":[{"descriptor_ui":"D010506","descriptor_name":"Periodicals as Topic","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D010506","descriptor_name":"Periodicals as Topic","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D010506","descriptor_name":"Periodicals as Topic","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}],"locations_count":2,"locations":[{"id":"doi:10.1093/bib/bbp031","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bib/bbp031","pdf_url":"https://academic.oup.com/bib/article-pdf/10/4/343/851550/bbp031.pdf","source":{"id":"https://openalex.org/S91767247","display_name":"Briefings in Bioinformatics","issn_l":"1467-5463","issn":["1467-5463","1477-4054"],"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":"Briefings in Bioinformatics","raw_type":"journal-article"},{"id":"pmid:19505887","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/19505887","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":"Briefings in bioinformatics","raw_type":"Editorial"}],"best_oa_location":{"id":"doi:10.1093/bib/bbp031","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bib/bbp031","pdf_url":"https://academic.oup.com/bib/article-pdf/10/4/343/851550/bbp031.pdf","source":{"id":"https://openalex.org/S91767247","display_name":"Briefings in Bioinformatics","issn_l":"1467-5463","issn":["1467-5463","1477-4054"],"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":"Briefings in Bioinformatics","raw_type":"journal-article"},"sustainable_development_goals":[],"awards":[],"funders":[],"has_content":{"pdf":true,"grobid_xml":false},"content_urls":{"pdf":"https://content.openalex.org/works/W2418228460.pdf"},"referenced_works_count":1,"referenced_works":["https://openalex.org/W2091940856"],"related_works":["https://openalex.org/W2899084033","https://openalex.org/W2748952813","https://openalex.org/W2390279801","https://openalex.org/W2358668433","https://openalex.org/W2376932109","https://openalex.org/W2382290278","https://openalex.org/W2350741829","https://openalex.org/W2130043461","https://openalex.org/W2530322880","https://openalex.org/W1596801655"],"abstract_inverted_index":{"Bioinformatics":[0,1037],"and":[1,15,23,44,48,63,71,79,89,111,132,135,153,169,180,187,191,200,233,249,262,266,274,284,291,316,318,338,342,352,388,402,413,434,474,479,486,491,496,504,511,556,645,693,699,714,734,777,782,801,811,814,850,855,860,868,873,881,901,919,931,944,987,1026,1047,1065,1118,1129],"computational":[2,64,80,121,133,154,339,460,721,793,815,997,1048,1127],"biology":[3,122,134,155,340,461,795,934,998,1128],"refer":[4],"to":[5,25,67,141,159,308,407,425,463,507,549,569,594,676,702,741,774,838,879,907,971,1014,1023,1078,1085,1096,1115],"an":[6,142,299,328,617,683,799,976,978,1039],"interdisciplinary":[7],"field":[8],"which":[9,440,1019],"is":[10,75,96,101,172,211,242,538,588,607,625,674,718,846,891,962,1110],"concerned":[11,719],"with":[12,255,530,720,935],"the":[13,38,54,91,94,105,115,136,197,201,214,227,243,277,331,334,349,362,373,381,384,398,408,500,524,539,544,579,628,639,647,655,688,694,724,738,746,766,784,806,818,831,841,864,871,894,949,953,968,993,1073,1081,1123],"development":[14,869],"application":[16],"of":[17,46,108,165,189,196,208,219,226,230,246,264,272,279,330,333,336,355,364,375,383,390,397,410,422,445,450,481,484,502,523,526,535,541,546,553,578,627,642,650,660,696,726,729,732,768,786,805,817,830,866,875,975,1018,1034,1042,1125],"techniques":[18,36,66,232,722],"from":[19,238,253,348,543,572,745,983,1011],"computer":[20],"science,":[21],"mathematics":[22],"statistics":[24],"address":[26],"biological":[27,47,69,137,167,661,704,727,883,1021],"problems.":[28],"One":[29,126,223],"could":[30,127,615],"argue":[31,129],"that":[32,76,90,113,130,344,514,590,947,1052,1107],"bioinformatics":[33,117,131,152,337,1046],"concentrates":[34],"on":[35,53,58,442,468,752,870,893,928,939,1003,1009],"facilitating":[37,723,783],"acquisition,":[39],"storage,":[40],"organization,":[41],"archiving,":[42],"analysis":[43,261,394,878,890],"visualization":[45],"medical":[49],"data.":[50],"Computational":[51],"biology,":[52],"other":[55,256],"hand,":[56],"focuses":[57,751],"theoretical":[59],"methods,":[60],"mathematical":[61,813],"modeling":[62,315,478,930],"simulation":[65,234,932],"study":[68,545],"systems":[70,147,210,235,794,1131],"processes.":[72],"My":[73],"view":[74,207,624,946],"both":[77,1053],"areas\u2014bioinformatics":[78],"biology\u2014are":[81],"merging":[82,195,1067],"into":[83,429,678,707,1068],"a":[84,157,161,183,204,520,550,560,584,597,679,708,902,914,923,936,945,1024,1069,1091,1113],"single":[85,561,1092],"but":[86],"broader":[87,144,1070],"discipline":[88,145],"distinction":[92],"between":[93],"two":[95,198],"becoming":[97],"increasingly":[98,300],"blurred.":[99],"This":[100,171,623,1006],"also":[102,304,763],"evidenced":[103],"by":[104,175,182,213,666,737,848,964,996,1060],"growing":[106,244,640],"number":[107,387],"scientific":[109,280],"journals":[110],"conferences":[112],"carry":[114],"terms":[116],"as":[118,120,438,955,1112],"well":[119],"in":[123,151,177,216,221,239,276,324,378,380,576,583,599,620,758,827,853,933,1000,1036,1045,1062,1080,1122],"their":[124,602],"title.":[125],"even":[128,143,1087,1100,1130],"sciences":[138],"are":[139,823,1055,1083],"converging":[140],"called":[146],"biology.":[148,357,1049,1132],"Recent":[149],"developments":[150,421,1044,1121],"have":[156,457,595,1077],"tendency":[158],"attempt":[160],"more":[162,205,288,608,802,1088],"holistic":[163],"understanding":[164,804],"complex":[166,856,898],"processes":[168,1022],"systems.":[170,884],"partly":[173],"pushed":[174],"advances":[176,1061],"experimental":[178,231,247,265,643,1063],"technologies":[179,343,433,475,701],"pulled":[181],"constantly":[184],"increasing":[185,350,386],"capacity":[186],"sophistication":[188],"information":[190,273,290,700],"communication":[192],"technologies.":[193],"The":[194,322,471,533,761],"disciplines":[199],"trend":[202],"towards":[203],"comprehensive":[206,803,1101],"living":[209],"reflected":[212],"contributions":[215],"this":[217,325,365,536,631,749,1032,1108],"issue":[218,326,1033,1093,1109],"Briefings":[220,1035],"Bioinformatics.":[222],"important":[224],"consequence":[225],"ever-increasing":[228],"power":[229,767],"(generating":[236],"data":[237,248,251,268,309,311,313,351,376,485,644],"silico":[240],"experiments)":[241],"volume":[245],"derived":[250,267],"obtained":[252],"integration":[254,377,480],"data,":[257,289],"annotation,":[258],"etc.":[259,673],"Furthermore,":[260,567],"interpretation":[263],"yields":[269],"considerable":[270,306,825],"volumes":[271],"knowledge":[275,292,319,353,487,664,705,829],"form":[278],"literature,":[281,667],"ontologies,":[282,668],"models":[283,943,999,1010],"so":[285],"on.":[286],"While":[287,809],"opens":[293],"up":[294],"great":[295],"opportunities":[296],"for":[297,488,519,630,654,754],"\u2018seeing\u2019":[298],"\u2018bigger":[301],"picture\u2019,":[302],"it":[303,587],"poses":[305],"challenges":[307,346,436,1074],"handling,":[310],"integration,":[312],"analysis,":[314],"simulation,":[317],"management":[320],"[1].":[321],"articles":[323],"present":[327],"overview":[329],"state":[332],"art":[335],"methods":[341,473,592,753,872],"tackle":[345],"arising":[347,571],"complexity":[354,570,781],"modern":[356],"Below":[358],"I":[359,1030,1104],"briefly":[360],"outline":[361],"motivation":[363,740],"issue's":[366],"articles.":[367],"Kei-Hoi":[368],"Cheung":[369],"et":[370,455,635],"al.":[371,456,636],"investigate":[372],"status":[374,501,865,974],"neuroscience":[379,391,400,415],"light":[382,1002],"rapidly":[385],"content":[389],"databases.":[392,416],"Their":[393,685],"covers":[395],"some":[396],"major":[399],"databases":[401,770],"revolves":[403],"around":[404],"several":[405,697],"approaches":[406,424,462,506,796],"problem":[409,680],"registering,":[411],"discovering":[412],"integrating":[414],"Mihai":[417],"Pop":[418],"reviews":[419,687,791,992],"recent":[420],"algorithmic":[423],"genome":[426],"assembly,":[427],"taking":[428],"account":[430],"next-generation":[431],"sequencing":[432,444],"new":[435],"such":[437],"metagenomics":[439],"relies":[441],"large-scale":[443,551],"entire":[446],"microbial":[447],"communities":[448],"instead":[449],"isolated":[451],"genomes.":[452,622],"Francisco":[453],"Azuaje":[454],"analyzed":[458],"contemporary":[459,792,926,1043],"cardiovascular":[464],"biomarker":[465],"discovery":[466],"based":[467,892],"\u2018omic\u2019":[469],"information.":[470],"investigated":[472],"include":[476],"predictive":[477],"different":[482,769],"types":[483],"screening,":[489],"diagnostics":[490],"prognostics":[492],"applications.":[493],"Jeffrey":[494],"Skolnick":[495],"Michal":[497],"Brylinski":[498],"review":[499,537,750,1007],"sequence-":[503],"structure-based":[505],"protein":[508,605,611,613],"function":[509,906],"inference":[510,725],"ligand":[512],"screening":[513],"can":[515,771],"provide":[516],"functional":[517],"insights":[518],"significant":[521],"fraction":[522],"\u223c50%":[525,577],"open":[527,580],"reading":[528,581],"frames":[529,582],"unassigned":[531],"function.":[532,603],"context":[534],"shifting":[540],"emphasis":[542],"individual":[547],"molecules":[548],"examination":[552],"all":[554,1017],"genes":[555],"gene":[557],"products":[558],"within":[559,913],"organism":[562,979],"or":[563,1099],"across":[564],"multiple":[565],"organisms.":[566,857],"due":[568],"large":[573],"evolutionary":[574],"distances":[575],"given":[585],"proteome,":[586],"suggested":[589],"sequence-based":[591],"appear":[593],"reached":[596],"limit":[598],"accurately":[600],"predicting":[601,755],"Since":[604],"structure":[606,614],"conserved":[609],"than":[610,682],"sequence,":[612],"play":[616],"essential":[618],"role":[619,994],"annotating":[621],"one":[626],"motivations":[629],"review.":[632],"Erick":[633],"Antezana":[634],"look":[637,924],"beyond":[638],"mountains":[641],"anticipate":[646,1119],"rapid":[648],"approach":[649],"another":[651],"huge":[652],"challenge":[653],"life":[656],"sciences\u2014the":[657],"surging":[658],"oceans":[659],"knowledge.":[662],"Biological":[663],"captured":[665],"models,":[669],"encyclopedias,":[670],"expert":[671],"systems,":[672],"threatening":[675],"turn":[677],"rather":[681],"asset.":[684],"article":[686,717,961,991],"benefits,":[689],"trends,":[690],"current":[691],"possibilities,":[692],"potential":[695],"initiatives":[698],"organize":[703],"sources":[706],"readily":[709],"exploitable":[710],"\u2018resourceome\u2019.":[711],"Wei-Po":[712],"Lee":[713],"Wen-Shyong":[715],"Tzou's":[716],"networks":[728,757],"varying":[730],"levels":[731],"accuracy":[733],"complexity.":[735],"Guided":[736],"scientists\u2019":[739],"generate":[742],"testable":[743,787],"hypotheses":[744],"inferred":[747],"networks,":[748],"gene-regulatory":[756],"mammalian":[759],"cells.":[760],"authors":[762],"show":[764],"how":[765,840],"be":[772,1086,1097],"used":[773],"identify":[775,908],"modules":[776],"sub-networks,":[778],"thereby":[779],"reducing":[780],"generation":[785],"hypotheses.":[788],"Attila":[789],"Csik\u00e1sz-Nagy":[790],"aimed":[797],"at":[798,925],"improved":[800],"cell":[807,819,832,843,950],"cycle.":[808,833],"detailed":[810],"validated":[812],"representations":[816],"cycle":[820,844],"exist,":[821],"there":[822],"still":[824,1056,1105],"gaps":[826],"our":[828],"For":[834],"instance,":[835],"we":[836],"need":[837],"understand":[839,882],"core":[842],"machinery":[845],"controlled":[847],"internal":[849],"external":[851],"signals":[852],"simple":[854],"Karthik":[858],"Raman":[859],"Nagasuma":[861],"Chandra":[862],"analyze":[863],"research":[867],"tools":[874],"flux":[876,888,911],"balance":[877,889],"model":[880],"Unlike":[885],"mechanistic":[886],"simulations,":[887],"stoichiometric":[895],"matrix":[896],"(representing":[897],"reaction":[899,910],"networks)":[900],"biologically":[903],"relevant":[904],"objective":[905],"optimal":[909],"distributions":[912],"system.":[915],"Dawn":[916],"C":[917],"Walker":[918],"Jennifer":[920],"Southgate":[921],"take":[922],"work":[927],"agent-based":[929],"particular":[937],"focus":[938],"multi-scale":[940],"phenomena,":[941],"\u2018middle-out\u2019":[942],"positions":[948],"(and":[951],"not":[952],"genome)":[954],"fundamental":[956,965],"abstraction":[957],"unit.":[958],"Niall":[959],"Palfreyman's":[960],"motivated":[963],"questions":[966],"regarding":[967],"ontological":[969],"(relating":[970],"existence,":[972],"reality)":[973],"organism\u2014does":[977],"possess":[980],"existence":[981],"distinguishable":[982],"its":[984],"molecular":[985,1012],"composition":[986],"social":[988],"environment?":[989],"His":[990],"played":[995],"shedding":[1001],"these":[1004,1075],"questions.":[1005],"draws":[1008],"kinetics":[1013],"niche":[1015],"construction,":[1016],"trace":[1020],"causal,":[1025],"therefore":[1027],"existent,":[1028],"source.":[1029],"believe":[1031,1106],"provides":[1038],"interesting":[1040],"\u2018snapshot\u2019":[1041],"It":[1050],"suggests":[1051],"areas":[1054],"evolving":[1057],"(pushed":[1058],"mainly":[1059],"techniques)":[1064],"possibly":[1066],"discipline.":[1071],"Moreover,":[1072],"fields":[1076,1124],"face":[1079],"future":[1082,1120],"likely":[1084],"complex.":[1089],"Clearly,":[1090],"cannot":[1094],"claim":[1095],"complete":[1098],"nor":[1102],"representative.":[1103],"useful":[1111],"\u2018yardstick\u2019":[1114],"gage":[1116],"ongoing":[1117],"bioinformatics,":[1126]},"counts_by_year":[{"year":2018,"cited_by_count":1}],"updated_date":"2026-08-21T09:56:20.448147","created_date":"2016-06-24T00:00:00"}