{"id":"https://openalex.org/W2004176454","doi":"https://doi.org/10.1016/s1672-0229(07)60017-5","title":"A Survey of the Availability of Primary Bioinformatics Web Resources","display_name":"A Survey of the Availability of Primary Bioinformatics Web Resources","publication_year":2007,"publication_date":"2007-03-01","ids":{"openalex":"https://openalex.org/W2004176454","doi":"https://doi.org/10.1016/s1672-0229(07)60017-5","mag":"2004176454","pmid":"https://pubmed.ncbi.nlm.nih.gov/17572367"},"language":"en","primary_location":{"id":"doi:10.1016/s1672-0229(07)60017-5","is_oa":true,"landing_page_url":"https://doi.org/10.1016/s1672-0229(07)60017-5","pdf_url":null,"source":{"id":"https://openalex.org/S155547894","display_name":"Genomics Proteomics & Bioinformatics","issn_l":"1672-0229","issn":["1672-0229","2210-3244"],"is_oa":true,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310320990","host_organization_name":"Elsevier BV","host_organization_lineage":["https://openalex.org/P4310320990"],"host_organization_lineage_names":["Elsevier BV"],"type":"journal"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Genomics, Proteomics &amp; Bioinformatics","raw_type":"journal-article"},"type":"article","indexed_in":["crossref","doaj","pubmed"],"open_access":{"is_oa":true,"oa_status":"gold","oa_url":"https://doi.org/10.1016/s1672-0229(07)60017-5","any_repository_has_fulltext":false},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5029580586","display_name":"Trias Thireou","orcid":"https://orcid.org/0000-0002-6894-0774"},"institutions":[{"id":"https://openalex.org/I4210093138","display_name":"Biomedical Research Foundation of the Academy of Athens","ror":"https://ror.org/00gban551","country_code":"GR","type":"nonprofit","lineage":["https://openalex.org/I4210093138"]},{"id":"https://openalex.org/I8901234","display_name":"Foundation for Research and Technology Hellas","ror":"https://ror.org/052rphn09","country_code":"GR","type":"facility","lineage":["https://openalex.org/I8901234"]}],"countries":["GR"],"is_corresponding":false,"raw_author_name":"Trias Thireou","raw_affiliation_strings":["Biomedical Informatics Unit, Foundation for Biomedical Research of the Academy of Athens , Athens, 11527 , Greece","Institute of Computer Science, Foundation for Research and Technology\u2013Hellas , Heraklion, Crete, 71110 , Greece"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Biomedical Informatics Unit, Foundation for Biomedical Research of the Academy of Athens , Athens, 11527 , Greece","institution_ids":["https://openalex.org/I4210093138"]},{"raw_affiliation_string":"Institute of Computer Science, Foundation for Research and Technology\u2013Hellas , Heraklion, Crete, 71110 , Greece","institution_ids":["https://openalex.org/I8901234"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5058322678","display_name":"George M. Spyrou","orcid":"https://orcid.org/0000-0002-2470-3363"},"institutions":[{"id":"https://openalex.org/I4210093138","display_name":"Biomedical Research Foundation of the Academy of Athens","ror":"https://ror.org/00gban551","country_code":"GR","type":"nonprofit","lineage":["https://openalex.org/I4210093138"]}],"countries":["GR"],"is_corresponding":false,"raw_author_name":"George Spyrou","raw_affiliation_strings":["Biomedical Informatics Unit, Foundation for Biomedical Research of the Academy of Athens , Athens, 11527 , Greece"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Biomedical Informatics Unit, Foundation for Biomedical Research of the Academy of Athens , Athens, 11527 , Greece","institution_ids":["https://openalex.org/I4210093138"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5023333340","display_name":"Vassilis Atlamazoglou","orcid":null},"institutions":[{"id":"https://openalex.org/I4210093138","display_name":"Biomedical Research Foundation of the Academy of Athens","ror":"https://ror.org/00gban551","country_code":"GR","type":"nonprofit","lineage":["https://openalex.org/I4210093138"]}],"countries":["GR"],"is_corresponding":true,"raw_author_name":"Vassilis Atlamazoglou","raw_affiliation_strings":["Biomedical Informatics Unit, Foundation for Biomedical Research of the Academy of Athens , Athens, 11527 , Greece"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Biomedical Informatics Unit, Foundation for Biomedical Research of the Academy of Athens , Athens, 11527 , Greece","institution_ids":["https://openalex.org/I4210093138"]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":3,"corresponding_author_ids":["https://openalex.org/A5023333340"],"corresponding_institution_ids":["https://openalex.org/I4210093138"],"apc_list":{"value":3500,"currency":"USD","value_usd":3500},"apc_paid":{"value":3500,"currency":"USD","value_usd":3500},"fwci":2.4861,"has_fulltext":false,"cited_by_count":10,"citation_normalized_percentile":{"value":0.91279212,"is_in_top_1_percent":false,"is_in_top_10_percent":true},"cited_by_percentile_year":{"min":94,"max":96},"biblio":{"volume":"5","issue":"1","first_page":"70","last_page":"76"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T13976","display_name":"Web visibility and informetrics","score":0.9607999920845032,"subfield":{"id":"https://openalex.org/subfields/1710","display_name":"Information Systems"},"field":{"id":"https://openalex.org/fields/17","display_name":"Computer Science"},"domain":{"id":"https://openalex.org/domains/3","display_name":"Physical Sciences"}},"topics":[{"id":"https://openalex.org/T13976","display_name":"Web visibility and informetrics","score":0.9607999920845032,"subfield":{"id":"https://openalex.org/subfields/1710","display_name":"Information Systems"},"field":{"id":"https://openalex.org/fields/17","display_name":"Computer Science"},"domain":{"id":"https://openalex.org/domains/3","display_name":"Physical Sciences"}}],"keywords":[{"id":"https://openalex.org/keywords/unix","display_name":"Unix","score":0.6619918346405029},{"id":"https://openalex.org/keywords/web-server","display_name":"Web server","score":0.6294385194778442},{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.6198504567146301},{"id":"https://openalex.org/keywords/world-wide-web","display_name":"World Wide Web","score":0.5387725234031677},{"id":"https://openalex.org/keywords/web-application","display_name":"Web application","score":0.5120366215705872},{"id":"https://openalex.org/keywords/web-resource","display_name":"Web resource","score":0.4651634991168976},{"id":"https://openalex.org/keywords/database","display_name":"Database","score":0.4518513083457947},{"id":"https://openalex.org/keywords/software","display_name":"Software","score":0.4348299205303192},{"id":"https://openalex.org/keywords/resource","display_name":"Resource (disambiguation)","score":0.432253897190094},{"id":"https://openalex.org/keywords/the-internet","display_name":"The Internet","score":0.31024298071861267},{"id":"https://openalex.org/keywords/operating-system","display_name":"Operating system","score":0.30410367250442505}],"concepts":[{"id":"https://openalex.org/C112968700","wikidata":"https://www.wikidata.org/wiki/Q11368","display_name":"Unix","level":3,"score":0.6619918346405029},{"id":"https://openalex.org/C11392498","wikidata":"https://www.wikidata.org/wiki/Q11288","display_name":"Web server","level":3,"score":0.6294385194778442},{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.6198504567146301},{"id":"https://openalex.org/C136764020","wikidata":"https://www.wikidata.org/wiki/Q466","display_name":"World Wide Web","level":1,"score":0.5387725234031677},{"id":"https://openalex.org/C118643609","wikidata":"https://www.wikidata.org/wiki/Q189210","display_name":"Web application","level":2,"score":0.5120366215705872},{"id":"https://openalex.org/C65603577","wikidata":"https://www.wikidata.org/wiki/Q3427877","display_name":"Web resource","level":2,"score":0.4651634991168976},{"id":"https://openalex.org/C77088390","wikidata":"https://www.wikidata.org/wiki/Q8513","display_name":"Database","level":1,"score":0.4518513083457947},{"id":"https://openalex.org/C2777904410","wikidata":"https://www.wikidata.org/wiki/Q7397","display_name":"Software","level":2,"score":0.4348299205303192},{"id":"https://openalex.org/C206345919","wikidata":"https://www.wikidata.org/wiki/Q20380951","display_name":"Resource (disambiguation)","level":2,"score":0.432253897190094},{"id":"https://openalex.org/C110875604","wikidata":"https://www.wikidata.org/wiki/Q75","display_name":"The Internet","level":2,"score":0.31024298071861267},{"id":"https://openalex.org/C111919701","wikidata":"https://www.wikidata.org/wiki/Q9135","display_name":"Operating system","level":1,"score":0.30410367250442505},{"id":"https://openalex.org/C31258907","wikidata":"https://www.wikidata.org/wiki/Q1301371","display_name":"Computer network","level":1,"score":0.0}],"mesh":[{"descriptor_ui":"D003625","descriptor_name":"Data Collection","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D003625","descriptor_name":"Data Collection","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D003625","descriptor_name":"Data Collection","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D012984","descriptor_name":"Software","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D012984","descriptor_name":"Software","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D012984","descriptor_name":"Software","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D013997","descriptor_name":"Time Factors","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D013997","descriptor_name":"Time Factors","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D013997","descriptor_name":"Time Factors","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D016208","descriptor_name":"Databases, Factual","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D016208","descriptor_name":"Databases, Factual","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D016208","descriptor_name":"Databases, Factual","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":"D020407","descriptor_name":"Internet","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":true},{"descriptor_ui":"D020407","descriptor_name":"Internet","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true}],"locations_count":3,"locations":[{"id":"doi:10.1016/s1672-0229(07)60017-5","is_oa":true,"landing_page_url":"https://doi.org/10.1016/s1672-0229(07)60017-5","pdf_url":null,"source":{"id":"https://openalex.org/S155547894","display_name":"Genomics Proteomics & Bioinformatics","issn_l":"1672-0229","issn":["1672-0229","2210-3244"],"is_oa":true,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310320990","host_organization_name":"Elsevier BV","host_organization_lineage":["https://openalex.org/P4310320990"],"host_organization_lineage_names":["Elsevier BV"],"type":"journal"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Genomics, Proteomics &amp; Bioinformatics","raw_type":"journal-article"},{"id":"pmid:17572367","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/17572367","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":"Genomics, proteomics & bioinformatics","raw_type":null},{"id":"pmh:oai:europepmc.org:4016481","is_oa":false,"landing_page_url":"https://www.ncbi.nlm.nih.gov/pmc/articles/5054106","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":null,"raw_type":"Text"}],"best_oa_location":{"id":"doi:10.1016/s1672-0229(07)60017-5","is_oa":true,"landing_page_url":"https://doi.org/10.1016/s1672-0229(07)60017-5","pdf_url":null,"source":{"id":"https://openalex.org/S155547894","display_name":"Genomics Proteomics & Bioinformatics","issn_l":"1672-0229","issn":["1672-0229","2210-3244"],"is_oa":true,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310320990","host_organization_name":"Elsevier BV","host_organization_lineage":["https://openalex.org/P4310320990"],"host_organization_lineage_names":["Elsevier BV"],"type":"journal"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Genomics, Proteomics &amp; Bioinformatics","raw_type":"journal-article"},"sustainable_development_goals":[],"awards":[],"funders":[],"has_content":{"grobid_xml":false,"pdf":false},"content_urls":null,"referenced_works_count":7,"referenced_works":["https://openalex.org/W1659541576","https://openalex.org/W2011956460","https://openalex.org/W2038004679","https://openalex.org/W2040427982","https://openalex.org/W2119221697","https://openalex.org/W2142747917","https://openalex.org/W2147081522"],"related_works":["https://openalex.org/W3053791662","https://openalex.org/W2370505686","https://openalex.org/W3158820933","https://openalex.org/W2144237141","https://openalex.org/W2486626696","https://openalex.org/W3123018244","https://openalex.org/W2788290641","https://openalex.org/W2539062483","https://openalex.org/W3170324660","https://openalex.org/W2354663878"],"abstract_inverted_index":{"The":[0,61],"explosive":[1],"growth":[2],"of":[3,13,26,28,43,50,64,108,120],"the":[4,24,44,65,78,93,109,121,124,127],"bioinformatics":[5,52,67],"field":[6],"has":[7],"led":[8],"to":[9,34,86],"a":[10,32,35,41],"large":[11],"amount":[12],"data":[14],"and":[15,47,59,77,135],"software":[16,57],"applications":[17],"publicly":[18],"available":[19,104],"as":[20,56],"web":[21,29,53,68,82],"resources.":[22],"However,":[23],"lack":[25],"persistence":[27],"references":[30],"is":[31],"barrier":[33],"comprehensive":[36],"shared":[37],"access.":[38],"We":[39],"conducted":[40],"study":[42],"current":[45],"availability":[46],"other":[48],"features":[49],"primary":[51],"resources":[54,69],"(such":[55],"tools":[58],"databases).":[60],"majority":[62],"(95%)":[63],"examined":[66],"were":[70,102],"found":[71,85],"running":[72],"on":[73],"UNIX/Linux":[74],"operating":[75],"systems,":[76],"most":[79,128],"widely":[80],"used":[81],"server":[83],"was":[84],"be":[87],"Apache":[88],"(or":[89],"Apache-related":[90],"products).":[91],"Of":[92],"overall":[94],"1,130":[95],"Uniform":[96],"Resource":[97],"Locators":[98],"(URLs)":[99],"examined,":[100],"91%":[101],"highly":[103],"(more":[105],"than":[106,118],"90%":[107],"time),":[110],"while":[111],"only":[112],"4%":[113],"showed":[114],"low":[115],"accessibility":[116],"(less":[117],"50%":[119],"time)":[122],"during":[123],"survey.":[125],"Furthermore,":[126],"common":[129],"URL":[130],"failure":[131],"modes":[132],"are":[133],"presented":[134],"analyzed.":[136]},"counts_by_year":[{"year":2025,"cited_by_count":2},{"year":2020,"cited_by_count":2},{"year":2012,"cited_by_count":2}],"updated_date":"2026-05-21T06:26:12.895304","created_date":"2025-10-10T00:00:00"}
