{"id":"https://openalex.org/W2130737801","doi":"https://doi.org/10.1093/bioinformatics/btm120","title":"BioDownloader: bioinformatics downloads and updates in a few clicks","display_name":"BioDownloader: bioinformatics downloads and updates in a few clicks","publication_year":2007,"publication_date":"2007-05-05","ids":{"openalex":"https://openalex.org/W2130737801","doi":"https://doi.org/10.1093/bioinformatics/btm120","mag":"2130737801","pmid":"https://pubmed.ncbi.nlm.nih.gov/17483505"},"language":"en","primary_location":{"id":"doi:10.1093/bioinformatics/btm120","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bioinformatics/btm120","pdf_url":"https://academic.oup.com/bioinformatics/article-pdf/23/11/1437/49813169/bioinformatics_23_11_1437.pdf","source":{"id":"https://openalex.org/S52395412","display_name":"Bioinformatics","issn_l":"1367-4803","issn":["1367-4803","1367-4811"],"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":"Bioinformatics","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/bioinformatics/article-pdf/23/11/1437/49813169/bioinformatics_23_11_1437.pdf","any_repository_has_fulltext":false},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5075902779","display_name":"Maxim V. Shapovalov","orcid":"https://orcid.org/0000-0002-9349-7647"},"institutions":[{"id":"https://openalex.org/I1289437631","display_name":"Fox Chase Cancer Center","ror":"https://ror.org/0567t7073","country_code":"US","type":"healthcare","lineage":["https://openalex.org/I1289437631","https://openalex.org/I4210122924"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Maxim V. Shapovalov","raw_affiliation_strings":["Fox Chase Cancer Center, 333 Cottman Ave., Philadelphia PA 19111 USA","Fox Chase Cancer Center, 333 Cottman Ave., Philadelphia, PA 19111, USA"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Fox Chase Cancer Center, 333 Cottman Ave., Philadelphia PA 19111 USA","institution_ids":["https://openalex.org/I1289437631"]},{"raw_affiliation_string":"Fox Chase Cancer Center, 333 Cottman Ave., Philadelphia, PA 19111, USA","institution_ids":["https://openalex.org/I1289437631"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5061562596","display_name":"Adrian A. Canutescu","orcid":null},"institutions":[{"id":"https://openalex.org/I1289437631","display_name":"Fox Chase Cancer Center","ror":"https://ror.org/0567t7073","country_code":"US","type":"healthcare","lineage":["https://openalex.org/I1289437631","https://openalex.org/I4210122924"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Adrian A. Canutescu","raw_affiliation_strings":["Fox Chase Cancer Center, 333 Cottman Ave., Philadelphia PA 19111 USA","Fox Chase Cancer Center, 333 Cottman Ave., Philadelphia, PA 19111, USA"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Fox Chase Cancer Center, 333 Cottman Ave., Philadelphia PA 19111 USA","institution_ids":["https://openalex.org/I1289437631"]},{"raw_affiliation_string":"Fox Chase Cancer Center, 333 Cottman Ave., Philadelphia, PA 19111, USA","institution_ids":["https://openalex.org/I1289437631"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5053977807","display_name":"Roland L. Dunbrack","orcid":"https://orcid.org/0000-0001-7674-6667"},"institutions":[{"id":"https://openalex.org/I1289437631","display_name":"Fox Chase Cancer Center","ror":"https://ror.org/0567t7073","country_code":"US","type":"healthcare","lineage":["https://openalex.org/I1289437631","https://openalex.org/I4210122924"]}],"countries":["US"],"is_corresponding":true,"raw_author_name":"Roland L. Dunbrack","raw_affiliation_strings":["Fox Chase Cancer Center, 333 Cottman Ave., Philadelphia PA 19111 USA","Fox Chase Cancer Center, 333 Cottman Ave., Philadelphia, PA 19111, USA"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Fox Chase Cancer Center, 333 Cottman Ave., Philadelphia PA 19111 USA","institution_ids":["https://openalex.org/I1289437631"]},{"raw_affiliation_string":"Fox Chase Cancer Center, 333 Cottman Ave., Philadelphia, PA 19111, USA","institution_ids":["https://openalex.org/I1289437631"]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":1,"corresponding_author_ids":["https://openalex.org/A5053977807"],"corresponding_institution_ids":["https://openalex.org/I1289437631"],"apc_list":{"value":3618,"currency":"USD","value_usd":3618},"apc_paid":null,"fwci":0.2665,"has_fulltext":false,"cited_by_count":6,"citation_normalized_percentile":{"value":0.59392775,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":{"min":89,"max":94},"biblio":{"volume":"23","issue":"11","first_page":"1437","last_page":"1439"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T13937","display_name":"Genetics, Bioinformatics, and Biomedical Research","score":0.39340001344680786,"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/T13937","display_name":"Genetics, Bioinformatics, and Biomedical Research","score":0.39340001344680786,"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/T12859","display_name":"Cell Image Analysis Techniques","score":0.2101999968290329,"subfield":{"id":"https://openalex.org/subfields/1304","display_name":"Biophysics"},"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/T11986","display_name":"Scientific Computing and Data Management","score":0.09130000323057175,"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"}}],"keywords":[{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.763852596282959},{"id":"https://openalex.org/keywords/world-wide-web","display_name":"World Wide Web","score":0.37974491715431213},{"id":"https://openalex.org/keywords/information-retrieval","display_name":"Information retrieval","score":0.37378787994384766}],"concepts":[{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.763852596282959},{"id":"https://openalex.org/C136764020","wikidata":"https://www.wikidata.org/wiki/Q466","display_name":"World Wide Web","level":1,"score":0.37974491715431213},{"id":"https://openalex.org/C23123220","wikidata":"https://www.wikidata.org/wiki/Q816826","display_name":"Information retrieval","level":1,"score":0.37378787994384766}],"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":"D003628","descriptor_name":"Database Management Systems","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D003628","descriptor_name":"Database Management Systems","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D003628","descriptor_name":"Database Management Systems","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":"D012984","descriptor_name":"Software","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D014584","descriptor_name":"User-Computer Interface","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D014584","descriptor_name":"User-Computer Interface","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D014584","descriptor_name":"User-Computer Interface","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":"D016208","descriptor_name":"Databases, Factual","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D016247","descriptor_name":"Information Storage and Retrieval","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D016247","descriptor_name":"Information Storage and Retrieval","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D016247","descriptor_name":"Information Storage and Retrieval","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":"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":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}],"locations_count":2,"locations":[{"id":"doi:10.1093/bioinformatics/btm120","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bioinformatics/btm120","pdf_url":"https://academic.oup.com/bioinformatics/article-pdf/23/11/1437/49813169/bioinformatics_23_11_1437.pdf","source":{"id":"https://openalex.org/S52395412","display_name":"Bioinformatics","issn_l":"1367-4803","issn":["1367-4803","1367-4811"],"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":"Bioinformatics","raw_type":"journal-article"},{"id":"pmid:17483505","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/17483505","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":"Bioinformatics (Oxford, England)","raw_type":null}],"best_oa_location":{"id":"doi:10.1093/bioinformatics/btm120","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bioinformatics/btm120","pdf_url":"https://academic.oup.com/bioinformatics/article-pdf/23/11/1437/49813169/bioinformatics_23_11_1437.pdf","source":{"id":"https://openalex.org/S52395412","display_name":"Bioinformatics","issn_l":"1367-4803","issn":["1367-4803","1367-4811"],"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":"Bioinformatics","raw_type":"journal-article"},"sustainable_development_goals":[],"awards":[{"id":"https://openalex.org/G4518448083","display_name":null,"funder_award_id":"P30-CA06972","funder_id":"https://openalex.org/F4320337351","funder_display_name":"National Cancer Institute"},{"id":"https://openalex.org/G5381264781","display_name":null,"funder_award_id":"R01-GM73784","funder_id":"https://openalex.org/F4320337354","funder_display_name":"National Institute of General Medical Sciences"},{"id":"https://openalex.org/G927486529","display_name":null,"funder_award_id":"R01-HG02302","funder_id":"https://openalex.org/F4320337348","funder_display_name":"National Human Genome Research Institute"}],"funders":[{"id":"https://openalex.org/F4320332161","display_name":"National Institutes of Health","ror":"https://ror.org/01cwqze88"},{"id":"https://openalex.org/F4320337348","display_name":"National Human Genome Research Institute","ror":"https://ror.org/00baak391"},{"id":"https://openalex.org/F4320337351","display_name":"National Cancer Institute","ror":"https://ror.org/040gcmg81"},{"id":"https://openalex.org/F4320337354","display_name":"National Institute of General Medical Sciences","ror":"https://ror.org/04q48ey07"}],"has_content":{"grobid_xml":false,"pdf":true},"content_urls":{"pdf":"https://content.openalex.org/works/W2130737801.pdf"},"referenced_works_count":1,"referenced_works":["https://openalex.org/W2109872885"],"related_works":["https://openalex.org/W2748952813","https://openalex.org/W2390279801","https://openalex.org/W2358668433","https://openalex.org/W2376932109","https://openalex.org/W2001405890","https://openalex.org/W2382290278","https://openalex.org/W2350741829","https://openalex.org/W2530322880","https://openalex.org/W1596801655","https://openalex.org/W2359140296"],"abstract_inverted_index":{"UNLABELLED:":[0],"There":[1],"are":[2,18],"many":[3],"ftp":[4,50],"or":[5],"http":[6,52],"servers":[7],"storing":[8],"data":[9],"required":[10,73],"for":[11,44,96,110,139],"biological":[12],"research.":[13],"While":[14],"some":[15],"download":[16,24],"applications":[17],"available,":[19],"there":[20],"is":[21,41,55,136],"no":[22],"user-friendly":[23],"application":[25],"with":[26,60],"a":[27,42,90],"graphical":[28],"interface":[29],"specifically":[30],"designed":[31],"and":[32,46,51,107,123,142],"adapted":[33],"to":[34,57],"meet":[35],"the":[36,67,72,94,102,146],"requirements":[37],"of":[38,63,70],"bioinformatics.":[39],"BioDownloader":[40,88],"program":[43,128],"downloading":[45],"updating":[47],"files":[48,74],"from":[49,132],"servers.":[53],"It":[54,65,115],"optimized":[56],"work":[58],"robustly":[59],"large":[61],"numbers":[62],"files.":[64],"allows":[66],"selective":[68],"retrieval":[69],"only":[71],"(batch":[75],"downloads,":[76],"multiple":[77],"file":[78,81,124],"masks,":[79],"ls-lR":[80],"parsing,":[82],"recursive":[83],"search,":[84],"recent":[85],"updates,":[86],"etc.).":[87],"has":[89],"built-in":[91],"repository":[92],"containing":[93],"settings":[95],"common":[97],"bioinformatics":[98],"file-synchronization":[99],"needs,":[100],"including":[101,120],"Protein":[103],"Data":[104],"Bank":[105],"(PDB)":[106],"National":[108],"Center":[109],"Biotechnology":[111],"Information":[112],"(NCBI)":[113],"databases.":[114],"can":[116,129],"post-process":[117],"downloaded":[118],"files,":[119],"archive":[121],"extraction":[122],"conversions.":[125],"AVAILABILITY:":[126],"The":[127,134],"be":[130],"installed":[131],"http://dunbrack.fccc.edu/BioDownloader.":[133],"software":[135],"freely":[137],"available":[138],"both":[140],"non-commercial":[141],"commercial":[143],"users":[144],"under":[145],"BSD":[147],"license.":[148]},"counts_by_year":[{"year":2020,"cited_by_count":1},{"year":2016,"cited_by_count":1},{"year":2015,"cited_by_count":1},{"year":2014,"cited_by_count":1}],"updated_date":"2026-06-16T07:32:37.131356","created_date":"2025-10-10T00:00:00"}
