{"id":"https://openalex.org/W2164498632","doi":"https://doi.org/10.1093/bib/bbp053","title":"Computational techniques for elucidating plant-pathogen interactions from large-scale experiments on fungi and oomycetes","display_name":"Computational techniques for elucidating plant-pathogen interactions from large-scale experiments on fungi and oomycetes","publication_year":2009,"publication_date":"2009-11-01","ids":{"openalex":"https://openalex.org/W2164498632","doi":"https://doi.org/10.1093/bib/bbp053","mag":"2164498632","pmid":"https://pubmed.ncbi.nlm.nih.gov/19933211"},"language":"en","primary_location":{"id":"doi:10.1093/bib/bbp053","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bib/bbp053","pdf_url":"https://academic.oup.com/bib/article-pdf/10/6/654/723511/bbp053.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":"review","indexed_in":["crossref","doaj","pubmed"],"open_access":{"is_oa":true,"oa_status":"bronze","oa_url":"https://academic.oup.com/bib/article-pdf/10/6/654/723511/bbp053.pdf","any_repository_has_fulltext":false},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5029465977","display_name":"Carol Soderlund","orcid":"https://orcid.org/0000-0003-0782-438X"},"institutions":[{"id":"https://openalex.org/I138006243","display_name":"University of Arizona","ror":"https://ror.org/03m2x1q45","country_code":"US","type":"education","lineage":["https://openalex.org/I138006243"]}],"countries":["US"],"is_corresponding":true,"raw_author_name":"C. Soderlund","raw_affiliation_strings":["BIO5 Institute, 1657 Helen Street, University of Arizona, Tucson AZ 85721, USA. cari@agcol.arizona.edu"],"affiliations":[{"raw_affiliation_string":"BIO5 Institute, 1657 Helen Street, University of Arizona, Tucson AZ 85721, USA. cari@agcol.arizona.edu","institution_ids":["https://openalex.org/I138006243"]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":1,"corresponding_author_ids":["https://openalex.org/A5029465977"],"corresponding_institution_ids":["https://openalex.org/I138006243"],"apc_list":{"value":4011,"currency":"USD","value_usd":4011},"apc_paid":null,"fwci":0.3993,"has_fulltext":false,"cited_by_count":9,"citation_normalized_percentile":{"value":0.63599881,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":{"min":89,"max":99},"biblio":{"volume":"10","issue":"6","first_page":"654","last_page":"663"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T10825","display_name":"Plant Pathogens and Fungal Diseases","score":0.9995999932289124,"subfield":{"id":"https://openalex.org/subfields/1307","display_name":"Cell 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/T10825","display_name":"Plant Pathogens and Fungal Diseases","score":0.9995999932289124,"subfield":{"id":"https://openalex.org/subfields/1307","display_name":"Cell 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/T10076","display_name":"Plant-Microbe Interactions and Immunity","score":0.9994999766349792,"subfield":{"id":"https://openalex.org/subfields/1110","display_name":"Plant Science"},"field":{"id":"https://openalex.org/fields/11","display_name":"Agricultural and Biological Sciences"},"domain":{"id":"https://openalex.org/domains/1","display_name":"Life Sciences"}},{"id":"https://openalex.org/T11771","display_name":"Plant Pathogens and Resistance","score":0.9990000128746033,"subfield":{"id":"https://openalex.org/subfields/1110","display_name":"Plant Science"},"field":{"id":"https://openalex.org/fields/11","display_name":"Agricultural and Biological Sciences"},"domain":{"id":"https://openalex.org/domains/1","display_name":"Life Sciences"}}],"keywords":[{"id":"https://openalex.org/keywords/organism","display_name":"Organism","score":0.6711599826812744},{"id":"https://openalex.org/keywords/host","display_name":"Host (biology)","score":0.6285214424133301},{"id":"https://openalex.org/keywords/computational-biology","display_name":"Computational biology","score":0.5942949056625366},{"id":"https://openalex.org/keywords/biology","display_name":"Biology","score":0.5941357612609863},{"id":"https://openalex.org/keywords/pathogen","display_name":"Pathogen","score":0.5543981194496155},{"id":"https://openalex.org/keywords/fungal-pathogen","display_name":"Fungal pathogen","score":0.5223080515861511},{"id":"https://openalex.org/keywords/key","display_name":"Key (lock)","score":0.4555529057979584},{"id":"https://openalex.org/keywords/scale","display_name":"Scale (ratio)","score":0.4481125771999359},{"id":"https://openalex.org/keywords/ontology","display_name":"Ontology","score":0.436726450920105},{"id":"https://openalex.org/keywords/gene-ontology","display_name":"Gene ontology","score":0.4262705147266388},{"id":"https://openalex.org/keywords/genomics","display_name":"Genomics","score":0.42079484462738037},{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.3868894577026367},{"id":"https://openalex.org/keywords/data-science","display_name":"Data science","score":0.36755043268203735},{"id":"https://openalex.org/keywords/gene","display_name":"Gene","score":0.34644952416419983},{"id":"https://openalex.org/keywords/genome","display_name":"Genome","score":0.27763381600379944},{"id":"https://openalex.org/keywords/genetics","display_name":"Genetics","score":0.20376074314117432},{"id":"https://openalex.org/keywords/ecology","display_name":"Ecology","score":0.18981042504310608},{"id":"https://openalex.org/keywords/geography","display_name":"Geography","score":0.08452725410461426},{"id":"https://openalex.org/keywords/gene-expression","display_name":"Gene expression","score":0.08041888475418091}],"concepts":[{"id":"https://openalex.org/C137858568","wikidata":"https://www.wikidata.org/wiki/Q7239","display_name":"Organism","level":2,"score":0.6711599826812744},{"id":"https://openalex.org/C126831891","wikidata":"https://www.wikidata.org/wiki/Q221673","display_name":"Host (biology)","level":2,"score":0.6285214424133301},{"id":"https://openalex.org/C70721500","wikidata":"https://www.wikidata.org/wiki/Q177005","display_name":"Computational biology","level":1,"score":0.5942949056625366},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.5941357612609863},{"id":"https://openalex.org/C2776460866","wikidata":"https://www.wikidata.org/wiki/Q170065","display_name":"Pathogen","level":2,"score":0.5543981194496155},{"id":"https://openalex.org/C3019170707","wikidata":"https://www.wikidata.org/wiki/Q6471530","display_name":"Fungal pathogen","level":3,"score":0.5223080515861511},{"id":"https://openalex.org/C26517878","wikidata":"https://www.wikidata.org/wiki/Q228039","display_name":"Key (lock)","level":2,"score":0.4555529057979584},{"id":"https://openalex.org/C2778755073","wikidata":"https://www.wikidata.org/wiki/Q10858537","display_name":"Scale (ratio)","level":2,"score":0.4481125771999359},{"id":"https://openalex.org/C25810664","wikidata":"https://www.wikidata.org/wiki/Q44325","display_name":"Ontology","level":2,"score":0.436726450920105},{"id":"https://openalex.org/C2987395477","wikidata":"https://www.wikidata.org/wiki/Q135085","display_name":"Gene ontology","level":4,"score":0.4262705147266388},{"id":"https://openalex.org/C189206191","wikidata":"https://www.wikidata.org/wiki/Q222046","display_name":"Genomics","level":4,"score":0.42079484462738037},{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.3868894577026367},{"id":"https://openalex.org/C2522767166","wikidata":"https://www.wikidata.org/wiki/Q2374463","display_name":"Data science","level":1,"score":0.36755043268203735},{"id":"https://openalex.org/C104317684","wikidata":"https://www.wikidata.org/wiki/Q7187","display_name":"Gene","level":2,"score":0.34644952416419983},{"id":"https://openalex.org/C141231307","wikidata":"https://www.wikidata.org/wiki/Q7020","display_name":"Genome","level":3,"score":0.27763381600379944},{"id":"https://openalex.org/C54355233","wikidata":"https://www.wikidata.org/wiki/Q7162","display_name":"Genetics","level":1,"score":0.20376074314117432},{"id":"https://openalex.org/C18903297","wikidata":"https://www.wikidata.org/wiki/Q7150","display_name":"Ecology","level":1,"score":0.18981042504310608},{"id":"https://openalex.org/C205649164","wikidata":"https://www.wikidata.org/wiki/Q1071","display_name":"Geography","level":0,"score":0.08452725410461426},{"id":"https://openalex.org/C150194340","wikidata":"https://www.wikidata.org/wiki/Q26972","display_name":"Gene expression","level":3,"score":0.08041888475418091},{"id":"https://openalex.org/C58640448","wikidata":"https://www.wikidata.org/wiki/Q42515","display_name":"Cartography","level":1,"score":0.0},{"id":"https://openalex.org/C111472728","wikidata":"https://www.wikidata.org/wiki/Q9471","display_name":"Epistemology","level":1,"score":0.0},{"id":"https://openalex.org/C138885662","wikidata":"https://www.wikidata.org/wiki/Q5891","display_name":"Philosophy","level":0,"score":0.0}],"mesh":[{"descriptor_ui":"D002874","descriptor_name":"Chromosome Mapping","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D002874","descriptor_name":"Chromosome Mapping","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D002874","descriptor_name":"Chromosome Mapping","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D005658","descriptor_name":"Fungi","qualifier_ui":"Q000502","qualifier_name":"physiology","is_major_topic":false},{"descriptor_ui":"D005658","descriptor_name":"Fungi","qualifier_ui":"Q000502","qualifier_name":"physiology","is_major_topic":false},{"descriptor_ui":"D005658","descriptor_name":"Fungi","qualifier_ui":"Q000502","qualifier_name":"physiology","is_major_topic":false},{"descriptor_ui":"D006790","descriptor_name":"Host-Parasite Interactions","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D006790","descriptor_name":"Host-Parasite Interactions","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D006790","descriptor_name":"Host-Parasite Interactions","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D010944","descriptor_name":"Plants","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D010944","descriptor_name":"Plants","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D010944","descriptor_name":"Plants","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D010944","descriptor_name":"Plants","qualifier_ui":"Q000382","qualifier_name":"microbiology","is_major_topic":false},{"descriptor_ui":"D010944","descriptor_name":"Plants","qualifier_ui":"Q000382","qualifier_name":"microbiology","is_major_topic":false},{"descriptor_ui":"D010944","descriptor_name":"Plants","qualifier_ui":"Q000382","qualifier_name":"microbiology","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":"D056890","descriptor_name":"Eukaryota","qualifier_ui":"Q000502","qualifier_name":"physiology","is_major_topic":false},{"descriptor_ui":"D056890","descriptor_name":"Eukaryota","qualifier_ui":"Q000502","qualifier_name":"physiology","is_major_topic":false},{"descriptor_ui":"D056890","descriptor_name":"Eukaryota","qualifier_ui":"Q000502","qualifier_name":"physiology","is_major_topic":false}],"locations_count":2,"locations":[{"id":"doi:10.1093/bib/bbp053","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bib/bbp053","pdf_url":"https://academic.oup.com/bib/article-pdf/10/6/654/723511/bbp053.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:19933211","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/19933211","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":null}],"best_oa_location":{"id":"doi:10.1093/bib/bbp053","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bib/bbp053","pdf_url":"https://academic.oup.com/bib/article-pdf/10/6/654/723511/bbp053.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":{"grobid_xml":true,"pdf":true},"content_urls":{"pdf":"https://content.openalex.org/works/W2164498632.pdf","grobid_xml":"https://content.openalex.org/works/W2164498632.grobid-xml"},"referenced_works_count":68,"referenced_works":["https://openalex.org/W206421451","https://openalex.org/W1480893763","https://openalex.org/W1540526175","https://openalex.org/W1586898654","https://openalex.org/W1589874998","https://openalex.org/W1751678145","https://openalex.org/W1964115062","https://openalex.org/W1964517129","https://openalex.org/W1965202162","https://openalex.org/W1969447189","https://openalex.org/W1970698656","https://openalex.org/W1977452856","https://openalex.org/W1977614463","https://openalex.org/W1980509862","https://openalex.org/W1985471440","https://openalex.org/W1985904552","https://openalex.org/W1998419246","https://openalex.org/W1998602558","https://openalex.org/W1998671658","https://openalex.org/W2007497503","https://openalex.org/W2007911285","https://openalex.org/W2009014001","https://openalex.org/W2024610577","https://openalex.org/W2026855720","https://openalex.org/W2039729608","https://openalex.org/W2041353925","https://openalex.org/W2042243380","https://openalex.org/W2055043387","https://openalex.org/W2056966900","https://openalex.org/W2057395277","https://openalex.org/W2067474031","https://openalex.org/W2078156806","https://openalex.org/W2081642950","https://openalex.org/W2085096855","https://openalex.org/W2085836956","https://openalex.org/W2087383805","https://openalex.org/W2088930970","https://openalex.org/W2090385974","https://openalex.org/W2096234478","https://openalex.org/W2096939566","https://openalex.org/W2102940687","https://openalex.org/W2106529938","https://openalex.org/W2107233773","https://openalex.org/W2107276925","https://openalex.org/W2110284618","https://openalex.org/W2111756560","https://openalex.org/W2116305672","https://openalex.org/W2116423958","https://openalex.org/W2117406084","https://openalex.org/W2127276959","https://openalex.org/W2130956021","https://openalex.org/W2132671821","https://openalex.org/W2140602911","https://openalex.org/W2143969914","https://openalex.org/W2144129151","https://openalex.org/W2145876138","https://openalex.org/W2154515562","https://openalex.org/W2158173168","https://openalex.org/W2161062388","https://openalex.org/W2161746138","https://openalex.org/W2167824308","https://openalex.org/W2169768163","https://openalex.org/W2188065701","https://openalex.org/W2915868289","https://openalex.org/W4211000692","https://openalex.org/W4212865600","https://openalex.org/W4236236547","https://openalex.org/W4285719527"],"related_works":["https://openalex.org/W1995188915","https://openalex.org/W2152751653","https://openalex.org/W2579720268","https://openalex.org/W2528035568","https://openalex.org/W2044708511","https://openalex.org/W2010202628","https://openalex.org/W2476282978","https://openalex.org/W2584079490","https://openalex.org/W4236976676","https://openalex.org/W2166254604"],"abstract_inverted_index":{"Eukaryotic":[0],"plant":[1],"pathogens":[2,22],"are":[3,31],"responsible":[4],"for":[5,126],"the":[6,26,46,61,66,69,72,75,89,110,115,146],"destruction":[7],"of":[8,10,13,20,68,91,103,148],"billions":[9],"dollars":[11],"worth":[12],"crops":[14],"each":[15],"year.":[16],"With":[17],"large-scale":[18],"genomics":[19],"both":[21],"and":[23,25,40,106,109,129],"hosts":[24],"corresponding":[27,111],"computational":[28,112],"analysis,":[29],"biologists":[30],"now":[32],"able":[33],"to":[34,56,59,123],"gain":[35],"knowledge":[36,116],"about":[37],"many":[38],"pathogenic":[39],"defense":[41],"genes":[42,62],"concurrently.":[43],"To":[44],"study":[45],"interactions":[47],"between":[48],"these":[49],"two":[50],"organism":[51],"groups,":[52],"it":[53,86],"is":[54],"necessary":[55],"design":[57],"experiments":[58,108],"elucidate":[60],"being":[63],"expressed":[64],"during":[65],"invasion":[67],"pathogen":[70],"into":[71],"host.":[73],"For":[74],"most":[76],"part,":[77],"this":[78],"does":[79,87],"not":[80],"require":[81,88],"new":[82],"software":[83,93],"development,":[84],"though":[85],"use":[90],"existing":[92],"in":[94,118,150],"novel":[95],"ways.":[96],"This":[97],"article":[98],"provides":[99],"a":[100],"broad":[101],"overview":[102],"several":[104],"key":[105],"illustrative":[107],"analyses,":[113],"outlining":[114],"gained":[117],"each.":[119],"It":[120,138],"goes":[121],"on":[122],"describe":[124],"databases":[125],"plant-pathogen":[127],"data":[128],"important":[130],"initiatives":[131],"such":[132],"as":[133],"Plant-Associated":[134],"Microbe":[135],"Gene":[136],"Ontology.":[137],"discusses":[139],"how":[140],"various":[141],"emerging":[142],"approaches":[143],"will":[144],"increase":[145],"power":[147],"computers":[149],"host-pathogen":[151],"interaction":[152],"studies.":[153]},"counts_by_year":[{"year":2026,"cited_by_count":1},{"year":2021,"cited_by_count":1},{"year":2020,"cited_by_count":1},{"year":2017,"cited_by_count":1},{"year":2015,"cited_by_count":1},{"year":2014,"cited_by_count":1},{"year":2012,"cited_by_count":1}],"updated_date":"2026-03-20T23:20:44.827607","created_date":"2025-10-10T00:00:00"}
