{"id":"https://openalex.org/W2150337230","doi":"https://doi.org/10.1093/bioinformatics/btv005","title":"NLR-parser: rapid annotation of plant NLR complements","display_name":"NLR-parser: rapid annotation of plant NLR complements","publication_year":2015,"publication_date":"2015-01-12","ids":{"openalex":"https://openalex.org/W2150337230","doi":"https://doi.org/10.1093/bioinformatics/btv005","mag":"2150337230","pmid":"https://pubmed.ncbi.nlm.nih.gov/25586514"},"language":"en","primary_location":{"id":"doi:10.1093/bioinformatics/btv005","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bioinformatics/btv005","pdf_url":"https://academic.oup.com/bioinformatics/article-pdf/31/10/1665/17085375/btv005.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":"cc-by","license_id":"https://openalex.org/licenses/cc-by","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":"hybrid","oa_url":"https://academic.oup.com/bioinformatics/article-pdf/31/10/1665/17085375/btv005.pdf","any_repository_has_fulltext":true},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5083856764","display_name":"Burkhard Steuernagel","orcid":"https://orcid.org/0000-0002-8284-7728"},"institutions":[{"id":"https://openalex.org/I100288624","display_name":"John Innes Centre","ror":"https://ror.org/055zmrh94","country_code":"GB","type":"facility","lineage":["https://openalex.org/I100288624","https://openalex.org/I2799693246","https://openalex.org/I4210087105"]},{"id":"https://openalex.org/I2800011936","display_name":"Sainsbury Laboratory","ror":"https://ror.org/02tdtzx53","country_code":"GB","type":"facility","lineage":["https://openalex.org/I2800011936"]}],"countries":["GB"],"is_corresponding":true,"raw_author_name":"Burkhard Steuernagel","raw_affiliation_strings":["1 Department of Crop Genetics, John Innes Centre, Norwich, UK and 2The Sainsbury Laboratory, Norwich, UK"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"1 Department of Crop Genetics, John Innes Centre, Norwich, UK and 2The Sainsbury Laboratory, Norwich, UK","institution_ids":["https://openalex.org/I2800011936","https://openalex.org/I100288624"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5058800596","display_name":"Florian Jupe","orcid":"https://orcid.org/0000-0001-5741-4931"},"institutions":[{"id":"https://openalex.org/I100288624","display_name":"John Innes Centre","ror":"https://ror.org/055zmrh94","country_code":"GB","type":"facility","lineage":["https://openalex.org/I100288624","https://openalex.org/I2799693246","https://openalex.org/I4210087105"]},{"id":"https://openalex.org/I2800011936","display_name":"Sainsbury Laboratory","ror":"https://ror.org/02tdtzx53","country_code":"GB","type":"facility","lineage":["https://openalex.org/I2800011936"]}],"countries":["GB"],"is_corresponding":true,"raw_author_name":"Florian Jupe","raw_affiliation_strings":["1 Department of Crop Genetics, John Innes Centre, Norwich, UK and 2The Sainsbury Laboratory, Norwich, UK"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"1 Department of Crop Genetics, John Innes Centre, Norwich, UK and 2The Sainsbury Laboratory, Norwich, UK","institution_ids":["https://openalex.org/I2800011936","https://openalex.org/I100288624"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5040726537","display_name":"Kamil Witek","orcid":"https://orcid.org/0000-0003-0659-5562"},"institutions":[{"id":"https://openalex.org/I100288624","display_name":"John Innes Centre","ror":"https://ror.org/055zmrh94","country_code":"GB","type":"facility","lineage":["https://openalex.org/I100288624","https://openalex.org/I2799693246","https://openalex.org/I4210087105"]},{"id":"https://openalex.org/I2800011936","display_name":"Sainsbury Laboratory","ror":"https://ror.org/02tdtzx53","country_code":"GB","type":"facility","lineage":["https://openalex.org/I2800011936"]}],"countries":["GB"],"is_corresponding":false,"raw_author_name":"Kamil Witek","raw_affiliation_strings":["1 Department of Crop Genetics, John Innes Centre, Norwich, UK and 2The Sainsbury Laboratory, Norwich, UK"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"1 Department of Crop Genetics, John Innes Centre, Norwich, UK and 2The Sainsbury Laboratory, Norwich, UK","institution_ids":["https://openalex.org/I2800011936","https://openalex.org/I100288624"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5002834524","display_name":"Jonathan D. G. Jones","orcid":"https://orcid.org/0000-0002-4953-261X"},"institutions":[{"id":"https://openalex.org/I100288624","display_name":"John Innes Centre","ror":"https://ror.org/055zmrh94","country_code":"GB","type":"facility","lineage":["https://openalex.org/I100288624","https://openalex.org/I2799693246","https://openalex.org/I4210087105"]},{"id":"https://openalex.org/I2800011936","display_name":"Sainsbury Laboratory","ror":"https://ror.org/02tdtzx53","country_code":"GB","type":"facility","lineage":["https://openalex.org/I2800011936"]}],"countries":["GB"],"is_corresponding":false,"raw_author_name":"Jonathan D.G. Jones","raw_affiliation_strings":["1 Department of Crop Genetics, John Innes Centre, Norwich, UK and 2The Sainsbury Laboratory, Norwich, UK"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"1 Department of Crop Genetics, John Innes Centre, Norwich, UK and 2The Sainsbury Laboratory, Norwich, UK","institution_ids":["https://openalex.org/I2800011936","https://openalex.org/I100288624"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5006568609","display_name":"Brande B. H. Wulff","orcid":"https://orcid.org/0000-0003-4044-4346"},"institutions":[{"id":"https://openalex.org/I100288624","display_name":"John Innes Centre","ror":"https://ror.org/055zmrh94","country_code":"GB","type":"facility","lineage":["https://openalex.org/I100288624","https://openalex.org/I2799693246","https://openalex.org/I4210087105"]},{"id":"https://openalex.org/I2800011936","display_name":"Sainsbury Laboratory","ror":"https://ror.org/02tdtzx53","country_code":"GB","type":"facility","lineage":["https://openalex.org/I2800011936"]}],"countries":["GB"],"is_corresponding":false,"raw_author_name":"Brande B.H. Wulff","raw_affiliation_strings":["1 Department of Crop Genetics, John Innes Centre, Norwich, UK and 2The Sainsbury Laboratory, Norwich, UK"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"1 Department of Crop Genetics, John Innes Centre, Norwich, UK and 2The Sainsbury Laboratory, Norwich, UK","institution_ids":["https://openalex.org/I2800011936","https://openalex.org/I100288624"]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":5,"corresponding_author_ids":["https://openalex.org/A5058800596","https://openalex.org/A5083856764"],"corresponding_institution_ids":["https://openalex.org/I100288624","https://openalex.org/I2800011936"],"apc_list":{"value":3618,"currency":"USD","value_usd":3618},"apc_paid":{"value":3618,"currency":"USD","value_usd":3618},"fwci":12.8936,"has_fulltext":false,"cited_by_count":129,"citation_normalized_percentile":{"value":0.98469651,"is_in_top_1_percent":false,"is_in_top_10_percent":true},"cited_by_percentile_year":{"min":90,"max":100},"biblio":{"volume":"31","issue":"10","first_page":"1665","last_page":"1667"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T10076","display_name":"Plant-Microbe Interactions and Immunity","score":0.9998000264167786,"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"}},"topics":[{"id":"https://openalex.org/T10076","display_name":"Plant-Microbe Interactions and Immunity","score":0.9998000264167786,"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/T11578","display_name":"Plant Pathogenic Bacteria Studies","score":0.9994000196456909,"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/T12858","display_name":"Plant Disease Resistance and Genetics","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/annotation","display_name":"Annotation","score":0.7990241050720215},{"id":"https://openalex.org/keywords/parsing","display_name":"Parsing","score":0.7108086943626404},{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.7067510485649109},{"id":"https://openalex.org/keywords/software","display_name":"Software","score":0.5509726405143738},{"id":"https://openalex.org/keywords/motif","display_name":"Motif (music)","score":0.45287737250328064},{"id":"https://openalex.org/keywords/gene-annotation","display_name":"Gene Annotation","score":0.437466025352478},{"id":"https://openalex.org/keywords/computational-biology","display_name":"Computational biology","score":0.416729211807251},{"id":"https://openalex.org/keywords/programming-language","display_name":"Programming language","score":0.34742361307144165},{"id":"https://openalex.org/keywords/natural-language-processing","display_name":"Natural language processing","score":0.34446993470191956},{"id":"https://openalex.org/keywords/artificial-intelligence","display_name":"Artificial intelligence","score":0.3358033299446106},{"id":"https://openalex.org/keywords/gene","display_name":"Gene","score":0.3356010913848877},{"id":"https://openalex.org/keywords/genome","display_name":"Genome","score":0.33280807733535767},{"id":"https://openalex.org/keywords/biology","display_name":"Biology","score":0.23143556714057922},{"id":"https://openalex.org/keywords/genetics","display_name":"Genetics","score":0.20427680015563965}],"concepts":[{"id":"https://openalex.org/C2776321320","wikidata":"https://www.wikidata.org/wiki/Q857525","display_name":"Annotation","level":2,"score":0.7990241050720215},{"id":"https://openalex.org/C186644900","wikidata":"https://www.wikidata.org/wiki/Q194152","display_name":"Parsing","level":2,"score":0.7108086943626404},{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.7067510485649109},{"id":"https://openalex.org/C2777904410","wikidata":"https://www.wikidata.org/wiki/Q7397","display_name":"Software","level":2,"score":0.5509726405143738},{"id":"https://openalex.org/C32276052","wikidata":"https://www.wikidata.org/wiki/Q908349","display_name":"Motif (music)","level":2,"score":0.45287737250328064},{"id":"https://openalex.org/C2908923196","wikidata":"https://www.wikidata.org/wiki/Q5205742","display_name":"Gene Annotation","level":4,"score":0.437466025352478},{"id":"https://openalex.org/C70721500","wikidata":"https://www.wikidata.org/wiki/Q177005","display_name":"Computational biology","level":1,"score":0.416729211807251},{"id":"https://openalex.org/C199360897","wikidata":"https://www.wikidata.org/wiki/Q9143","display_name":"Programming language","level":1,"score":0.34742361307144165},{"id":"https://openalex.org/C204321447","wikidata":"https://www.wikidata.org/wiki/Q30642","display_name":"Natural language processing","level":1,"score":0.34446993470191956},{"id":"https://openalex.org/C154945302","wikidata":"https://www.wikidata.org/wiki/Q11660","display_name":"Artificial intelligence","level":1,"score":0.3358033299446106},{"id":"https://openalex.org/C104317684","wikidata":"https://www.wikidata.org/wiki/Q7187","display_name":"Gene","level":2,"score":0.3356010913848877},{"id":"https://openalex.org/C141231307","wikidata":"https://www.wikidata.org/wiki/Q7020","display_name":"Genome","level":3,"score":0.33280807733535767},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.23143556714057922},{"id":"https://openalex.org/C54355233","wikidata":"https://www.wikidata.org/wiki/Q7162","display_name":"Genetics","level":1,"score":0.20427680015563965},{"id":"https://openalex.org/C24890656","wikidata":"https://www.wikidata.org/wiki/Q82811","display_name":"Acoustics","level":1,"score":0.0},{"id":"https://openalex.org/C121332964","wikidata":"https://www.wikidata.org/wiki/Q413","display_name":"Physics","level":0,"score":0.0}],"mesh":[{"descriptor_ui":"D000090263","descriptor_name":"Leucine-Rich Repeat Proteins","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D000090263","descriptor_name":"Leucine-Rich Repeat Proteins","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D000090263","descriptor_name":"Leucine-Rich Repeat Proteins","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D000090263","descriptor_name":"Leucine-Rich Repeat Proteins","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D007113","descriptor_name":"Immunity, Innate","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D007113","descriptor_name":"Immunity, Innate","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D007113","descriptor_name":"Immunity, Innate","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D007113","descriptor_name":"Immunity, Innate","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D010935","descriptor_name":"Plant Diseases","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D010935","descriptor_name":"Plant Diseases","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D010935","descriptor_name":"Plant Diseases","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D010935","descriptor_name":"Plant Diseases","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D010935","descriptor_name":"Plant Diseases","qualifier_ui":"Q000276","qualifier_name":"immunology","is_major_topic":false},{"descriptor_ui":"D010935","descriptor_name":"Plant Diseases","qualifier_ui":"Q000276","qualifier_name":"immunology","is_major_topic":false},{"descriptor_ui":"D010935","descriptor_name":"Plant Diseases","qualifier_ui":"Q000276","qualifier_name":"immunology","is_major_topic":false},{"descriptor_ui":"D010935","descriptor_name":"Plant Diseases","qualifier_ui":"Q000276","qualifier_name":"immunology","is_major_topic":false},{"descriptor_ui":"D011506","descriptor_name":"Proteins","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D011506","descriptor_name":"Proteins","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D011506","descriptor_name":"Proteins","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D011506","descriptor_name":"Proteins","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D012984","descriptor_name":"Software","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":false},{"descriptor_ui":"D012984","descriptor_name":"Software","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":false},{"descriptor_ui":"D017360","descriptor_name":"Arabidopsis","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D017360","descriptor_name":"Arabidopsis","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D017360","descriptor_name":"Arabidopsis","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D017360","descriptor_name":"Arabidopsis","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D017422","descriptor_name":"Sequence Analysis, DNA","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D017422","descriptor_name":"Sequence Analysis, DNA","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D017422","descriptor_name":"Sequence Analysis, DNA","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D017422","descriptor_name":"Sequence Analysis, DNA","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D018506","descriptor_name":"Gene Expression Regulation, Plant","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D018506","descriptor_name":"Gene Expression Regulation, Plant","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D018506","descriptor_name":"Gene Expression Regulation, Plant","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D018506","descriptor_name":"Gene Expression Regulation, Plant","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D018745","descriptor_name":"Genome, Plant","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D018745","descriptor_name":"Genome, Plant","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D018745","descriptor_name":"Genome, Plant","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D018745","descriptor_name":"Genome, Plant","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D020449","descriptor_name":"Repetitive Sequences, Amino Acid","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D020449","descriptor_name":"Repetitive Sequences, Amino Acid","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D020449","descriptor_name":"Repetitive Sequences, Amino Acid","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D020449","descriptor_name":"Repetitive Sequences, Amino Acid","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D029681","descriptor_name":"Arabidopsis Proteins","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D029681","descriptor_name":"Arabidopsis Proteins","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D029681","descriptor_name":"Arabidopsis Proteins","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D029681","descriptor_name":"Arabidopsis Proteins","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D058977","descriptor_name":"Molecular Sequence Annotation","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D058977","descriptor_name":"Molecular Sequence Annotation","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D058977","descriptor_name":"Molecular Sequence Annotation","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D058977","descriptor_name":"Molecular Sequence Annotation","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true}],"locations_count":4,"locations":[{"id":"doi:10.1093/bioinformatics/btv005","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bioinformatics/btv005","pdf_url":"https://academic.oup.com/bioinformatics/article-pdf/31/10/1665/17085375/btv005.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":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Bioinformatics","raw_type":"journal-article"},{"id":"pmid:25586514","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/25586514","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},{"id":"pmh:oai:open-archive.highwire.org:bioinfo:31/10/1665","is_oa":false,"landing_page_url":"http://bioinformatics.oxfordjournals.org/cgi/content/short/31/10/1665","pdf_url":null,"source":{"id":"https://openalex.org/S4406923041","display_name":"HighWire Press Open Archive","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":null,"host_organization_name":null,"host_organization_lineage":[],"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:4426836","is_oa":true,"landing_page_url":"http://doi.org/10.1093/bioinformatics/btv005","pdf_url":null,"source":{"id":"https://openalex.org/S2764455111","display_name":"PubMed Central","issn_l":null,"issn":null,"is_oa":true,"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":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"","raw_type":"Text"}],"best_oa_location":{"id":"doi:10.1093/bioinformatics/btv005","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bioinformatics/btv005","pdf_url":"https://academic.oup.com/bioinformatics/article-pdf/31/10/1665/17085375/btv005.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":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Bioinformatics","raw_type":"journal-article"},"sustainable_development_goals":[],"awards":[{"id":"https://openalex.org/G1295200728","display_name":"An enduring pipeline to identify and utilize durable late blight disease resistance in potato","funder_award_id":"BB/H019820/1","funder_id":"https://openalex.org/F4320334629","funder_display_name":"Biotechnology and Biological Sciences Research Council"},{"id":"https://openalex.org/G1643636722","display_name":null,"funder_award_id":"BB/H019820/1","funder_id":"https://openalex.org/F4320334629","funder_display_name":"Biotechnology and Biological Sciences Research Council"},{"id":"https://openalex.org/G1888605466","display_name":"Gene-for-gene coevolution between Albugo candida and Arabidopsis; mining non-host resistance genes for white rust control in Brassicaceae crops","funder_award_id":"BB/M003809/1","funder_id":"https://openalex.org/F4320334629","funder_display_name":"Biotechnology and Biological Sciences Research Council"},{"id":"https://openalex.org/G3196878529","display_name":"A pipeline for rapid cloning of stem rust resistance genes effective against Ug99 from wild diploid wheat relatives","funder_award_id":"BB/J003166/1","funder_id":"https://openalex.org/F4320334629","funder_display_name":"Biotechnology and Biological Sciences Research Council"},{"id":"https://openalex.org/G4921298711","display_name":"Rapid identification disease resistance genes from plant genomes by resistance gene enrichment sequencing (RenSeq) of EMS-derived susceptible mutants","funder_award_id":"BB/L011794/1","funder_id":"https://openalex.org/F4320334629","funder_display_name":"Biotechnology and Biological Sciences Research Council"},{"id":"https://openalex.org/G6186519229","display_name":null,"funder_award_id":"BB/L011794/1","funder_id":"https://openalex.org/F4320334629","funder_display_name":"Biotechnology and Biological Sciences Research Council"},{"id":"https://openalex.org/G7628557410","display_name":"Controlling important diseases in potato by cloning functional NB-LRR-type resistance genes","funder_award_id":"BB/L009293/1","funder_id":"https://openalex.org/F4320334629","funder_display_name":"Biotechnology and Biological Sciences Research Council"},{"id":"https://openalex.org/G8206722788","display_name":null,"funder_award_id":"BB/J003166/1","funder_id":"https://openalex.org/F4320334629","funder_display_name":"Biotechnology and Biological Sciences Research Council"},{"id":"https://openalex.org/G8618019430","display_name":null,"funder_award_id":"BB/M003809/1","funder_id":"https://openalex.org/F4320334629","funder_display_name":"Biotechnology and Biological Sciences Research Council"},{"id":"https://openalex.org/G909035405","display_name":null,"funder_award_id":"BB/L009293/1","funder_id":"https://openalex.org/F4320334629","funder_display_name":"Biotechnology and Biological Sciences Research Council"}],"funders":[{"id":"https://openalex.org/F4320334629","display_name":"Biotechnology and Biological Sciences Research Council","ror":"https://ror.org/00cwqg982"}],"has_content":{"pdf":false,"grobid_xml":false},"content_urls":null,"referenced_works_count":13,"referenced_works":["https://openalex.org/W1796126005","https://openalex.org/W1970697531","https://openalex.org/W1986109447","https://openalex.org/W2038463428","https://openalex.org/W2052002049","https://openalex.org/W2052643756","https://openalex.org/W2100196739","https://openalex.org/W2118201962","https://openalex.org/W2138122982","https://openalex.org/W2140177375","https://openalex.org/W2147526198","https://openalex.org/W2157009395","https://openalex.org/W2162515800"],"related_works":["https://openalex.org/W3046984657","https://openalex.org/W2053943328","https://openalex.org/W2059565715","https://openalex.org/W2901823680","https://openalex.org/W2009940763","https://openalex.org/W4386637333","https://openalex.org/W2946410450","https://openalex.org/W4361192415","https://openalex.org/W2126804125","https://openalex.org/W2162782320"],"abstract_inverted_index":{"Abstract":[0],"Motivation:":[1],"The":[2,59,104,173,198],"repetitive":[3],"nature":[4],"of":[5,41,116,139,194],"plant":[6,101],"disease":[7],"resistance":[8],"genes":[9],"encoding":[10],"for":[11,77,89,148],"nucleotide-binding":[12],"leucine-rich":[13],"repeat":[14],"(NLR)":[15],"proteins":[16],"hampers":[17],"their":[18],"prediction":[19,155],"with":[20,110],"standard":[21],"gene":[22],"annotation":[23,40],"software.":[24],"Motif":[25],"alignment":[26],"and":[27,75,97,114,171],"search":[28],"tool":[29,37,175,199],"(MAST)":[30],"has":[31],"previously":[32],"been":[33],"reported":[34],"as":[35,188,190,192],"a":[36,48,107,127,184],"to":[38,64,153],"support":[39],"NLR-encoding":[42],"genes.":[43],"However,":[44],"the":[45,66,117,123,137,140,157,195,203],"decision":[46],"if":[47],"motif":[49,81],"combination":[50],"represents":[51],"an":[52],"NLR":[53,119],"protein":[54],"was":[55],"entirely":[56],"manual.":[57],"Results:":[58],"NLR-parser":[60,174],"pipeline":[61],"is":[62,106,126,162,200],"designed":[63],"use":[65],"MAST":[67,191],"output":[68,105,138],"from":[69,100,179,202],"six-frame":[70],"translated":[71],"amino":[72],"acid":[73],"sequences":[74],"filters":[76],"predefined":[78],"biologically":[79],"curated":[80],"compositions.":[82],"Input":[83],"reads":[84],"can":[85,144,176],"be":[86,146,177],"derived":[87],"from,":[88],"example,":[90],"raw":[91],"long-read":[92],"sequencing":[93],"data":[94,212],"or":[95,129,133],"contigs":[96],"scaffolds":[98],"coming":[99],"genome":[102],"projects.":[103],"tab-separated":[108],"file":[109],"information":[111],"on":[112],"start":[113],"frame":[115],"first":[118],"specific":[120],"motif,":[121],"whether":[122],"identified":[124],"sequence":[125,143],"TNL":[128],"CNL,":[130],"potentially":[131],"full":[132],"fragmented.":[134],"In":[135,151],"addition,":[136],"NB-ARC":[141,160],"domain":[142,161],"directly":[145],"used":[147],"phylogenetic":[149],"analyses.":[150],"comparison":[152],"other":[154],"software,":[156],"highly":[158],"complex":[159],"described":[163],"in":[164],"detail":[165],"using":[166],"several":[167],"individual":[168],"motifs.":[169],"Availability":[170],"implementation:":[172],"downloaded":[178],"Git-Hub":[180],"(github.com/steuernb/NLR-Parser).":[181],"It":[182],"requires":[183],"valid":[185],"Java":[186],"installation":[187],"well":[189],"part":[193],"MEME":[196],"Suite.":[197],"run":[201],"command":[204],"line.":[205],"Contact:":[206],"burkhard.steuernagel@jic.ac.uk;":[207],"fjupe@salk.edu":[208],"Supplementary":[209,211],"information:":[210],"are":[213],"available":[214],"at":[215],"Bioinformatics":[216],"online.":[217]},"counts_by_year":[{"year":2026,"cited_by_count":3},{"year":2025,"cited_by_count":7},{"year":2024,"cited_by_count":6},{"year":2023,"cited_by_count":11},{"year":2022,"cited_by_count":21},{"year":2021,"cited_by_count":17},{"year":2020,"cited_by_count":21},{"year":2019,"cited_by_count":18},{"year":2018,"cited_by_count":7},{"year":2017,"cited_by_count":4},{"year":2016,"cited_by_count":13},{"year":2015,"cited_by_count":1}],"updated_date":"2026-06-24T13:16:06.693445","created_date":"2025-10-10T00:00:00"}