{"id":"https://openalex.org/W2957488063","doi":"https://doi.org/10.1371/journal.pcbi.1007206","title":"PrediTALE: A novel model learned from quantitative data allows for new perspectives on TALE targeting","display_name":"PrediTALE: A novel model learned from quantitative data allows for new perspectives on TALE targeting","publication_year":2019,"publication_date":"2019-07-11","ids":{"openalex":"https://openalex.org/W2957488063","doi":"https://doi.org/10.1371/journal.pcbi.1007206","mag":"2957488063","pmid":"https://pubmed.ncbi.nlm.nih.gov/31295249"},"language":"en","primary_location":{"id":"doi:10.1371/journal.pcbi.1007206","is_oa":true,"landing_page_url":"https://doi.org/10.1371/journal.pcbi.1007206","pdf_url":null,"source":{"id":"https://openalex.org/S86033158","display_name":"PLoS Computational Biology","issn_l":"1553-734X","issn":["1553-734X","1553-7358"],"is_oa":true,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310315706","host_organization_name":"Public Library of Science","host_organization_lineage":["https://openalex.org/P4310315706"],"host_organization_lineage_names":["Public Library of Science"],"type":"journal"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"PLOS Computational Biology","raw_type":"journal-article"},"type":"article","indexed_in":["crossref","doaj","pubmed"],"open_access":{"is_oa":true,"oa_status":"gold","oa_url":"https://doi.org/10.1371/journal.pcbi.1007206","any_repository_has_fulltext":true},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5077368098","display_name":"Annett Erkes","orcid":"https://orcid.org/0000-0002-5257-2815"},"institutions":[{"id":"https://openalex.org/I68956291","display_name":"Martin Luther University Halle-Wittenberg","ror":"https://ror.org/05gqaka33","country_code":"DE","type":"education","lineage":["https://openalex.org/I68956291"]}],"countries":["DE"],"is_corresponding":false,"raw_author_name":"Annett Erkes","raw_affiliation_strings":["Institute of Computer Science, Martin Luther University Halle-Wittenberg, Halle, Germany"],"affiliations":[{"raw_affiliation_string":"Institute of Computer Science, Martin Luther University Halle-Wittenberg, Halle, Germany","institution_ids":["https://openalex.org/I68956291"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5054570560","display_name":"Stefanie M\u00fccke","orcid":"https://orcid.org/0000-0001-9890-4523"},"institutions":[{"id":"https://openalex.org/I114112103","display_name":"Leibniz University Hannover","ror":"https://ror.org/0304hq317","country_code":"DE","type":"education","lineage":["https://openalex.org/I114112103"]}],"countries":["DE"],"is_corresponding":false,"raw_author_name":"Stefanie M\u00fccke","raw_affiliation_strings":["Department of Plant Biotechnology, Leibniz Universit\u00e4t Hannover, Hannover, Germany"],"affiliations":[{"raw_affiliation_string":"Department of Plant Biotechnology, Leibniz Universit\u00e4t Hannover, Hannover, Germany","institution_ids":["https://openalex.org/I114112103"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5072779950","display_name":"Maik Reschke","orcid":null},"institutions":[{"id":"https://openalex.org/I114112103","display_name":"Leibniz University Hannover","ror":"https://ror.org/0304hq317","country_code":"DE","type":"education","lineage":["https://openalex.org/I114112103"]}],"countries":["DE"],"is_corresponding":false,"raw_author_name":"Maik Reschke","raw_affiliation_strings":["Department of Plant Biotechnology, Leibniz Universit\u00e4t Hannover, Hannover, Germany"],"affiliations":[{"raw_affiliation_string":"Department of Plant Biotechnology, Leibniz Universit\u00e4t Hannover, Hannover, Germany","institution_ids":["https://openalex.org/I114112103"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5077104571","display_name":"Jens Boch","orcid":"https://orcid.org/0000-0001-5883-7506"},"institutions":[{"id":"https://openalex.org/I114112103","display_name":"Leibniz University Hannover","ror":"https://ror.org/0304hq317","country_code":"DE","type":"education","lineage":["https://openalex.org/I114112103"]}],"countries":["DE"],"is_corresponding":false,"raw_author_name":"Jens Boch","raw_affiliation_strings":["Department of Plant Biotechnology, Leibniz Universit\u00e4t Hannover, Hannover, Germany"],"affiliations":[{"raw_affiliation_string":"Department of Plant Biotechnology, Leibniz Universit\u00e4t Hannover, Hannover, Germany","institution_ids":["https://openalex.org/I114112103"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5004883555","display_name":"Jan Grau","orcid":"https://orcid.org/0000-0003-2081-6405"},"institutions":[{"id":"https://openalex.org/I68956291","display_name":"Martin Luther University Halle-Wittenberg","ror":"https://ror.org/05gqaka33","country_code":"DE","type":"education","lineage":["https://openalex.org/I68956291"]}],"countries":["DE"],"is_corresponding":true,"raw_author_name":"Jan Grau","raw_affiliation_strings":["Institute of Computer Science, Martin Luther University Halle-Wittenberg, Halle, Germany"],"affiliations":[{"raw_affiliation_string":"Institute of Computer Science, Martin Luther University Halle-Wittenberg, Halle, Germany","institution_ids":["https://openalex.org/I68956291"]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":5,"corresponding_author_ids":["https://openalex.org/A5004883555"],"corresponding_institution_ids":["https://openalex.org/I68956291"],"apc_list":{"value":2655,"currency":"USD","value_usd":2655},"apc_paid":{"value":2485,"currency":"EUR","value_usd":2680},"fwci":4.0744,"has_fulltext":false,"cited_by_count":21,"citation_normalized_percentile":{"value":0.9313712,"is_in_top_1_percent":false,"is_in_top_10_percent":true},"cited_by_percentile_year":{"min":96,"max":98},"biblio":{"volume":"15","issue":"7","first_page":"e1007206","last_page":"e1007206"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T11578","display_name":"Plant Pathogenic Bacteria Studies","score":0.9998999834060669,"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/T11578","display_name":"Plant Pathogenic Bacteria Studies","score":0.9998999834060669,"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/T10015","display_name":"Genomics and Phylogenetic Studies","score":0.9972000122070312,"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/T10076","display_name":"Plant-Microbe Interactions and Immunity","score":0.9952999949455261,"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/biology","display_name":"Biology","score":0.6529600620269775},{"id":"https://openalex.org/keywords/computational-biology","display_name":"Computational biology","score":0.6319985389709473},{"id":"https://openalex.org/keywords/gene","display_name":"Gene","score":0.6069278120994568},{"id":"https://openalex.org/keywords/genome","display_name":"Genome","score":0.566107988357544},{"id":"https://openalex.org/keywords/genetics","display_name":"Genetics","score":0.5530081391334534},{"id":"https://openalex.org/keywords/xanthomonas","display_name":"Xanthomonas","score":0.5389213562011719},{"id":"https://openalex.org/keywords/transposable-element","display_name":"Transposable element","score":0.49306604266166687},{"id":"https://openalex.org/keywords/bacterial-genome-size","display_name":"Bacterial genome size","score":0.49061980843544006},{"id":"https://openalex.org/keywords/effector","display_name":"Effector","score":0.4565666615962982},{"id":"https://openalex.org/keywords/transcription","display_name":"Transcription (linguistics)","score":0.4561521112918854},{"id":"https://openalex.org/keywords/dna-sequencing","display_name":"DNA sequencing","score":0.41602790355682373},{"id":"https://openalex.org/keywords/dna-binding-site","display_name":"DNA binding site","score":0.4150095283985138},{"id":"https://openalex.org/keywords/promoter","display_name":"Promoter","score":0.26001113653182983},{"id":"https://openalex.org/keywords/gene-expression","display_name":"Gene expression","score":0.18330532312393188}],"concepts":[{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.6529600620269775},{"id":"https://openalex.org/C70721500","wikidata":"https://www.wikidata.org/wiki/Q177005","display_name":"Computational biology","level":1,"score":0.6319985389709473},{"id":"https://openalex.org/C104317684","wikidata":"https://www.wikidata.org/wiki/Q7187","display_name":"Gene","level":2,"score":0.6069278120994568},{"id":"https://openalex.org/C141231307","wikidata":"https://www.wikidata.org/wiki/Q7020","display_name":"Genome","level":3,"score":0.566107988357544},{"id":"https://openalex.org/C54355233","wikidata":"https://www.wikidata.org/wiki/Q7162","display_name":"Genetics","level":1,"score":0.5530081391334534},{"id":"https://openalex.org/C2780746887","wikidata":"https://www.wikidata.org/wiki/Q140652","display_name":"Xanthomonas","level":3,"score":0.5389213562011719},{"id":"https://openalex.org/C4918238","wikidata":"https://www.wikidata.org/wiki/Q121438","display_name":"Transposable element","level":4,"score":0.49306604266166687},{"id":"https://openalex.org/C3742359","wikidata":"https://www.wikidata.org/wiki/Q4839988","display_name":"Bacterial genome size","level":4,"score":0.49061980843544006},{"id":"https://openalex.org/C51785407","wikidata":"https://www.wikidata.org/wiki/Q2627568","display_name":"Effector","level":2,"score":0.4565666615962982},{"id":"https://openalex.org/C179926584","wikidata":"https://www.wikidata.org/wiki/Q207714","display_name":"Transcription (linguistics)","level":2,"score":0.4561521112918854},{"id":"https://openalex.org/C51679486","wikidata":"https://www.wikidata.org/wiki/Q380546","display_name":"DNA sequencing","level":3,"score":0.41602790355682373},{"id":"https://openalex.org/C3662595","wikidata":"https://www.wikidata.org/wiki/Q5205743","display_name":"DNA binding site","level":5,"score":0.4150095283985138},{"id":"https://openalex.org/C101762097","wikidata":"https://www.wikidata.org/wiki/Q224093","display_name":"Promoter","level":4,"score":0.26001113653182983},{"id":"https://openalex.org/C150194340","wikidata":"https://www.wikidata.org/wiki/Q26972","display_name":"Gene expression","level":3,"score":0.18330532312393188},{"id":"https://openalex.org/C95444343","wikidata":"https://www.wikidata.org/wiki/Q7141","display_name":"Cell biology","level":1,"score":0.0},{"id":"https://openalex.org/C41895202","wikidata":"https://www.wikidata.org/wiki/Q8162","display_name":"Linguistics","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":"D000071336","descriptor_name":"Transcription Activator-Like Effectors","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D000071336","descriptor_name":"Transcription Activator-Like Effectors","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D000071336","descriptor_name":"Transcription Activator-Like Effectors","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D000071336","descriptor_name":"Transcription Activator-Like Effectors","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D000071336","descriptor_name":"Transcription Activator-Like Effectors","qualifier_ui":"Q000502","qualifier_name":"physiology","is_major_topic":false},{"descriptor_ui":"D000071336","descriptor_name":"Transcription Activator-Like Effectors","qualifier_ui":"Q000502","qualifier_name":"physiology","is_major_topic":false},{"descriptor_ui":"D000071336","descriptor_name":"Transcription Activator-Like Effectors","qualifier_ui":"Q000502","qualifier_name":"physiology","is_major_topic":false},{"descriptor_ui":"D000071336","descriptor_name":"Transcription Activator-Like Effectors","qualifier_ui":"Q000502","qualifier_name":"physiology","is_major_topic":false},{"descriptor_ui":"D000076662","descriptor_name":"Host Microbial Interactions","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D000076662","descriptor_name":"Host Microbial Interactions","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D000076662","descriptor_name":"Host Microbial Interactions","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D000076662","descriptor_name":"Host Microbial Interactions","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D000076662","descriptor_name":"Host Microbial Interactions","qualifier_ui":"Q000502","qualifier_name":"physiology","is_major_topic":false},{"descriptor_ui":"D000076662","descriptor_name":"Host Microbial Interactions","qualifier_ui":"Q000502","qualifier_name":"physiology","is_major_topic":false},{"descriptor_ui":"D000076662","descriptor_name":"Host Microbial Interactions","qualifier_ui":"Q000502","qualifier_name":"physiology","is_major_topic":false},{"descriptor_ui":"D000076662","descriptor_name":"Host Microbial Interactions","qualifier_ui":"Q000502","qualifier_name":"physiology","is_major_topic":false},{"descriptor_ui":"D008954","descriptor_name":"Models, Biological","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D008954","descriptor_name":"Models, Biological","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D008954","descriptor_name":"Models, Biological","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D008954","descriptor_name":"Models, Biological","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"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":"Q000382","qualifier_name":"microbiology","is_major_topic":false},{"descriptor_ui":"D010935","descriptor_name":"Plant Diseases","qualifier_ui":"Q000382","qualifier_name":"microbiology","is_major_topic":false},{"descriptor_ui":"D010935","descriptor_name":"Plant Diseases","qualifier_ui":"Q000382","qualifier_name":"microbiology","is_major_topic":false},{"descriptor_ui":"D010935","descriptor_name":"Plant Diseases","qualifier_ui":"Q000382","qualifier_name":"microbiology","is_major_topic":false},{"descriptor_ui":"D012275","descriptor_name":"Oryza","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D012275","descriptor_name":"Oryza","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D012275","descriptor_name":"Oryza","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D012275","descriptor_name":"Oryza","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D012275","descriptor_name":"Oryza","qualifier_ui":"Q000382","qualifier_name":"microbiology","is_major_topic":false},{"descriptor_ui":"D012275","descriptor_name":"Oryza","qualifier_ui":"Q000382","qualifier_name":"microbiology","is_major_topic":false},{"descriptor_ui":"D012275","descriptor_name":"Oryza","qualifier_ui":"Q000382","qualifier_name":"microbiology","is_major_topic":false},{"descriptor_ui":"D012275","descriptor_name":"Oryza","qualifier_ui":"Q000382","qualifier_name":"microbiology","is_major_topic":false},{"descriptor_ui":"D014774","descriptor_name":"Virulence","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D014774","descriptor_name":"Virulence","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D014774","descriptor_name":"Virulence","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D014774","descriptor_name":"Virulence","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D014774","descriptor_name":"Virulence","qualifier_ui":"Q000502","qualifier_name":"physiology","is_major_topic":false},{"descriptor_ui":"D014774","descriptor_name":"Virulence","qualifier_ui":"Q000502","qualifier_name":"physiology","is_major_topic":false},{"descriptor_ui":"D014774","descriptor_name":"Virulence","qualifier_ui":"Q000502","qualifier_name":"physiology","is_major_topic":false},{"descriptor_ui":"D014774","descriptor_name":"Virulence","qualifier_ui":"Q000502","qualifier_name":"physiology","is_major_topic":false},{"descriptor_ui":"D014974","descriptor_name":"Xanthomonas","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D014974","descriptor_name":"Xanthomonas","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D014974","descriptor_name":"Xanthomonas","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D014974","descriptor_name":"Xanthomonas","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D014974","descriptor_name":"Xanthomonas","qualifier_ui":"Q000472","qualifier_name":"pathogenicity","is_major_topic":false},{"descriptor_ui":"D014974","descriptor_name":"Xanthomonas","qualifier_ui":"Q000472","qualifier_name":"pathogenicity","is_major_topic":false},{"descriptor_ui":"D014974","descriptor_name":"Xanthomonas","qualifier_ui":"Q000472","qualifier_name":"pathogenicity","is_major_topic":false},{"descriptor_ui":"D014974","descriptor_name":"Xanthomonas","qualifier_ui":"Q000472","qualifier_name":"pathogenicity","is_major_topic":false},{"descriptor_ui":"D014974","descriptor_name":"Xanthomonas","qualifier_ui":"Q000502","qualifier_name":"physiology","is_major_topic":false},{"descriptor_ui":"D014974","descriptor_name":"Xanthomonas","qualifier_ui":"Q000502","qualifier_name":"physiology","is_major_topic":false},{"descriptor_ui":"D014974","descriptor_name":"Xanthomonas","qualifier_ui":"Q000502","qualifier_name":"physiology","is_major_topic":false},{"descriptor_ui":"D014974","descriptor_name":"Xanthomonas","qualifier_ui":"Q000502","qualifier_name":"physiology","is_major_topic":false},{"descriptor_ui":"D017343","descriptor_name":"Genes, Plant","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D017343","descriptor_name":"Genes, Plant","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D017343","descriptor_name":"Genes, Plant","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D017343","descriptor_name":"Genes, 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":"D019295","descriptor_name":"Computational Biology","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":false},{"descriptor_ui":"D019295","descriptor_name":"Computational Biology","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":false},{"descriptor_ui":"D020080","descriptor_name":"Tandem Repeat Sequences","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D020080","descriptor_name":"Tandem Repeat Sequences","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D020080","descriptor_name":"Tandem Repeat Sequences","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D020080","descriptor_name":"Tandem Repeat Sequences","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D024363","descriptor_name":"Transcription Initiation Site","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D024363","descriptor_name":"Transcription Initiation Site","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D024363","descriptor_name":"Transcription Initiation Site","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D024363","descriptor_name":"Transcription Initiation Site","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false}],"locations_count":5,"locations":[{"id":"doi:10.1371/journal.pcbi.1007206","is_oa":true,"landing_page_url":"https://doi.org/10.1371/journal.pcbi.1007206","pdf_url":null,"source":{"id":"https://openalex.org/S86033158","display_name":"PLoS Computational Biology","issn_l":"1553-734X","issn":["1553-734X","1553-7358"],"is_oa":true,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310315706","host_organization_name":"Public Library of Science","host_organization_lineage":["https://openalex.org/P4310315706"],"host_organization_lineage_names":["Public Library of Science"],"type":"journal"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"PLOS Computational Biology","raw_type":"journal-article"},{"id":"pmid:31295249","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/31295249","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":"PLoS computational biology","raw_type":null},{"id":"pmh:oai:doaj.org/article:b38f4973729743ada5c52e693cb8cd0d","is_oa":true,"landing_page_url":"https://doaj.org/article/b38f4973729743ada5c52e693cb8cd0d","pdf_url":null,"source":{"id":"https://openalex.org/S112646816","display_name":"SHILAP Revista de lepidopterolog\u00eda","issn_l":"0300-5267","issn":["0300-5267","2340-4078"],"is_oa":true,"is_in_doaj":true,"is_core":false,"host_organization":null,"host_organization_name":null,"host_organization_lineage":[],"host_organization_lineage_names":[],"type":"journal"},"license":"cc-by-sa","license_id":"https://openalex.org/licenses/cc-by-sa","version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"PLoS Computational Biology, Vol 15, Iss 7, p e1007206 (2019)","raw_type":"article"},{"id":"pmh:oai:figshare.com:article/8859806","is_oa":true,"landing_page_url":"https://figshare.com/articles/PrediTALE_A_novel_model_learned_from_quantitative_data_allows_for_new_perspectives_on_TALE_targeting/8859806","pdf_url":null,"source":{"id":"https://openalex.org/S4377196282","display_name":"Figshare","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I4210132348","host_organization_name":"Figshare (United Kingdom)","host_organization_lineage":["https://openalex.org/I4210132348"],"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":"Dataset"},{"id":"pmh:oai:pubmedcentral.nih.gov:6650089","is_oa":true,"landing_page_url":"https://www.ncbi.nlm.nih.gov/pmc/articles/6650089","pdf_url":null,"source":{"id":"https://openalex.org/S2764455111","display_name":"PubMed Central","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":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"PLoS Comput Biol","raw_type":"Text"}],"best_oa_location":{"id":"doi:10.1371/journal.pcbi.1007206","is_oa":true,"landing_page_url":"https://doi.org/10.1371/journal.pcbi.1007206","pdf_url":null,"source":{"id":"https://openalex.org/S86033158","display_name":"PLoS Computational Biology","issn_l":"1553-734X","issn":["1553-734X","1553-7358"],"is_oa":true,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310315706","host_organization_name":"Public Library of Science","host_organization_lineage":["https://openalex.org/P4310315706"],"host_organization_lineage_names":["Public Library of Science"],"type":"journal"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"PLOS Computational Biology","raw_type":"journal-article"},"sustainable_development_goals":[],"awards":[{"id":"https://openalex.org/G1440128528","display_name":null,"funder_award_id":"CA16107 \"EuroXanth\"","funder_id":"https://openalex.org/F4320320366","funder_display_name":"European Cooperation in Science and Technology"},{"id":"https://openalex.org/G17354069","display_name":null,"funder_award_id":"GR 4587/1-1","funder_id":"https://openalex.org/F4320320879","funder_display_name":"Deutsche Forschungsgemeinschaft"},{"id":"https://openalex.org/G5212624937","display_name":null,"funder_award_id":"BO 1496/8-1","funder_id":"https://openalex.org/F4320320879","funder_display_name":"Deutsche Forschungsgemeinschaft"},{"id":"https://openalex.org/G8384836221","display_name":null,"funder_award_id":"FA1208 \u201cSUSTAIN\u201d","funder_id":"https://openalex.org/F4320320366","funder_display_name":"European Cooperation in Science and Technology"}],"funders":[{"id":"https://openalex.org/F4320320366","display_name":"European Cooperation in Science and Technology","ror":"https://ror.org/01bstzn19"},{"id":"https://openalex.org/F4320320879","display_name":"Deutsche Forschungsgemeinschaft","ror":"https://ror.org/018mejw64"}],"has_content":{"pdf":false,"grobid_xml":false},"content_urls":null,"referenced_works_count":59,"referenced_works":["https://openalex.org/W771098","https://openalex.org/W1498410508","https://openalex.org/W1512943857","https://openalex.org/W1604576423","https://openalex.org/W1887067757","https://openalex.org/W1976182511","https://openalex.org/W1976526581","https://openalex.org/W1978129709","https://openalex.org/W1984857675","https://openalex.org/W1986998800","https://openalex.org/W1987188990","https://openalex.org/W1992223383","https://openalex.org/W1997824158","https://openalex.org/W1999205586","https://openalex.org/W2023059594","https://openalex.org/W2031891979","https://openalex.org/W2036734246","https://openalex.org/W2036897871","https://openalex.org/W2038340608","https://openalex.org/W2039865329","https://openalex.org/W2041966008","https://openalex.org/W2056531506","https://openalex.org/W2057000344","https://openalex.org/W2064170863","https://openalex.org/W2073873559","https://openalex.org/W2079012919","https://openalex.org/W2083582836","https://openalex.org/W2090701628","https://openalex.org/W2102790000","https://openalex.org/W2107915254","https://openalex.org/W2114838239","https://openalex.org/W2115605381","https://openalex.org/W2121138707","https://openalex.org/W2130931930","https://openalex.org/W2131271579","https://openalex.org/W2138098955","https://openalex.org/W2140729960","https://openalex.org/W2140884584","https://openalex.org/W2142150660","https://openalex.org/W2146954339","https://openalex.org/W2148622499","https://openalex.org/W2158023793","https://openalex.org/W2158698691","https://openalex.org/W2166934949","https://openalex.org/W2282413424","https://openalex.org/W2323326409","https://openalex.org/W2340858006","https://openalex.org/W2478751547","https://openalex.org/W2508929473","https://openalex.org/W2525412483","https://openalex.org/W2528427721","https://openalex.org/W2560362402","https://openalex.org/W2579274099","https://openalex.org/W2595232447","https://openalex.org/W2619669612","https://openalex.org/W2620721366","https://openalex.org/W2783634347","https://openalex.org/W2917002599","https://openalex.org/W4399569460"],"related_works":["https://openalex.org/W4237591666","https://openalex.org/W2103833188","https://openalex.org/W2164152191","https://openalex.org/W1534300978","https://openalex.org/W68905254","https://openalex.org/W2387589589","https://openalex.org/W161778015","https://openalex.org/W4390126747","https://openalex.org/W1000425","https://openalex.org/W2364305142"],"abstract_inverted_index":{"Plant-pathogenic":[0],"Xanthomonas":[1,150],"bacteria":[2],"secrete":[3],"transcription":[4,103],"activator-like":[5],"effectors":[6],"(TALEs)":[7],"into":[8],"host":[9],"cells,":[10],"where":[11],"they":[12],"act":[13],"as":[14],"transcriptional":[15],"activators":[16],"on":[17,50],"plant":[18],"target":[19,56,68,98,108,184,225],"genes":[20,185],"to":[21,47,70,101,171,218,250],"support":[22],"bacterial":[23],"virulence.":[24],"TALEs":[25,199,210],"have":[26,132],"a":[27,63],"unique":[28],"modular":[29],"DNA-binding":[30],"domain":[31],"composed":[32],"of":[33,89,97,105,128,159,255],"tandem":[34,41],"repeats.":[35],"Two":[36],"amino":[37],"acids":[38],"within":[39],"each":[40],"repeat,":[42],"termed":[43,144],"repeat-variable":[44],"diresidues,":[45],"bind":[46],"contiguous":[48],"nucleotides":[49],"the":[51,93,102,106,126,136,141,242],"DNA":[52],"sequence":[53],"and":[54,92,154],"determine":[55],"specificity.":[57],"In":[58],"this":[59,201],"paper,":[60],"we":[61,168,179,196],"propose":[62,217],"novel":[64,142,174],"approach":[65,76],"for":[66,78,115,192,200,208,224],"TALE":[67,82],"prediction":[69,160,190],"identify":[71],"potential":[72],"virulence":[73,176],"targets.":[74,177],"Our":[75],"accounts":[77],"recent":[79],"findings":[80],"concerning":[81],"targeting,":[83],"including":[84],"frame-shift":[85],"binding":[86],"by":[87,188,221,238],"repeats":[88],"aberrant":[90],"lengths,":[91],"flexible":[94],"strand":[95],"orientation":[96],"boxes":[99],"relative":[100],"start":[104],"downstream":[107],"gene.":[109],"The":[110],"computational":[111],"model":[112],"can":[113],"account":[114],"dependencies":[116],"between":[117],"adjacent":[118],"RVD":[119],"positions.":[120],"Model":[121],"parameters":[122],"are":[123,169,186,211,248],"learned":[124],"from":[125,232],"wealth":[127],"quantitative":[129],"data":[130,148],"that":[131,182,205,229],"been":[133],"generated":[134],"over":[135],"last":[137],"years.":[138],"We":[139,203,227],"benchmark":[140],"approach,":[143],"PrediTALE,":[145,167],"using":[146],"RNA-seq":[147,246],"after":[149],"infection":[151],"in":[152],"rice,":[153],"find":[155],"an":[156],"overall":[157],"improvement":[158],"performance":[161],"compared":[162],"with":[163,245],"previous":[164],"approaches.":[165],"Using":[166],"able":[170,249],"predict":[172],"several":[173,193],"putative":[175,252],"However,":[178],"also":[180],"observe":[181],"no":[183],"predicted":[187],"any":[189],"tool":[191],"TALEs,":[194],"which":[195],"term":[197],"orphan":[198,209],"reason.":[202],"postulate":[204],"one":[206],"explanation":[207],"incomplete":[212],"gene":[213,257],"annotations":[214],"and,":[215],"hence,":[216],"replace":[219],"promoterome-wide":[220,233],"genome-wide":[222,239],"scans":[223,234],"boxes.":[226],"demonstrate":[228],"known":[230],"targets":[231,253],"may":[235],"be":[236],"recovered":[237],"scans,":[240],"whereas":[241],"latter,":[243],"combined":[244],"data,":[247],"detect":[251],"independent":[254],"existing":[256],"annotations.":[258]},"counts_by_year":[{"year":2025,"cited_by_count":4},{"year":2024,"cited_by_count":3},{"year":2022,"cited_by_count":3},{"year":2021,"cited_by_count":6},{"year":2020,"cited_by_count":5}],"updated_date":"2026-04-09T08:11:56.329763","created_date":"2025-10-10T00:00:00"}
