{"id":"https://openalex.org/W2604941428","doi":"https://doi.org/10.1093/database/baw172","title":"OCaPPI-Db: an oligonucleotide probe database for pathogen identification through hybridization capture","display_name":"OCaPPI-Db: an oligonucleotide probe database for pathogen identification through hybridization capture","publication_year":2017,"publication_date":"2017-01-01","ids":{"openalex":"https://openalex.org/W2604941428","doi":"https://doi.org/10.1093/database/baw172","mag":"2604941428","pmid":"https://pubmed.ncbi.nlm.nih.gov/28365722"},"language":"en","primary_location":{"id":"doi:10.1093/database/baw172","is_oa":true,"landing_page_url":"https://doi.org/10.1093/database/baw172","pdf_url":"https://academic.oup.com/database/article-pdf/doi/10.1093/database/baw172/19230078/baw172.pdf","source":{"id":"https://openalex.org/S4210201630","display_name":"Database","issn_l":"1758-0463","issn":["1758-0463"],"is_oa":true,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310311647","host_organization_name":"University of Oxford","host_organization_lineage":["https://openalex.org/P4310311647"],"host_organization_lineage_names":["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":"Database","raw_type":"journal-article"},"type":"article","indexed_in":["crossref","doaj","pubmed"],"open_access":{"is_oa":true,"oa_status":"gold","oa_url":"https://academic.oup.com/database/article-pdf/doi/10.1093/database/baw172/19230078/baw172.pdf","any_repository_has_fulltext":true},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5048794537","display_name":"Cyrielle Gasc","orcid":null},"institutions":[{"id":"https://openalex.org/I198244214","display_name":"Universit\u00e9 Clermont Auvergne","ror":"https://ror.org/01a8ajp46","country_code":"FR","type":"education","lineage":["https://openalex.org/I198244214"]}],"countries":["FR"],"is_corresponding":false,"raw_author_name":"Cyrielle Gasc","raw_affiliation_strings":["Universit\u00e9 Clermont Auvergne, INRA, MEDIS, F-63000 Clermont-Ferrand, France"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Universit\u00e9 Clermont Auvergne, INRA, MEDIS, F-63000 Clermont-Ferrand, France","institution_ids":["https://openalex.org/I198244214"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5003136108","display_name":"Antony Constantin","orcid":null},"institutions":[],"countries":[],"is_corresponding":false,"raw_author_name":"Antony Constantin","raw_affiliation_strings":["Universit\u00e9 d\u2019Auvergne, IUT du Puy en Velay, Le Puy en Velay, France"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Universit\u00e9 d\u2019Auvergne, IUT du Puy en Velay, Le Puy en Velay, France","institution_ids":[]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5021470418","display_name":"Faouzi Jaziri","orcid":"https://orcid.org/0000-0002-1417-2458"},"institutions":[{"id":"https://openalex.org/I198244214","display_name":"Universit\u00e9 Clermont Auvergne","ror":"https://ror.org/01a8ajp46","country_code":"FR","type":"education","lineage":["https://openalex.org/I198244214"]}],"countries":["FR"],"is_corresponding":false,"raw_author_name":"Faouzi Jaziri","raw_affiliation_strings":["Universit\u00e9 d\u2019Auvergne, ISIT, Clermont-Ferrand, France"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Universit\u00e9 d\u2019Auvergne, ISIT, Clermont-Ferrand, France","institution_ids":["https://openalex.org/I198244214"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5002447097","display_name":"Pierre Peyret","orcid":"https://orcid.org/0000-0003-3114-0586"},"institutions":[{"id":"https://openalex.org/I198244214","display_name":"Universit\u00e9 Clermont Auvergne","ror":"https://ror.org/01a8ajp46","country_code":"FR","type":"education","lineage":["https://openalex.org/I198244214"]}],"countries":["FR"],"is_corresponding":true,"raw_author_name":"Pierre Peyret","raw_affiliation_strings":["Universit\u00e9 Clermont Auvergne, INRA, MEDIS, F-63000 Clermont-Ferrand, France"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Universit\u00e9 Clermont Auvergne, INRA, MEDIS, F-63000 Clermont-Ferrand, France","institution_ids":["https://openalex.org/I198244214"]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":1,"corresponding_author_ids":["https://openalex.org/A5002447097"],"corresponding_institution_ids":["https://openalex.org/I198244214"],"apc_list":{"value":2729,"currency":"USD","value_usd":2729},"apc_paid":{"value":1440,"currency":"EUR","value_usd":1553},"fwci":0.0,"has_fulltext":true,"cited_by_count":0,"citation_normalized_percentile":{"value":0.02904564,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":null,"biblio":{"volume":"2017","issue":"1","first_page":null,"last_page":null},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T10486","display_name":"Salmonella and Campylobacter epidemiology","score":0.16019999980926514,"subfield":{"id":"https://openalex.org/subfields/1106","display_name":"Food 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/T10486","display_name":"Salmonella and Campylobacter epidemiology","score":0.16019999980926514,"subfield":{"id":"https://openalex.org/subfields/1106","display_name":"Food 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/T11393","display_name":"Biosensors and Analytical Detection","score":0.1388999968767166,"subfield":{"id":"https://openalex.org/subfields/2204","display_name":"Biomedical Engineering"},"field":{"id":"https://openalex.org/fields/22","display_name":"Engineering"},"domain":{"id":"https://openalex.org/domains/3","display_name":"Physical Sciences"}},{"id":"https://openalex.org/T11331","display_name":"Fecal contamination and water quality","score":0.0966000035405159,"subfield":{"id":"https://openalex.org/subfields/2312","display_name":"Water Science and Technology"},"field":{"id":"https://openalex.org/fields/23","display_name":"Environmental Science"},"domain":{"id":"https://openalex.org/domains/3","display_name":"Physical Sciences"}}],"keywords":[{"id":"https://openalex.org/keywords/oligonucleotide","display_name":"Oligonucleotide","score":0.7497709393501282},{"id":"https://openalex.org/keywords/identification","display_name":"Identification (biology)","score":0.6705088019371033},{"id":"https://openalex.org/keywords/computational-biology","display_name":"Computational biology","score":0.6035708785057068},{"id":"https://openalex.org/keywords/biology","display_name":"Biology","score":0.5110460519790649},{"id":"https://openalex.org/keywords/pathogen","display_name":"Pathogen","score":0.47287270426750183},{"id":"https://openalex.org/keywords/oligomer-restriction","display_name":"Oligomer restriction","score":0.466022253036499},{"id":"https://openalex.org/keywords/dna-microarray","display_name":"DNA microarray","score":0.4494943618774414},{"id":"https://openalex.org/keywords/shotgun","display_name":"Shotgun","score":0.448780357837677},{"id":"https://openalex.org/keywords/population","display_name":"Population","score":0.4467521011829376},{"id":"https://openalex.org/keywords/dna-sequencing","display_name":"DNA sequencing","score":0.4107225835323334},{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.34911656379699707},{"id":"https://openalex.org/keywords/database","display_name":"Database","score":0.3378279209136963},{"id":"https://openalex.org/keywords/genetics","display_name":"Genetics","score":0.2798648476600647},{"id":"https://openalex.org/keywords/dna","display_name":"DNA","score":0.22871655225753784},{"id":"https://openalex.org/keywords/gene","display_name":"Gene","score":0.12350472807884216}],"concepts":[{"id":"https://openalex.org/C129312508","wikidata":"https://www.wikidata.org/wiki/Q133686","display_name":"Oligonucleotide","level":3,"score":0.7497709393501282},{"id":"https://openalex.org/C116834253","wikidata":"https://www.wikidata.org/wiki/Q2039217","display_name":"Identification (biology)","level":2,"score":0.6705088019371033},{"id":"https://openalex.org/C70721500","wikidata":"https://www.wikidata.org/wiki/Q177005","display_name":"Computational biology","level":1,"score":0.6035708785057068},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.5110460519790649},{"id":"https://openalex.org/C2776460866","wikidata":"https://www.wikidata.org/wiki/Q170065","display_name":"Pathogen","level":2,"score":0.47287270426750183},{"id":"https://openalex.org/C111824103","wikidata":"https://www.wikidata.org/wiki/Q7086828","display_name":"Oligomer restriction","level":4,"score":0.466022253036499},{"id":"https://openalex.org/C95371953","wikidata":"https://www.wikidata.org/wiki/Q591745","display_name":"DNA microarray","level":4,"score":0.4494943618774414},{"id":"https://openalex.org/C2781434637","wikidata":"https://www.wikidata.org/wiki/Q486396","display_name":"Shotgun","level":3,"score":0.448780357837677},{"id":"https://openalex.org/C2908647359","wikidata":"https://www.wikidata.org/wiki/Q2625603","display_name":"Population","level":2,"score":0.4467521011829376},{"id":"https://openalex.org/C51679486","wikidata":"https://www.wikidata.org/wiki/Q380546","display_name":"DNA sequencing","level":3,"score":0.4107225835323334},{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.34911656379699707},{"id":"https://openalex.org/C77088390","wikidata":"https://www.wikidata.org/wiki/Q8513","display_name":"Database","level":1,"score":0.3378279209136963},{"id":"https://openalex.org/C54355233","wikidata":"https://www.wikidata.org/wiki/Q7162","display_name":"Genetics","level":1,"score":0.2798648476600647},{"id":"https://openalex.org/C552990157","wikidata":"https://www.wikidata.org/wiki/Q7430","display_name":"DNA","level":2,"score":0.22871655225753784},{"id":"https://openalex.org/C104317684","wikidata":"https://www.wikidata.org/wiki/Q7187","display_name":"Gene","level":2,"score":0.12350472807884216},{"id":"https://openalex.org/C150194340","wikidata":"https://www.wikidata.org/wiki/Q26972","display_name":"Gene expression","level":3,"score":0.0},{"id":"https://openalex.org/C149923435","wikidata":"https://www.wikidata.org/wiki/Q37732","display_name":"Demography","level":1,"score":0.0},{"id":"https://openalex.org/C144024400","wikidata":"https://www.wikidata.org/wiki/Q21201","display_name":"Sociology","level":0,"score":0.0},{"id":"https://openalex.org/C59822182","wikidata":"https://www.wikidata.org/wiki/Q441","display_name":"Botany","level":1,"score":0.0}],"mesh":[{"descriptor_ui":"D013045","descriptor_name":"Species Specificity","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D013045","descriptor_name":"Species Specificity","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D013045","descriptor_name":"Species Specificity","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D015345","descriptor_name":"Oligonucleotide Probes","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D015345","descriptor_name":"Oligonucleotide Probes","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D015345","descriptor_name":"Oligonucleotide Probes","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D030561","descriptor_name":"Databases, Nucleic Acid","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D030561","descriptor_name":"Databases, Nucleic Acid","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D030561","descriptor_name":"Databases, Nucleic Acid","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D037521","descriptor_name":"Virulence Factors","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D037521","descriptor_name":"Virulence Factors","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D037521","descriptor_name":"Virulence Factors","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D054045","descriptor_name":"Biological Warfare Agents","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D054045","descriptor_name":"Biological Warfare Agents","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D054045","descriptor_name":"Biological Warfare Agents","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true}],"locations_count":4,"locations":[{"id":"doi:10.1093/database/baw172","is_oa":true,"landing_page_url":"https://doi.org/10.1093/database/baw172","pdf_url":"https://academic.oup.com/database/article-pdf/doi/10.1093/database/baw172/19230078/baw172.pdf","source":{"id":"https://openalex.org/S4210201630","display_name":"Database","issn_l":"1758-0463","issn":["1758-0463"],"is_oa":true,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310311647","host_organization_name":"University of Oxford","host_organization_lineage":["https://openalex.org/P4310311647"],"host_organization_lineage_names":["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":"Database","raw_type":"journal-article"},{"id":"pmid:28365722","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/28365722","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":"Database : the journal of biological databases and curation","raw_type":"Journal Article"},{"id":"pmh:oai:europepmc.org:4323661","is_oa":true,"landing_page_url":"https://www.ncbi.nlm.nih.gov/pmc/articles/5467545","pdf_url":null,"source":{"id":"https://openalex.org/S4306400806","display_name":"Europe PMC (PubMed Central)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I1303153112","host_organization_name":"European Bioinformatics Institute","host_organization_lineage":["https://openalex.org/I1303153112"],"host_organization_lineage_names":[],"type":"repository"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":null,"raw_type":"Text"},{"id":"pmh:oai:HAL:hal-01608266v1","is_oa":true,"landing_page_url":"https://hal.science/hal-01608266","pdf_url":null,"source":{"id":"https://openalex.org/S4306402512","display_name":"HAL (Le Centre pour la Communication Scientifique Directe)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I1294671590","host_organization_name":"Centre National de la Recherche Scientifique","host_organization_lineage":["https://openalex.org/I1294671590"],"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":"https://academic.oup.com/database/issue","raw_type":"info:eu-repo/semantics/article"}],"best_oa_location":{"id":"doi:10.1093/database/baw172","is_oa":true,"landing_page_url":"https://doi.org/10.1093/database/baw172","pdf_url":"https://academic.oup.com/database/article-pdf/doi/10.1093/database/baw172/19230078/baw172.pdf","source":{"id":"https://openalex.org/S4210201630","display_name":"Database","issn_l":"1758-0463","issn":["1758-0463"],"is_oa":true,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310311647","host_organization_name":"University of Oxford","host_organization_lineage":["https://openalex.org/P4310311647"],"host_organization_lineage_names":["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":"Database","raw_type":"journal-article"},"sustainable_development_goals":[{"id":"https://metadata.un.org/sdg/15","display_name":"Life in Land","score":0.6600000262260437}],"awards":[{"id":"https://openalex.org/G3400499636","display_name":"SATT GRAND CENTRE","funder_award_id":"ANR-10-SATT-0010","funder_id":"https://openalex.org/F4320320883","funder_display_name":"Agence Nationale de la Recherche"}],"funders":[{"id":"https://openalex.org/F4320320883","display_name":"Agence Nationale de la Recherche","ror":"https://ror.org/00rbzpz17"},{"id":"https://openalex.org/F4320330625","display_name":"Soci\u00e9t\u00e9 d'Acc\u00e9l\u00e9ration du Transfert de Technologies","ror":null}],"has_content":{"grobid_xml":true,"pdf":true},"content_urls":{"pdf":"https://content.openalex.org/works/W2604941428.pdf","grobid_xml":"https://content.openalex.org/works/W2604941428.grobid-xml"},"referenced_works_count":18,"referenced_works":["https://openalex.org/W1646123165","https://openalex.org/W1974182796","https://openalex.org/W1977800104","https://openalex.org/W2096772815","https://openalex.org/W2113168385","https://openalex.org/W2114154621","https://openalex.org/W2123364539","https://openalex.org/W2132102861","https://openalex.org/W2137015675","https://openalex.org/W2142780363","https://openalex.org/W2148308752","https://openalex.org/W2156125289","https://openalex.org/W2173913502","https://openalex.org/W2339327716","https://openalex.org/W2436260936","https://openalex.org/W2439131540","https://openalex.org/W2537305183","https://openalex.org/W6729096601"],"related_works":["https://openalex.org/W2097383747","https://openalex.org/W2034858540","https://openalex.org/W2227685362","https://openalex.org/W4231773524","https://openalex.org/W4388311072","https://openalex.org/W2353219261","https://openalex.org/W2000089100","https://openalex.org/W2026037039","https://openalex.org/W2171396485","https://openalex.org/W2048404795"],"abstract_inverted_index":{"The":[0],"detection":[1,104],"and":[2,12,23,70,105],"identification":[3,106],"of":[4,10,65,73,97,107,137],"bacterial":[5],"pathogens":[6],"involved":[7],"in":[8,20,75,122],"acts":[9],"bio-":[11],"agroterrorism":[13],"are":[14,40],"essential":[15],"to":[16,42,52,68,112,134,147],"avoid":[17],"pathogen":[18,142],"dispersal":[19],"the":[21,26,103,113,148],"environment":[22],"propagation":[24],"within":[25],"population.":[27],"Conventional":[28],"molecular":[29],"methods,":[30],"such":[31],"as":[32,125],"PCR":[33],"amplification,":[34],"DNA":[35],"microarrays":[36],"or":[37,130,143],"shotgun":[38],"sequencing,":[39],"subject":[41],"various":[43],"limitations":[44],"when":[45],"assessing":[46],"environmental":[47,76],"samples,":[48],"which":[49],"can":[50,119,131],"lead":[51],"inaccurate":[53],"findings.":[54],"We":[55],"developed":[56],"a":[57,63,95,126,135,140],"hybridization":[58],"capture":[59,91],"strategy":[60],"that":[61],"uses":[62],"set":[64,96,118,136],"oligonucleotide":[66,99],"probes":[67,100,138],"target":[69],"enrich":[71],"biomarkers":[72],"interest":[74],"samples.":[77],"Here,":[78],"we":[79],"present":[80],"Oligonucleotide":[81],"Capture":[82],"Probes":[83],"for":[84,102],"Pathogen":[85],"Identification":[86],"Database":[87,151],"(OCaPPI-Db),":[88],"an":[89],"online":[90],"probe":[92,117],"database":[93],"containing":[94],"1,685":[98],"allowing":[101],"30":[108],"biothreat":[109],"agents":[110],"up":[111],"species":[114],"level.":[115],"This":[116],"be":[120,132],"used":[121],"its":[123],"entirety":[124],"comprehensive":[127],"diagnostic":[128],"tool":[129],"restricted":[133],"targeting":[139],"specific":[141],"virulence":[144],"factor":[145],"according":[146],"user's":[149],"needs.":[150],"URL:":[152],":":[153],"http://ocappidb.uca.works.":[154]},"counts_by_year":[],"updated_date":"2026-08-26T07:47:46.906454","created_date":"2025-10-10T00:00:00"}
