{"id":"https://openalex.org/W2865530545","doi":"https://doi.org/10.1093/bioinformatics/bty578","title":"PingPongPro: a tool for the detection of piRNA-mediated transposon-silencing in small RNA-Seq data","display_name":"PingPongPro: a tool for the detection of piRNA-mediated transposon-silencing in small RNA-Seq data","publication_year":2018,"publication_date":"2018-07-04","ids":{"openalex":"https://openalex.org/W2865530545","doi":"https://doi.org/10.1093/bioinformatics/bty578","mag":"2865530545","pmid":"https://pubmed.ncbi.nlm.nih.gov/29985981"},"language":"en","primary_location":{"id":"doi:10.1093/bioinformatics/bty578","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bioinformatics/bty578","pdf_url":"https://academic.oup.com/bioinformatics/article-pdf/35/2/335/27497038/bty578.pdf","source":{"id":"https://openalex.org/S52395412","display_name":"Bioinformatics","issn_l":"1367-4803","issn":["1367-4803","1367-4811"],"is_oa":false,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310311648","host_organization_name":"Oxford University Press","host_organization_lineage":["https://openalex.org/P4310311648","https://openalex.org/P4310311647"],"host_organization_lineage_names":["Oxford University Press","University of Oxford"],"type":"journal"},"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Bioinformatics","raw_type":"journal-article"},"type":"article","indexed_in":["crossref","doaj","pubmed"],"open_access":{"is_oa":true,"oa_status":"bronze","oa_url":"https://academic.oup.com/bioinformatics/article-pdf/35/2/335/27497038/bty578.pdf","any_repository_has_fulltext":false},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5090180448","display_name":"Sebastian Uhrig","orcid":"https://orcid.org/0000-0002-0068-5957"},"institutions":[{"id":"https://openalex.org/I4210165538","display_name":"Institute of Molecular Biology","ror":"https://ror.org/05kxtq558","country_code":"DE","type":"facility","lineage":["https://openalex.org/I4210165538"]}],"countries":["DE"],"is_corresponding":true,"raw_author_name":"Sebastian Uhrig","raw_affiliation_strings":["Bioinformatics Core Facility, Institute of Molecular Biology, Mainz, Germany"],"affiliations":[{"raw_affiliation_string":"Bioinformatics Core Facility, Institute of Molecular Biology, Mainz, Germany","institution_ids":["https://openalex.org/I4210165538"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5103239938","display_name":"Holger Klein","orcid":"https://orcid.org/0000-0002-6904-2319"},"institutions":[{"id":"https://openalex.org/I4210165538","display_name":"Institute of Molecular Biology","ror":"https://ror.org/05kxtq558","country_code":"DE","type":"facility","lineage":["https://openalex.org/I4210165538"]},{"id":"https://openalex.org/I1330995197","display_name":"Boehringer Ingelheim (Germany)","ror":"https://ror.org/00q32j219","country_code":"DE","type":"company","lineage":["https://openalex.org/I1330995197"]}],"countries":["DE"],"is_corresponding":false,"raw_author_name":"Holger Klein","raw_affiliation_strings":["Bioinformatics Core Facility, Institute of Molecular Biology, Mainz, Germany","Computational Biology Group, Target Discovery Research, Boehringer Ingelheim Pharma GmbH & Co. KG, Biberach an der Ri\u00df, Deutschland"],"affiliations":[{"raw_affiliation_string":"Bioinformatics Core Facility, Institute of Molecular Biology, Mainz, Germany","institution_ids":["https://openalex.org/I4210165538"]},{"raw_affiliation_string":"Computational Biology Group, Target Discovery Research, Boehringer Ingelheim Pharma GmbH & Co. KG, Biberach an der Ri\u00df, Deutschland","institution_ids":["https://openalex.org/I1330995197"]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":2,"corresponding_author_ids":["https://openalex.org/A5090180448"],"corresponding_institution_ids":["https://openalex.org/I4210165538"],"apc_list":{"value":3618,"currency":"USD","value_usd":3618},"apc_paid":null,"fwci":5.3666,"has_fulltext":true,"cited_by_count":31,"citation_normalized_percentile":{"value":0.94910483,"is_in_top_1_percent":false,"is_in_top_10_percent":true},"cited_by_percentile_year":{"min":90,"max":99},"biblio":{"volume":"35","issue":"2","first_page":"335","last_page":"336"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T10434","display_name":"Chromosomal and Genetic Variations","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/T10434","display_name":"Chromosomal and Genetic Variations","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/T10521","display_name":"RNA and protein synthesis mechanisms","score":0.996999979019165,"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/T10878","display_name":"CRISPR and Genetic Engineering","score":0.9966999888420105,"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"}}],"keywords":[{"id":"https://openalex.org/keywords/transposable-element","display_name":"Transposable element","score":0.8410319089889526},{"id":"https://openalex.org/keywords/piwi-interacting-rna","display_name":"Piwi-interacting RNA","score":0.8387739658355713},{"id":"https://openalex.org/keywords/rna-seq","display_name":"RNA-Seq","score":0.6095355153083801},{"id":"https://openalex.org/keywords/gene-silencing","display_name":"Gene silencing","score":0.602174699306488},{"id":"https://openalex.org/keywords/computational-biology","display_name":"Computational biology","score":0.5615769028663635},{"id":"https://openalex.org/keywords/small-rna","display_name":"Small RNA","score":0.5230637192726135},{"id":"https://openalex.org/keywords/argonaute","display_name":"Argonaute","score":0.47117215394973755},{"id":"https://openalex.org/keywords/rna","display_name":"RNA","score":0.4577059745788574},{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.40244007110595703},{"id":"https://openalex.org/keywords/biology","display_name":"Biology","score":0.3975023329257965},{"id":"https://openalex.org/keywords/genetics","display_name":"Genetics","score":0.3421446681022644},{"id":"https://openalex.org/keywords/rna-interference","display_name":"RNA interference","score":0.2510748505592346},{"id":"https://openalex.org/keywords/gene","display_name":"Gene","score":0.1937134861946106},{"id":"https://openalex.org/keywords/gene-expression","display_name":"Gene expression","score":0.14228761196136475},{"id":"https://openalex.org/keywords/genome","display_name":"Genome","score":0.1358664333820343},{"id":"https://openalex.org/keywords/transcriptome","display_name":"Transcriptome","score":0.12918829917907715}],"concepts":[{"id":"https://openalex.org/C4918238","wikidata":"https://www.wikidata.org/wiki/Q121438","display_name":"Transposable element","level":4,"score":0.8410319089889526},{"id":"https://openalex.org/C147724379","wikidata":"https://www.wikidata.org/wiki/Q2367421","display_name":"Piwi-interacting RNA","level":5,"score":0.8387739658355713},{"id":"https://openalex.org/C107397762","wikidata":"https://www.wikidata.org/wiki/Q2542347","display_name":"RNA-Seq","level":5,"score":0.6095355153083801},{"id":"https://openalex.org/C119056186","wikidata":"https://www.wikidata.org/wiki/Q1431332","display_name":"Gene silencing","level":3,"score":0.602174699306488},{"id":"https://openalex.org/C70721500","wikidata":"https://www.wikidata.org/wiki/Q177005","display_name":"Computational biology","level":1,"score":0.5615769028663635},{"id":"https://openalex.org/C2779341050","wikidata":"https://www.wikidata.org/wiki/Q24287527","display_name":"Small RNA","level":4,"score":0.5230637192726135},{"id":"https://openalex.org/C201853390","wikidata":"https://www.wikidata.org/wiki/Q413236","display_name":"Argonaute","level":5,"score":0.47117215394973755},{"id":"https://openalex.org/C67705224","wikidata":"https://www.wikidata.org/wiki/Q11053","display_name":"RNA","level":3,"score":0.4577059745788574},{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.40244007110595703},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.3975023329257965},{"id":"https://openalex.org/C54355233","wikidata":"https://www.wikidata.org/wiki/Q7162","display_name":"Genetics","level":1,"score":0.3421446681022644},{"id":"https://openalex.org/C166703698","wikidata":"https://www.wikidata.org/wiki/Q201993","display_name":"RNA interference","level":4,"score":0.2510748505592346},{"id":"https://openalex.org/C104317684","wikidata":"https://www.wikidata.org/wiki/Q7187","display_name":"Gene","level":2,"score":0.1937134861946106},{"id":"https://openalex.org/C150194340","wikidata":"https://www.wikidata.org/wiki/Q26972","display_name":"Gene expression","level":3,"score":0.14228761196136475},{"id":"https://openalex.org/C141231307","wikidata":"https://www.wikidata.org/wiki/Q7020","display_name":"Genome","level":3,"score":0.1358664333820343},{"id":"https://openalex.org/C162317418","wikidata":"https://www.wikidata.org/wiki/Q252857","display_name":"Transcriptome","level":4,"score":0.12918829917907715}],"mesh":[{"descriptor_ui":"D004251","descriptor_name":"DNA Transposable Elements","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D004251","descriptor_name":"DNA Transposable Elements","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D004251","descriptor_name":"DNA Transposable Elements","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D012333","descriptor_name":"RNA, Messenger","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D012333","descriptor_name":"RNA, Messenger","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D012333","descriptor_name":"RNA, Messenger","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":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":"D017423","descriptor_name":"Sequence Analysis, RNA","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D017423","descriptor_name":"Sequence Analysis, RNA","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D017423","descriptor_name":"Sequence Analysis, RNA","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"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":"D034741","descriptor_name":"RNA, Small Interfering","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D034741","descriptor_name":"RNA, Small Interfering","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D034741","descriptor_name":"RNA, Small Interfering","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false}],"locations_count":2,"locations":[{"id":"doi:10.1093/bioinformatics/bty578","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bioinformatics/bty578","pdf_url":"https://academic.oup.com/bioinformatics/article-pdf/35/2/335/27497038/bty578.pdf","source":{"id":"https://openalex.org/S52395412","display_name":"Bioinformatics","issn_l":"1367-4803","issn":["1367-4803","1367-4811"],"is_oa":false,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310311648","host_organization_name":"Oxford University Press","host_organization_lineage":["https://openalex.org/P4310311648","https://openalex.org/P4310311647"],"host_organization_lineage_names":["Oxford University Press","University of Oxford"],"type":"journal"},"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Bioinformatics","raw_type":"journal-article"},{"id":"pmid:29985981","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/29985981","pdf_url":null,"source":{"id":"https://openalex.org/S4306525036","display_name":"PubMed","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I1299303238","host_organization_name":"National Institutes of Health","host_organization_lineage":["https://openalex.org/I1299303238"],"host_organization_lineage_names":[],"type":"repository"},"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Bioinformatics (Oxford, England)","raw_type":null}],"best_oa_location":{"id":"doi:10.1093/bioinformatics/bty578","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bioinformatics/bty578","pdf_url":"https://academic.oup.com/bioinformatics/article-pdf/35/2/335/27497038/bty578.pdf","source":{"id":"https://openalex.org/S52395412","display_name":"Bioinformatics","issn_l":"1367-4803","issn":["1367-4803","1367-4811"],"is_oa":false,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310311648","host_organization_name":"Oxford University Press","host_organization_lineage":["https://openalex.org/P4310311648","https://openalex.org/P4310311647"],"host_organization_lineage_names":["Oxford University Press","University of Oxford"],"type":"journal"},"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Bioinformatics","raw_type":"journal-article"},"sustainable_development_goals":[],"awards":[],"funders":[],"has_content":{"grobid_xml":true,"pdf":true},"content_urls":{"pdf":"https://content.openalex.org/works/W2865530545.pdf","grobid_xml":"https://content.openalex.org/works/W2865530545.grobid-xml"},"referenced_works_count":6,"referenced_works":["https://openalex.org/W1971549481","https://openalex.org/W1976342457","https://openalex.org/W2075996757","https://openalex.org/W2101708445","https://openalex.org/W2162977292","https://openalex.org/W2410627019"],"related_works":["https://openalex.org/W2117132581","https://openalex.org/W1971388540","https://openalex.org/W4283721041","https://openalex.org/W1973179756","https://openalex.org/W2168693341","https://openalex.org/W2526067614","https://openalex.org/W2319145898","https://openalex.org/W2015402753","https://openalex.org/W1596971406","https://openalex.org/W4226170045"],"abstract_inverted_index":{"Supplementary":[0],"data":[1],"are":[2],"available":[3],"at":[4],"Bioinformatics":[5],"online.":[6]},"counts_by_year":[{"year":2026,"cited_by_count":1},{"year":2025,"cited_by_count":3},{"year":2024,"cited_by_count":1},{"year":2023,"cited_by_count":3},{"year":2022,"cited_by_count":7},{"year":2021,"cited_by_count":4},{"year":2020,"cited_by_count":10},{"year":2019,"cited_by_count":2}],"updated_date":"2026-03-09T08:58:05.943551","created_date":"2025-10-10T00:00:00"}
