{"id":"https://openalex.org/W3178792299","doi":"https://doi.org/10.1093/bioinformatics/btab330","title":"Topology-based sparsification of graph annotations","display_name":"Topology-based sparsification of graph annotations","publication_year":2021,"publication_date":"2021-05-03","ids":{"openalex":"https://openalex.org/W3178792299","doi":"https://doi.org/10.1093/bioinformatics/btab330","mag":"3178792299","pmid":"https://pubmed.ncbi.nlm.nih.gov/34252940"},"language":"en","primary_location":{"id":"doi:10.1093/bioinformatics/btab330","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bioinformatics/btab330","pdf_url":"https://academic.oup.com/bioinformatics/article-pdf/37/Supplement_1/i169/39620109/btab330.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/37/Supplement_1/i169/39620109/btab330.pdf","any_repository_has_fulltext":true},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5071749437","display_name":"Daniel Danciu","orcid":"https://orcid.org/0000-0002-6175-3642"},"institutions":[{"id":"https://openalex.org/I4210100468","display_name":"University Hospital of Zurich","ror":"https://ror.org/01462r250","country_code":"CH","type":"funder","lineage":["https://openalex.org/I4210100468"]},{"id":"https://openalex.org/I35440088","display_name":"ETH Zurich","ror":"https://ror.org/05a28rw58","country_code":"CH","type":"education","lineage":["https://openalex.org/I2799323385","https://openalex.org/I35440088"]}],"countries":["CH"],"is_corresponding":false,"raw_author_name":"Daniel Danciu","raw_affiliation_strings":["Biomedical Informatics Research, University Hospital Zurich , Zurich, Switzerland","Department of Computer Science, Biomedical Informatics Group, ETH Zurich , Zurich, Switzerland"],"affiliations":[{"raw_affiliation_string":"Biomedical Informatics Research, University Hospital Zurich , Zurich, Switzerland","institution_ids":["https://openalex.org/I4210100468"]},{"raw_affiliation_string":"Department of Computer Science, Biomedical Informatics Group, ETH Zurich , Zurich, Switzerland","institution_ids":["https://openalex.org/I35440088"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5085609478","display_name":"Mikhail Karasikov","orcid":"https://orcid.org/0000-0001-6200-5972"},"institutions":[{"id":"https://openalex.org/I12708293","display_name":"SIB Swiss Institute of Bioinformatics","ror":"https://ror.org/002n09z45","country_code":"CH","type":"funder","lineage":["https://openalex.org/I12708293"]},{"id":"https://openalex.org/I4210100468","display_name":"University Hospital of Zurich","ror":"https://ror.org/01462r250","country_code":"CH","type":"funder","lineage":["https://openalex.org/I4210100468"]},{"id":"https://openalex.org/I35440088","display_name":"ETH Zurich","ror":"https://ror.org/05a28rw58","country_code":"CH","type":"education","lineage":["https://openalex.org/I2799323385","https://openalex.org/I35440088"]}],"countries":["CH"],"is_corresponding":false,"raw_author_name":"Mikhail Karasikov","raw_affiliation_strings":["Biomedical Informatics Research, University Hospital Zurich , Zurich, Switzerland","Department of Computer Science, Biomedical Informatics Group, ETH Zurich , Zurich, Switzerland","Swiss Institute of Bioinformatics , Zurich, Switzerland"],"affiliations":[{"raw_affiliation_string":"Biomedical Informatics Research, University Hospital Zurich , Zurich, Switzerland","institution_ids":["https://openalex.org/I4210100468"]},{"raw_affiliation_string":"Department of Computer Science, Biomedical Informatics Group, ETH Zurich , Zurich, Switzerland","institution_ids":["https://openalex.org/I35440088"]},{"raw_affiliation_string":"Swiss Institute of Bioinformatics , Zurich, Switzerland","institution_ids":["https://openalex.org/I12708293"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5033347097","display_name":"Harun Mustafa","orcid":"https://orcid.org/0000-0002-2125-6086"},"institutions":[{"id":"https://openalex.org/I12708293","display_name":"SIB Swiss Institute of Bioinformatics","ror":"https://ror.org/002n09z45","country_code":"CH","type":"funder","lineage":["https://openalex.org/I12708293"]},{"id":"https://openalex.org/I35440088","display_name":"ETH Zurich","ror":"https://ror.org/05a28rw58","country_code":"CH","type":"education","lineage":["https://openalex.org/I2799323385","https://openalex.org/I35440088"]},{"id":"https://openalex.org/I4210100468","display_name":"University Hospital of Zurich","ror":"https://ror.org/01462r250","country_code":"CH","type":"funder","lineage":["https://openalex.org/I4210100468"]}],"countries":["CH"],"is_corresponding":false,"raw_author_name":"Harun Mustafa","raw_affiliation_strings":["Biomedical Informatics Research, University Hospital Zurich , Zurich, Switzerland","Department of Computer Science, Biomedical Informatics Group, ETH Zurich , Zurich, Switzerland","Swiss Institute of Bioinformatics , Zurich, Switzerland"],"affiliations":[{"raw_affiliation_string":"Biomedical Informatics Research, University Hospital Zurich , Zurich, Switzerland","institution_ids":["https://openalex.org/I4210100468"]},{"raw_affiliation_string":"Department of Computer Science, Biomedical Informatics Group, ETH Zurich , Zurich, Switzerland","institution_ids":["https://openalex.org/I35440088"]},{"raw_affiliation_string":"Swiss Institute of Bioinformatics , Zurich, Switzerland","institution_ids":["https://openalex.org/I12708293"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5070168682","display_name":"Andr\u00e9 Kahles","orcid":"https://orcid.org/0000-0002-3411-0692"},"institutions":[{"id":"https://openalex.org/I4210100468","display_name":"University Hospital of Zurich","ror":"https://ror.org/01462r250","country_code":"CH","type":"funder","lineage":["https://openalex.org/I4210100468"]},{"id":"https://openalex.org/I12708293","display_name":"SIB Swiss Institute of Bioinformatics","ror":"https://ror.org/002n09z45","country_code":"CH","type":"funder","lineage":["https://openalex.org/I12708293"]},{"id":"https://openalex.org/I35440088","display_name":"ETH Zurich","ror":"https://ror.org/05a28rw58","country_code":"CH","type":"education","lineage":["https://openalex.org/I2799323385","https://openalex.org/I35440088"]}],"countries":["CH"],"is_corresponding":true,"raw_author_name":"Andr\u00e9 Kahles","raw_affiliation_strings":["Biomedical Informatics Research, University Hospital Zurich , Zurich, Switzerland","Department of Computer Science, Biomedical Informatics Group, ETH Zurich , Zurich, Switzerland","Swiss Institute of Bioinformatics , Zurich, Switzerland"],"affiliations":[{"raw_affiliation_string":"Biomedical Informatics Research, University Hospital Zurich , Zurich, Switzerland","institution_ids":["https://openalex.org/I4210100468"]},{"raw_affiliation_string":"Department of Computer Science, Biomedical Informatics Group, ETH Zurich , Zurich, Switzerland","institution_ids":["https://openalex.org/I35440088"]},{"raw_affiliation_string":"Swiss Institute of Bioinformatics , Zurich, Switzerland","institution_ids":["https://openalex.org/I12708293"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5035416263","display_name":"Gunnar R\u00e4tsch","orcid":"https://orcid.org/0000-0001-5486-8532"},"institutions":[{"id":"https://openalex.org/I12708293","display_name":"SIB Swiss Institute of Bioinformatics","ror":"https://ror.org/002n09z45","country_code":"CH","type":"funder","lineage":["https://openalex.org/I12708293"]},{"id":"https://openalex.org/I35440088","display_name":"ETH Zurich","ror":"https://ror.org/05a28rw58","country_code":"CH","type":"education","lineage":["https://openalex.org/I2799323385","https://openalex.org/I35440088"]},{"id":"https://openalex.org/I4210100468","display_name":"University Hospital of Zurich","ror":"https://ror.org/01462r250","country_code":"CH","type":"funder","lineage":["https://openalex.org/I4210100468"]}],"countries":["CH"],"is_corresponding":true,"raw_author_name":"Gunnar R\u00e4tsch","raw_affiliation_strings":["Biomedical Informatics Research, University Hospital Zurich , Zurich, Switzerland","Department of Biology, ETH Zurich , Zurich, Switzerland","Department of Computer Science, Biomedical Informatics Group, ETH Zurich , Zurich, Switzerland","Swiss Institute of Bioinformatics , Zurich, Switzerland"],"affiliations":[{"raw_affiliation_string":"Biomedical Informatics Research, University Hospital Zurich , Zurich, Switzerland","institution_ids":["https://openalex.org/I4210100468"]},{"raw_affiliation_string":"Department of Biology, ETH Zurich , Zurich, Switzerland","institution_ids":["https://openalex.org/I35440088"]},{"raw_affiliation_string":"Department of Computer Science, Biomedical Informatics Group, ETH Zurich , Zurich, Switzerland","institution_ids":["https://openalex.org/I35440088"]},{"raw_affiliation_string":"Swiss Institute of Bioinformatics , Zurich, Switzerland","institution_ids":["https://openalex.org/I12708293"]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":5,"corresponding_author_ids":["https://openalex.org/A5035416263","https://openalex.org/A5070168682"],"corresponding_institution_ids":["https://openalex.org/I12708293","https://openalex.org/I35440088","https://openalex.org/I4210100468"],"apc_list":{"value":3618,"currency":"USD","value_usd":3618},"apc_paid":{"value":637,"currency":"EUR","value_usd":687},"fwci":0.4869,"has_fulltext":false,"cited_by_count":9,"citation_normalized_percentile":{"value":0.61853361,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":{"min":89,"max":99},"biblio":{"volume":"37","issue":"Supplement_1","first_page":"i169","last_page":"i176"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T10015","display_name":"Genomics and Phylogenetic Studies","score":0.9973000288009644,"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"}},"topics":[{"id":"https://openalex.org/T10015","display_name":"Genomics and Phylogenetic Studies","score":0.9973000288009644,"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/T10885","display_name":"Gene expression and cancer classification","score":0.9957000017166138,"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/T11289","display_name":"Single-cell and spatial transcriptomics","score":0.9914000034332275,"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/de-bruijn-graph","display_name":"De Bruijn graph","score":0.7277529239654541},{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.6893789172172546},{"id":"https://openalex.org/keywords/annotation","display_name":"Annotation","score":0.6758074164390564},{"id":"https://openalex.org/keywords/graph","display_name":"Graph","score":0.48657429218292236},{"id":"https://openalex.org/keywords/theoretical-computer-science","display_name":"Theoretical computer science","score":0.46886521577835083},{"id":"https://openalex.org/keywords/de-bruijn-sequence","display_name":"De Bruijn sequence","score":0.4464680850505829},{"id":"https://openalex.org/keywords/data-mining","display_name":"Data mining","score":0.34581130743026733},{"id":"https://openalex.org/keywords/artificial-intelligence","display_name":"Artificial intelligence","score":0.2197376787662506},{"id":"https://openalex.org/keywords/combinatorics","display_name":"Combinatorics","score":0.2095971405506134},{"id":"https://openalex.org/keywords/mathematics","display_name":"Mathematics","score":0.18947231769561768}],"concepts":[{"id":"https://openalex.org/C20218877","wikidata":"https://www.wikidata.org/wiki/Q3066095","display_name":"De Bruijn graph","level":3,"score":0.7277529239654541},{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.6893789172172546},{"id":"https://openalex.org/C2776321320","wikidata":"https://www.wikidata.org/wiki/Q857525","display_name":"Annotation","level":2,"score":0.6758074164390564},{"id":"https://openalex.org/C132525143","wikidata":"https://www.wikidata.org/wiki/Q141488","display_name":"Graph","level":2,"score":0.48657429218292236},{"id":"https://openalex.org/C80444323","wikidata":"https://www.wikidata.org/wiki/Q2878974","display_name":"Theoretical computer science","level":1,"score":0.46886521577835083},{"id":"https://openalex.org/C170320093","wikidata":"https://www.wikidata.org/wiki/Q1953457","display_name":"De Bruijn sequence","level":2,"score":0.4464680850505829},{"id":"https://openalex.org/C124101348","wikidata":"https://www.wikidata.org/wiki/Q172491","display_name":"Data mining","level":1,"score":0.34581130743026733},{"id":"https://openalex.org/C154945302","wikidata":"https://www.wikidata.org/wiki/Q11660","display_name":"Artificial intelligence","level":1,"score":0.2197376787662506},{"id":"https://openalex.org/C114614502","wikidata":"https://www.wikidata.org/wiki/Q76592","display_name":"Combinatorics","level":1,"score":0.2095971405506134},{"id":"https://openalex.org/C33923547","wikidata":"https://www.wikidata.org/wiki/Q395","display_name":"Mathematics","level":0,"score":0.18947231769561768}],"mesh":[{"descriptor_ui":"D000465","descriptor_name":"Algorithms","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D000465","descriptor_name":"Algorithms","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D000465","descriptor_name":"Algorithms","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":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":"D035843","descriptor_name":"Biomedical Research","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D035843","descriptor_name":"Biomedical Research","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D035843","descriptor_name":"Biomedical Research","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true}],"locations_count":3,"locations":[{"id":"doi:10.1093/bioinformatics/btab330","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bioinformatics/btab330","pdf_url":"https://academic.oup.com/bioinformatics/article-pdf/37/Supplement_1/i169/39620109/btab330.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:34252940","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/34252940","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:pubmedcentral.nih.gov:8346655","is_oa":true,"landing_page_url":"https://www.ncbi.nlm.nih.gov/pmc/articles/8346655","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":"Bioinformatics","raw_type":"Text"}],"best_oa_location":{"id":"doi:10.1093/bioinformatics/btab330","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bioinformatics/btab330","pdf_url":"https://academic.oup.com/bioinformatics/article-pdf/37/Supplement_1/i169/39620109/btab330.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/G6696531210","display_name":null,"funder_award_id":"407540_167331","funder_id":"https://openalex.org/F4320320924","funder_display_name":"Schweizerischer Nationalfonds zur F\u00f6rderung der Wissenschaftlichen Forschung"}],"funders":[{"id":"https://openalex.org/F4320320924","display_name":"Schweizerischer Nationalfonds zur F\u00f6rderung der Wissenschaftlichen Forschung","ror":"https://ror.org/00yjd3n13"}],"has_content":{"pdf":true,"grobid_xml":true},"content_urls":{"pdf":"https://content.openalex.org/works/W3178792299.pdf","grobid_xml":"https://content.openalex.org/works/W3178792299.grobid-xml"},"referenced_works_count":25,"referenced_works":["https://openalex.org/W1931027898","https://openalex.org/W1974033543","https://openalex.org/W2010361633","https://openalex.org/W2057223122","https://openalex.org/W2104846587","https://openalex.org/W2105656684","https://openalex.org/W2131106408","https://openalex.org/W2173732482","https://openalex.org/W2611104626","https://openalex.org/W2735611463","https://openalex.org/W2809649683","https://openalex.org/W2901125500","https://openalex.org/W2913847081","https://openalex.org/W2949503312","https://openalex.org/W2950150251","https://openalex.org/W2950964375","https://openalex.org/W2951157731","https://openalex.org/W2952379095","https://openalex.org/W2957382730","https://openalex.org/W2969627863","https://openalex.org/W2998284004","https://openalex.org/W3011785159","https://openalex.org/W3090493712","https://openalex.org/W3113074526","https://openalex.org/W6891286447"],"related_works":["https://openalex.org/W2562683361","https://openalex.org/W3087469195","https://openalex.org/W3125399386","https://openalex.org/W2354744388","https://openalex.org/W2949121831","https://openalex.org/W3215786367","https://openalex.org/W2122316710","https://openalex.org/W4301429973","https://openalex.org/W2951695076","https://openalex.org/W1964377951"],"abstract_inverted_index":{"RowDiff":[0],"is":[1],"implemented":[2],"in":[3,16],"C++":[4],"within":[5],"the":[6,13,17],"MetaGraph":[7],"framework.":[8],"The":[9],"source":[10],"code":[11],"and":[12],"data":[14],"used":[15],"experiments":[18],"are":[19],"publicly":[20],"available":[21],"at":[22],"https://github.com/ratschlab/row_diff.":[23]},"counts_by_year":[{"year":2026,"cited_by_count":1},{"year":2025,"cited_by_count":1},{"year":2024,"cited_by_count":1},{"year":2023,"cited_by_count":2},{"year":2022,"cited_by_count":2},{"year":2021,"cited_by_count":1},{"year":2020,"cited_by_count":1}],"updated_date":"2026-03-20T23:20:44.827607","created_date":"2025-10-10T00:00:00"}
