{"id":"https://openalex.org/W3043104427","doi":"https://doi.org/10.1093/bioinformatics/btaa505","title":"CRISPRL\u2009<scp>and</scp>: Interpretable large-scale inference of DNA repair landscape based on a spectral approach","display_name":"CRISPRL\u2009<scp>and</scp>: Interpretable large-scale inference of DNA repair landscape based on a spectral approach","publication_year":2020,"publication_date":"2020-05-07","ids":{"openalex":"https://openalex.org/W3043104427","doi":"https://doi.org/10.1093/bioinformatics/btaa505","mag":"3043104427","pmid":"https://pubmed.ncbi.nlm.nih.gov/32657417"},"language":"en","primary_location":{"id":"doi:10.1093/bioinformatics/btaa505","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bioinformatics/btaa505","pdf_url":"https://academic.oup.com/bioinformatics/article-pdf/36/Supplement_1/i560/33489219/btaa505.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-nc","license_id":"https://openalex.org/licenses/cc-by-nc","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/36/Supplement_1/i560/33489219/btaa505.pdf","any_repository_has_fulltext":true},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5062650028","display_name":"Amirali Aghazadeh","orcid":"https://orcid.org/0000-0003-0223-0873"},"institutions":[{"id":"https://openalex.org/I95457486","display_name":"University of California, Berkeley","ror":"https://ror.org/01an7q238","country_code":"US","type":"education","lineage":["https://openalex.org/I95457486"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Amirali Aghazadeh","raw_affiliation_strings":["Department of Electrical Engineering and Computer Science, University of California , Berkeley, Berkeley 94720, CA, USA"],"affiliations":[{"raw_affiliation_string":"Department of Electrical Engineering and Computer Science, University of California , Berkeley, Berkeley 94720, CA, USA","institution_ids":["https://openalex.org/I95457486"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5025069529","display_name":"Orhan \u00d6\u00e7al","orcid":"https://orcid.org/0000-0003-3835-283X"},"institutions":[{"id":"https://openalex.org/I95457486","display_name":"University of California, Berkeley","ror":"https://ror.org/01an7q238","country_code":"US","type":"education","lineage":["https://openalex.org/I95457486"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Orhan Ocal","raw_affiliation_strings":["Department of Electrical Engineering and Computer Science, University of California , Berkeley, Berkeley 94720, CA, USA"],"affiliations":[{"raw_affiliation_string":"Department of Electrical Engineering and Computer Science, University of California , Berkeley, Berkeley 94720, CA, USA","institution_ids":["https://openalex.org/I95457486"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5030620564","display_name":"Kannan Ramchandran","orcid":"https://orcid.org/0000-0002-4567-328X"},"institutions":[{"id":"https://openalex.org/I95457486","display_name":"University of California, Berkeley","ror":"https://ror.org/01an7q238","country_code":"US","type":"education","lineage":["https://openalex.org/I95457486"]}],"countries":["US"],"is_corresponding":true,"raw_author_name":"Kannan Ramchandran","raw_affiliation_strings":["Department of Electrical Engineering and Computer Science, University of California , Berkeley, Berkeley 94720, CA, USA"],"affiliations":[{"raw_affiliation_string":"Department of Electrical Engineering and Computer Science, University of California , Berkeley, Berkeley 94720, CA, USA","institution_ids":["https://openalex.org/I95457486"]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":3,"corresponding_author_ids":["https://openalex.org/A5030620564"],"corresponding_institution_ids":["https://openalex.org/I95457486"],"apc_list":{"value":3618,"currency":"USD","value_usd":3618},"apc_paid":{"value":3618,"currency":"USD","value_usd":3618},"fwci":0.5015,"has_fulltext":true,"cited_by_count":7,"citation_normalized_percentile":{"value":0.62789912,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":{"min":89,"max":98},"biblio":{"volume":"36","issue":"Supplement_1","first_page":"i560","last_page":"i568"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T10207","display_name":"Advanced biosensing and bioanalysis techniques","score":0.9994000196456909,"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/T10207","display_name":"Advanced biosensing and bioanalysis techniques","score":0.9994000196456909,"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/T10222","display_name":"Genomics and Chromatin Dynamics","score":0.9988999962806702,"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/T10604","display_name":"RNA Research and Splicing","score":0.9984999895095825,"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/interpretability","display_name":"Interpretability","score":0.7937343120574951},{"id":"https://openalex.org/keywords/inference","display_name":"Inference","score":0.720587968826294},{"id":"https://openalex.org/keywords/scalability","display_name":"Scalability","score":0.6132532954216003},{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.599471390247345},{"id":"https://openalex.org/keywords/dna-repair","display_name":"DNA repair","score":0.5151814222335815},{"id":"https://openalex.org/keywords/key","display_name":"Key (lock)","score":0.4652460813522339},{"id":"https://openalex.org/keywords/sampling","display_name":"Sampling (signal processing)","score":0.44149312376976013},{"id":"https://openalex.org/keywords/hadamard-transform","display_name":"Hadamard transform","score":0.4372311234474182},{"id":"https://openalex.org/keywords/computational-biology","display_name":"Computational biology","score":0.42421212792396545},{"id":"https://openalex.org/keywords/biology","display_name":"Biology","score":0.3958820402622223},{"id":"https://openalex.org/keywords/dna","display_name":"DNA","score":0.368003249168396},{"id":"https://openalex.org/keywords/artificial-intelligence","display_name":"Artificial intelligence","score":0.333702951669693},{"id":"https://openalex.org/keywords/genetics","display_name":"Genetics","score":0.2183782160282135},{"id":"https://openalex.org/keywords/mathematics","display_name":"Mathematics","score":0.17629975080490112},{"id":"https://openalex.org/keywords/computer-vision","display_name":"Computer vision","score":0.07888033986091614}],"concepts":[{"id":"https://openalex.org/C2781067378","wikidata":"https://www.wikidata.org/wiki/Q17027399","display_name":"Interpretability","level":2,"score":0.7937343120574951},{"id":"https://openalex.org/C2776214188","wikidata":"https://www.wikidata.org/wiki/Q408386","display_name":"Inference","level":2,"score":0.720587968826294},{"id":"https://openalex.org/C48044578","wikidata":"https://www.wikidata.org/wiki/Q727490","display_name":"Scalability","level":2,"score":0.6132532954216003},{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.599471390247345},{"id":"https://openalex.org/C134935766","wikidata":"https://www.wikidata.org/wiki/Q210538","display_name":"DNA repair","level":3,"score":0.5151814222335815},{"id":"https://openalex.org/C26517878","wikidata":"https://www.wikidata.org/wiki/Q228039","display_name":"Key (lock)","level":2,"score":0.4652460813522339},{"id":"https://openalex.org/C140779682","wikidata":"https://www.wikidata.org/wiki/Q210868","display_name":"Sampling (signal processing)","level":3,"score":0.44149312376976013},{"id":"https://openalex.org/C60292330","wikidata":"https://www.wikidata.org/wiki/Q1014065","display_name":"Hadamard transform","level":2,"score":0.4372311234474182},{"id":"https://openalex.org/C70721500","wikidata":"https://www.wikidata.org/wiki/Q177005","display_name":"Computational biology","level":1,"score":0.42421212792396545},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.3958820402622223},{"id":"https://openalex.org/C552990157","wikidata":"https://www.wikidata.org/wiki/Q7430","display_name":"DNA","level":2,"score":0.368003249168396},{"id":"https://openalex.org/C154945302","wikidata":"https://www.wikidata.org/wiki/Q11660","display_name":"Artificial intelligence","level":1,"score":0.333702951669693},{"id":"https://openalex.org/C54355233","wikidata":"https://www.wikidata.org/wiki/Q7162","display_name":"Genetics","level":1,"score":0.2183782160282135},{"id":"https://openalex.org/C33923547","wikidata":"https://www.wikidata.org/wiki/Q395","display_name":"Mathematics","level":0,"score":0.17629975080490112},{"id":"https://openalex.org/C31972630","wikidata":"https://www.wikidata.org/wiki/Q844240","display_name":"Computer vision","level":1,"score":0.07888033986091614},{"id":"https://openalex.org/C38652104","wikidata":"https://www.wikidata.org/wiki/Q3510521","display_name":"Computer security","level":1,"score":0.0},{"id":"https://openalex.org/C134306372","wikidata":"https://www.wikidata.org/wiki/Q7754","display_name":"Mathematical analysis","level":1,"score":0.0},{"id":"https://openalex.org/C77088390","wikidata":"https://www.wikidata.org/wiki/Q8513","display_name":"Database","level":1,"score":0.0},{"id":"https://openalex.org/C106131492","wikidata":"https://www.wikidata.org/wiki/Q3072260","display_name":"Filter (signal processing)","level":2,"score":0.0}],"mesh":[{"descriptor_ui":"D000465","descriptor_name":"Algorithms","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D000465","descriptor_name":"Algorithms","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D000465","descriptor_name":"Algorithms","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D004260","descriptor_name":"DNA Repair","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D004260","descriptor_name":"DNA Repair","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D004260","descriptor_name":"DNA Repair","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":"D012984","descriptor_name":"Software","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true}],"locations_count":3,"locations":[{"id":"doi:10.1093/bioinformatics/btaa505","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bioinformatics/btaa505","pdf_url":"https://academic.oup.com/bioinformatics/article-pdf/36/Supplement_1/i560/33489219/btaa505.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-nc","license_id":"https://openalex.org/licenses/cc-by-nc","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Bioinformatics","raw_type":"journal-article"},{"id":"pmid:32657417","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/32657417","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:7355252","is_oa":true,"landing_page_url":"https://www.ncbi.nlm.nih.gov/pmc/articles/7355252","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":null,"license_id":null,"version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"Bioinformatics","raw_type":"Text"}],"best_oa_location":{"id":"doi:10.1093/bioinformatics/btaa505","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bioinformatics/btaa505","pdf_url":"https://academic.oup.com/bioinformatics/article-pdf/36/Supplement_1/i560/33489219/btaa505.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-nc","license_id":"https://openalex.org/licenses/cc-by-nc","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Bioinformatics","raw_type":"journal-article"},"sustainable_development_goals":[{"id":"https://metadata.un.org/sdg/15","display_name":"Life in Land","score":0.41999998688697815}],"awards":[{"id":"https://openalex.org/G345767088","display_name":null,"funder_award_id":"CCF-Medium-1702678","funder_id":"https://openalex.org/F4320306076","funder_display_name":"National Science Foundation"},{"id":"https://openalex.org/G848032724","display_name":null,"funder_award_id":"Science","funder_id":"https://openalex.org/F4320306076","funder_display_name":"National Science Foundation"}],"funders":[{"id":"https://openalex.org/F4320306076","display_name":"National Science Foundation","ror":"https://ror.org/021nxhr62"}],"has_content":{"pdf":true,"grobid_xml":true},"content_urls":{"pdf":"https://content.openalex.org/works/W3043104427.pdf","grobid_xml":"https://content.openalex.org/works/W3043104427.grobid-xml"},"referenced_works_count":20,"referenced_works":["https://openalex.org/W1019830208","https://openalex.org/W1536930200","https://openalex.org/W1858789266","https://openalex.org/W2074078071","https://openalex.org/W2104266187","https://openalex.org/W2116148865","https://openalex.org/W2135046866","https://openalex.org/W2139229198","https://openalex.org/W2143781601","https://openalex.org/W2154296304","https://openalex.org/W2169732368","https://openalex.org/W2296616510","https://openalex.org/W2484964216","https://openalex.org/W2519539312","https://openalex.org/W2899807648","https://openalex.org/W2902555008","https://openalex.org/W2956569764","https://openalex.org/W2964573658","https://openalex.org/W4250955649","https://openalex.org/W6639124198"],"related_works":["https://openalex.org/W2905433371","https://openalex.org/W2888392564","https://openalex.org/W4310278675","https://openalex.org/W4388422664","https://openalex.org/W4390569940","https://openalex.org/W4361193272","https://openalex.org/W2963326959","https://openalex.org/W4388685194","https://openalex.org/W4312407344","https://openalex.org/W2894289927"],"abstract_inverted_index":{"The":[0],"CRISPRL":[1],"and":[2],"software":[3],"is":[4],"publicly":[5],"available":[6],"at":[7],"https://github.com/UCBASiCS/CRISPRLand.":[8]},"counts_by_year":[{"year":2026,"cited_by_count":1},{"year":2023,"cited_by_count":1},{"year":2022,"cited_by_count":1},{"year":2021,"cited_by_count":3},{"year":2020,"cited_by_count":1}],"updated_date":"2026-04-10T15:06:20.359241","created_date":"2020-07-23T00:00:00"}
