{"id":"https://openalex.org/W2899028298","doi":"https://doi.org/10.1093/bioinformatics/bty907","title":"SJARACNe: a scalable software tool for gene network reverse engineering from big data","display_name":"SJARACNe: a scalable software tool for gene network reverse engineering from big data","publication_year":2018,"publication_date":"2018-10-31","ids":{"openalex":"https://openalex.org/W2899028298","doi":"https://doi.org/10.1093/bioinformatics/bty907","mag":"2899028298","pmid":"https://pubmed.ncbi.nlm.nih.gov/30388204"},"language":"en","primary_location":{"id":"doi:10.1093/bioinformatics/bty907","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bioinformatics/bty907","pdf_url":"https://academic.oup.com/bioinformatics/article-pdf/35/12/2165/48934831/bioinformatics_35_12_2165.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/35/12/2165/48934831/bioinformatics_35_12_2165.pdf","any_repository_has_fulltext":false},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5006431963","display_name":"Alireza Khatamian","orcid":null},"institutions":[{"id":"https://openalex.org/I1313298211","display_name":"St. Jude Children's Research Hospital","ror":"https://ror.org/02r3e0967","country_code":"US","type":"healthcare","lineage":["https://openalex.org/I1313298211","https://openalex.org/I2802152183"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Alireza Khatamian","raw_affiliation_strings":["Department of Computational Biology, St. Jude Children\u2019s Research Hospital, Memphis, TN, USA","Department of Computational Biology, St. Jude Children's Research Hospital, Memphis, TN, USA"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Department of Computational Biology, St. Jude Children\u2019s Research Hospital, Memphis, TN, USA","institution_ids":["https://openalex.org/I1313298211"]},{"raw_affiliation_string":"Department of Computational Biology, St. Jude Children's Research Hospital, Memphis, TN, USA","institution_ids":["https://openalex.org/I1313298211"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5031955197","display_name":"Evan Paull","orcid":"https://orcid.org/0000-0001-6762-8220"},"institutions":[{"id":"https://openalex.org/I78577930","display_name":"Columbia University","ror":"https://ror.org/00hj8s172","country_code":"US","type":"education","lineage":["https://openalex.org/I78577930"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Evan O Paull","raw_affiliation_strings":["Department of Systems Biology, Columbia University, New York, NY, USA"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Department of Systems Biology, Columbia University, New York, NY, USA","institution_ids":["https://openalex.org/I78577930"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5046245448","display_name":"Andrea Califano","orcid":"https://orcid.org/0000-0003-4742-3679"},"institutions":[{"id":"https://openalex.org/I78577930","display_name":"Columbia University","ror":"https://ror.org/00hj8s172","country_code":"US","type":"education","lineage":["https://openalex.org/I78577930"]}],"countries":["US"],"is_corresponding":true,"raw_author_name":"Andrea Califano","raw_affiliation_strings":["Department of Systems Biology, Columbia University, New York, NY, USA"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Department of Systems Biology, Columbia University, New York, NY, USA","institution_ids":["https://openalex.org/I78577930"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5101943051","display_name":"Jiyang Yu","orcid":"https://orcid.org/0000-0003-1244-4429"},"institutions":[{"id":"https://openalex.org/I1313298211","display_name":"St. Jude Children's Research Hospital","ror":"https://ror.org/02r3e0967","country_code":"US","type":"healthcare","lineage":["https://openalex.org/I1313298211","https://openalex.org/I2802152183"]}],"countries":["US"],"is_corresponding":true,"raw_author_name":"Jiyang Yu","raw_affiliation_strings":["Department of Computational Biology, St. Jude Children\u2019s Research Hospital, Memphis, TN, USA","Department of Computational Biology, St. Jude Children's Research Hospital, Memphis, TN, USA"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Department of Computational Biology, St. Jude Children\u2019s Research Hospital, Memphis, TN, USA","institution_ids":["https://openalex.org/I1313298211"]},{"raw_affiliation_string":"Department of Computational Biology, St. Jude Children's Research Hospital, Memphis, TN, USA","institution_ids":["https://openalex.org/I1313298211"]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":4,"corresponding_author_ids":["https://openalex.org/A5046245448","https://openalex.org/A5101943051"],"corresponding_institution_ids":["https://openalex.org/I1313298211","https://openalex.org/I78577930"],"apc_list":{"value":3618,"currency":"USD","value_usd":3618},"apc_paid":{"value":3618,"currency":"USD","value_usd":3618},"fwci":1.763,"has_fulltext":true,"cited_by_count":66,"citation_normalized_percentile":{"value":0.85500239,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":{"min":96,"max":100},"biblio":{"volume":"35","issue":"12","first_page":"2165","last_page":"2166"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T10621","display_name":"Gene Regulatory Network Analysis","score":0.6414999961853027,"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/T10621","display_name":"Gene Regulatory Network Analysis","score":0.6414999961853027,"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":0.2549000084400177,"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/T10887","display_name":"Bioinformatics and Genomic Networks","score":0.04450000077486038,"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/computer-science","display_name":"Computer science","score":0.8272285461425781},{"id":"https://openalex.org/keywords/scalability","display_name":"Scalability","score":0.7670502662658691},{"id":"https://openalex.org/keywords/python","display_name":"Python (programming language)","score":0.6883593797683716},{"id":"https://openalex.org/keywords/big-data","display_name":"Big data","score":0.6575968265533447},{"id":"https://openalex.org/keywords/scripting-language","display_name":"Scripting language","score":0.6224967241287231},{"id":"https://openalex.org/keywords/reverse-engineering","display_name":"Reverse engineering","score":0.6112734079360962},{"id":"https://openalex.org/keywords/inference","display_name":"Inference","score":0.5909255743026733},{"id":"https://openalex.org/keywords/software","display_name":"Software","score":0.5346853733062744},{"id":"https://openalex.org/keywords/construct","display_name":"Construct (python library)","score":0.4341508448123932},{"id":"https://openalex.org/keywords/implementation","display_name":"Implementation","score":0.417776882648468},{"id":"https://openalex.org/keywords/gene-regulatory-network","display_name":"Gene regulatory network","score":0.4148113429546356},{"id":"https://openalex.org/keywords/distributed-computing","display_name":"Distributed computing","score":0.40950626134872437},{"id":"https://openalex.org/keywords/data-mining","display_name":"Data mining","score":0.3667609393596649},{"id":"https://openalex.org/keywords/theoretical-computer-science","display_name":"Theoretical computer science","score":0.3264788091182709},{"id":"https://openalex.org/keywords/software-engineering","display_name":"Software engineering","score":0.2531948685646057},{"id":"https://openalex.org/keywords/database","display_name":"Database","score":0.1939227283000946},{"id":"https://openalex.org/keywords/artificial-intelligence","display_name":"Artificial intelligence","score":0.17301714420318604},{"id":"https://openalex.org/keywords/programming-language","display_name":"Programming language","score":0.14683139324188232},{"id":"https://openalex.org/keywords/biology","display_name":"Biology","score":0.09432578086853027}],"concepts":[{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.8272285461425781},{"id":"https://openalex.org/C48044578","wikidata":"https://www.wikidata.org/wiki/Q727490","display_name":"Scalability","level":2,"score":0.7670502662658691},{"id":"https://openalex.org/C519991488","wikidata":"https://www.wikidata.org/wiki/Q28865","display_name":"Python (programming language)","level":2,"score":0.6883593797683716},{"id":"https://openalex.org/C75684735","wikidata":"https://www.wikidata.org/wiki/Q858810","display_name":"Big data","level":2,"score":0.6575968265533447},{"id":"https://openalex.org/C61423126","wikidata":"https://www.wikidata.org/wiki/Q187432","display_name":"Scripting language","level":2,"score":0.6224967241287231},{"id":"https://openalex.org/C207850805","wikidata":"https://www.wikidata.org/wiki/Q269608","display_name":"Reverse engineering","level":2,"score":0.6112734079360962},{"id":"https://openalex.org/C2776214188","wikidata":"https://www.wikidata.org/wiki/Q408386","display_name":"Inference","level":2,"score":0.5909255743026733},{"id":"https://openalex.org/C2777904410","wikidata":"https://www.wikidata.org/wiki/Q7397","display_name":"Software","level":2,"score":0.5346853733062744},{"id":"https://openalex.org/C2780801425","wikidata":"https://www.wikidata.org/wiki/Q5164392","display_name":"Construct (python library)","level":2,"score":0.4341508448123932},{"id":"https://openalex.org/C26713055","wikidata":"https://www.wikidata.org/wiki/Q245962","display_name":"Implementation","level":2,"score":0.417776882648468},{"id":"https://openalex.org/C67339327","wikidata":"https://www.wikidata.org/wiki/Q1502576","display_name":"Gene regulatory network","level":4,"score":0.4148113429546356},{"id":"https://openalex.org/C120314980","wikidata":"https://www.wikidata.org/wiki/Q180634","display_name":"Distributed computing","level":1,"score":0.40950626134872437},{"id":"https://openalex.org/C124101348","wikidata":"https://www.wikidata.org/wiki/Q172491","display_name":"Data mining","level":1,"score":0.3667609393596649},{"id":"https://openalex.org/C80444323","wikidata":"https://www.wikidata.org/wiki/Q2878974","display_name":"Theoretical computer science","level":1,"score":0.3264788091182709},{"id":"https://openalex.org/C115903868","wikidata":"https://www.wikidata.org/wiki/Q80993","display_name":"Software engineering","level":1,"score":0.2531948685646057},{"id":"https://openalex.org/C77088390","wikidata":"https://www.wikidata.org/wiki/Q8513","display_name":"Database","level":1,"score":0.1939227283000946},{"id":"https://openalex.org/C154945302","wikidata":"https://www.wikidata.org/wiki/Q11660","display_name":"Artificial intelligence","level":1,"score":0.17301714420318604},{"id":"https://openalex.org/C199360897","wikidata":"https://www.wikidata.org/wiki/Q9143","display_name":"Programming language","level":1,"score":0.14683139324188232},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.09432578086853027},{"id":"https://openalex.org/C104317684","wikidata":"https://www.wikidata.org/wiki/Q7187","display_name":"Gene","level":2,"score":0.0},{"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/C55493867","wikidata":"https://www.wikidata.org/wiki/Q7094","display_name":"Biochemistry","level":1,"score":0.0}],"mesh":[{"descriptor_ui":"D000077558","descriptor_name":"Big Data","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D000077558","descriptor_name":"Big Data","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D000077558","descriptor_name":"Big Data","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":"D000465","descriptor_name":"Algorithms","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":"D012984","descriptor_name":"Software","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":true},{"descriptor_ui":"D019295","descriptor_name":"Computational Biology","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":true},{"descriptor_ui":"D049490","descriptor_name":"Systems Biology","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D049490","descriptor_name":"Systems Biology","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D049490","descriptor_name":"Systems Biology","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D053263","descriptor_name":"Gene Regulatory Networks","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D053263","descriptor_name":"Gene Regulatory Networks","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D053263","descriptor_name":"Gene Regulatory Networks","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true}],"locations_count":3,"locations":[{"id":"doi:10.1093/bioinformatics/bty907","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bioinformatics/bty907","pdf_url":"https://academic.oup.com/bioinformatics/article-pdf/35/12/2165/48934831/bioinformatics_35_12_2165.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:30388204","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/30388204","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:europepmc.org:5555678","is_oa":false,"landing_page_url":"https://www.ncbi.nlm.nih.gov/pmc/articles/6581437","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":null,"license_id":null,"version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":null,"raw_type":"Text"}],"best_oa_location":{"id":"doi:10.1093/bioinformatics/bty907","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bioinformatics/bty907","pdf_url":"https://academic.oup.com/bioinformatics/article-pdf/35/12/2165/48934831/bioinformatics_35_12_2165.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/9","display_name":"Industry, innovation and infrastructure","score":0.5099999904632568}],"awards":[{"id":"https://openalex.org/G3627865284","display_name":null,"funder_award_id":"R35CA197745","funder_id":"https://openalex.org/F4320332161","funder_display_name":"National Institutes of Health"},{"id":"https://openalex.org/G4190684412","display_name":null,"funder_award_id":"U54CA209997","funder_id":"https://openalex.org/F4320332161","funder_display_name":"National Institutes of Health"},{"id":"https://openalex.org/G4496932426","display_name":null,"funder_award_id":"S10OD012351","funder_id":"https://openalex.org/F4320332161","funder_display_name":"National Institutes of Health"},{"id":"https://openalex.org/G4602535376","display_name":null,"funder_award_id":"R35 CA197745","funder_id":"https://openalex.org/F4320337351","funder_display_name":"National Cancer Institute"},{"id":"https://openalex.org/G4889371882","display_name":null,"funder_award_id":"P30 CA021765","funder_id":"https://openalex.org/F4320337351","funder_display_name":"National Cancer Institute"},{"id":"https://openalex.org/G5178095925","display_name":null,"funder_award_id":"S10 OD021764","funder_id":"https://openalex.org/F4320332161","funder_display_name":"National Institutes of Health"},{"id":"https://openalex.org/G5582191710","display_name":null,"funder_award_id":"S10 OD012351","funder_id":"https://openalex.org/F4320332161","funder_display_name":"National Institutes of Health"},{"id":"https://openalex.org/G6700333535","display_name":null,"funder_award_id":"U01 CA217858","funder_id":"https://openalex.org/F4320337351","funder_display_name":"National Cancer Institute"},{"id":"https://openalex.org/G7205880241","display_name":null,"funder_award_id":"S10OD021764","funder_id":"https://openalex.org/F4320332161","funder_display_name":"National Institutes of Health"},{"id":"https://openalex.org/G7565044259","display_name":null,"funder_award_id":"U54 CA209997","funder_id":"https://openalex.org/F4320337351","funder_display_name":"National Cancer Institute"}],"funders":[{"id":"https://openalex.org/F4320332161","display_name":"National Institutes of Health","ror":"https://ror.org/01cwqze88"},{"id":"https://openalex.org/F4320337351","display_name":"National Cancer Institute","ror":"https://ror.org/040gcmg81"}],"has_content":{"grobid_xml":true,"pdf":true},"content_urls":{"pdf":"https://content.openalex.org/works/W2899028298.pdf","grobid_xml":"https://content.openalex.org/works/W2899028298.grobid-xml"},"referenced_works_count":8,"referenced_works":["https://openalex.org/W1535350845","https://openalex.org/W2005895632","https://openalex.org/W2071268727","https://openalex.org/W2158357903","https://openalex.org/W2163296115","https://openalex.org/W2342019990","https://openalex.org/W2806469347","https://openalex.org/W3099289621"],"related_works":["https://openalex.org/W3023169329","https://openalex.org/W4389470870","https://openalex.org/W2782165897","https://openalex.org/W4300438041","https://openalex.org/W2054104202","https://openalex.org/W2139703748","https://openalex.org/W2761254753","https://openalex.org/W1024825291","https://openalex.org/W2188981919","https://openalex.org/W3084909426"],"abstract_inverted_index":{"SUMMARY:":[0],"Over":[1],"the":[2,13,36,45,55,87,125,130,149],"last":[3],"two":[4],"decades,":[5],"we":[6,81],"have":[7],"observed":[8],"an":[9,83],"exponential":[10],"increase":[11],"in":[12,39,110,113,180],"number":[14],"of":[15,24,35,47,54,78,86,129,170],"generated":[16],"array":[17],"or":[18],"sequencing-based":[19],"transcriptomic":[20,136],"profiles.":[21,173],"Reverse":[22],"engineering":[23],"biological":[25],"networks":[26,167],"from":[27,168],"high-throughput":[28],"gene":[29,171],"expression":[30,172],"profiles":[31],"has":[32],"been":[33],"one":[34,53],"grand":[37],"challenges":[38],"systems":[40],"biology.":[41],"The":[42,101],"Algorithm":[43],"for":[44,146],"Reconstruction":[46],"Accurate":[48],"Cellular":[49],"Networks":[50],"(ARACNe)":[51],"represents":[52],"most":[56],"effective":[57],"and":[58,116,119,141,165,184],"widely-used":[59],"tools":[60],"to":[61,90,160],"address":[62],"this":[63,92],"challenge.":[64],"However,":[65],"existing":[66],"ARACNe":[67,142],"implementations":[68],"do":[69],"not":[70],"efficiently":[71,161],"process":[72],"big":[73,93],"input":[74],"data":[75,94,137,199],"with":[76,156],"thousands":[77,169],"samples.":[79],"Here":[80],"present":[82],"improved":[84],"implementation":[85],"algorithm,":[88],"SJARACNe,":[89],"solve":[91],"problem,":[95],"based":[96],"on":[97],"sophisticated":[98],"software":[99],"engineering.":[100],"new":[102,121],"scalable":[103,150],"SJARACNe":[104,151,177],"package":[105],"achieves":[106],"a":[107],"dramatic":[108],"improvement":[109],"computational":[111,158],"performance":[112],"both":[114],"time":[115],"memory":[117],"usage":[118],"implements":[120],"features":[122],"while":[123],"preserving":[124],"network":[126,147],"inference":[127],"accuracy":[128],"original":[131],"algorithm.":[132],"Given":[133],"that":[134],"large-sampled":[135],"is":[138,143,178,191],"increasingly":[139],"available":[140,193,201],"extremely":[144],"demanding":[145],"reconstruction,":[148],"will":[152],"allow":[153],"even":[154],"researchers":[155],"modest":[157],"resources":[159],"construct":[162],"complex":[163],"regulatory":[164],"signaling":[166],"AVAILABILITY":[174],"AND":[175],"IMPLEMENTATION:":[176],"implemented":[179],"C++":[181],"(computational":[182],"core)":[183],"Python":[185],"(pipelining":[186],"scripting":[187],"wrapper,":[188],"\u22653.6.1).":[189],"It":[190],"freely":[192],"at":[194,202],"https://github.com/jyyulab/SJARACNe.":[195],"SUPPLEMENTARY":[196],"INFORMATION:":[197],"Supplementary":[198],"are":[200],"Bioinformatics":[203],"online.":[204]},"counts_by_year":[{"year":2026,"cited_by_count":2},{"year":2025,"cited_by_count":13},{"year":2024,"cited_by_count":8},{"year":2023,"cited_by_count":8},{"year":2022,"cited_by_count":16},{"year":2021,"cited_by_count":9},{"year":2020,"cited_by_count":7},{"year":2019,"cited_by_count":3}],"updated_date":"2026-06-24T13:16:06.693445","created_date":"2025-10-10T00:00:00"}