{"id":"https://openalex.org/W2124162992","doi":"https://doi.org/10.1109/gensips.2010.5719675","title":"Model-based sequential base calling for Illumina sequencing","display_name":"Model-based sequential base calling for Illumina sequencing","publication_year":2010,"publication_date":"2010-11-01","ids":{"openalex":"https://openalex.org/W2124162992","doi":"https://doi.org/10.1109/gensips.2010.5719675","mag":"2124162992"},"language":"en","primary_location":{"id":"doi:10.1109/gensips.2010.5719675","is_oa":false,"landing_page_url":"https://doi.org/10.1109/gensips.2010.5719675","pdf_url":null,"source":null,"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"2010 IEEE International Workshop on Genomic Signal Processing and Statistics (GENSIPS)","raw_type":"proceedings-article"},"type":"article","indexed_in":["crossref"],"open_access":{"is_oa":false,"oa_status":"closed","oa_url":null,"any_repository_has_fulltext":false},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5081476268","display_name":"Sujit Das","orcid":"https://orcid.org/0000-0002-7417-5095"},"institutions":[{"id":"https://openalex.org/I86519309","display_name":"The University of Texas at Austin","ror":"https://ror.org/00hj54h04","country_code":"US","type":"education","lineage":["https://openalex.org/I86519309"]}],"countries":["US"],"is_corresponding":true,"raw_author_name":"S Das","raw_affiliation_strings":["Electrical and Computer Engineering Department, University of Texas, Austin, Austin, TX, USA","Electrical and Computer Engineering Department, The University of Texas at Austin, 78712, USA"],"affiliations":[{"raw_affiliation_string":"Electrical and Computer Engineering Department, University of Texas, Austin, Austin, TX, USA","institution_ids":["https://openalex.org/I86519309"]},{"raw_affiliation_string":"Electrical and Computer Engineering Department, The University of Texas at Austin, 78712, USA","institution_ids":["https://openalex.org/I86519309"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5067602750","display_name":"Haris Vikalo","orcid":"https://orcid.org/0000-0002-7945-4114"},"institutions":[{"id":"https://openalex.org/I86519309","display_name":"The University of Texas at Austin","ror":"https://ror.org/00hj54h04","country_code":"US","type":"education","lineage":["https://openalex.org/I86519309"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"H Vikalo","raw_affiliation_strings":["Electrical and Computer Engineering Department, University of Texas, Austin, Austin, TX, USA","Electrical and Computer Engineering Department, The University of Texas at Austin, 78712, USA"],"affiliations":[{"raw_affiliation_string":"Electrical and Computer Engineering Department, University of Texas, Austin, Austin, TX, USA","institution_ids":["https://openalex.org/I86519309"]},{"raw_affiliation_string":"Electrical and Computer Engineering Department, The University of Texas at Austin, 78712, USA","institution_ids":["https://openalex.org/I86519309"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5111702976","display_name":"Arjang Hassibi","orcid":null},"institutions":[{"id":"https://openalex.org/I86519309","display_name":"The University of Texas at Austin","ror":"https://ror.org/00hj54h04","country_code":"US","type":"education","lineage":["https://openalex.org/I86519309"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"A Hassibi","raw_affiliation_strings":["Electrical and Computer Engineering Department, University of Texas, Austin, Austin, TX, USA","Electrical and Computer Engineering Department, The University of Texas at Austin, 78712, USA"],"affiliations":[{"raw_affiliation_string":"Electrical and Computer Engineering Department, University of Texas, Austin, Austin, TX, USA","institution_ids":["https://openalex.org/I86519309"]},{"raw_affiliation_string":"Electrical and Computer Engineering Department, The University of Texas at Austin, 78712, USA","institution_ids":["https://openalex.org/I86519309"]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":3,"corresponding_author_ids":["https://openalex.org/A5081476268"],"corresponding_institution_ids":["https://openalex.org/I86519309"],"apc_list":null,"apc_paid":null,"fwci":0.0,"has_fulltext":false,"cited_by_count":1,"citation_normalized_percentile":{"value":0.1300694,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":{"min":89,"max":93},"biblio":{"volume":"5","issue":null,"first_page":"1","last_page":"4"},"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/T10602","display_name":"Glycosylation and Glycoproteins Research","score":0.9724000096321106,"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/T10932","display_name":"Microbial Metabolic Engineering and Bioproduction","score":0.9693999886512756,"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":0.7328338623046875},{"id":"https://openalex.org/keywords/illumina-dye-sequencing","display_name":"Illumina dye sequencing","score":0.5811296701431274},{"id":"https://openalex.org/keywords/base","display_name":"Base (topology)","score":0.5375478267669678},{"id":"https://openalex.org/keywords/particle-swarm-optimization","display_name":"Particle swarm optimization","score":0.48637011647224426},{"id":"https://openalex.org/keywords/dna-sequencing","display_name":"DNA sequencing","score":0.4792309105396271},{"id":"https://openalex.org/keywords/process","display_name":"Process (computing)","score":0.4639413356781006},{"id":"https://openalex.org/keywords/decoding-methods","display_name":"Decoding methods","score":0.41392359137535095},{"id":"https://openalex.org/keywords/data-mining","display_name":"Data mining","score":0.37975412607192993},{"id":"https://openalex.org/keywords/artificial-intelligence","display_name":"Artificial intelligence","score":0.36931443214416504},{"id":"https://openalex.org/keywords/computational-biology","display_name":"Computational biology","score":0.34062570333480835},{"id":"https://openalex.org/keywords/machine-learning","display_name":"Machine learning","score":0.29429835081100464},{"id":"https://openalex.org/keywords/algorithm","display_name":"Algorithm","score":0.26462867856025696},{"id":"https://openalex.org/keywords/dna","display_name":"DNA","score":0.13825565576553345},{"id":"https://openalex.org/keywords/genetics","display_name":"Genetics","score":0.13409629464149475},{"id":"https://openalex.org/keywords/biology","display_name":"Biology","score":0.12828710675239563},{"id":"https://openalex.org/keywords/operating-system","display_name":"Operating system","score":0.05985623598098755},{"id":"https://openalex.org/keywords/mathematics","display_name":"Mathematics","score":0.05856621265411377}],"concepts":[{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.7328338623046875},{"id":"https://openalex.org/C106337198","wikidata":"https://www.wikidata.org/wiki/Q13564012","display_name":"Illumina dye sequencing","level":4,"score":0.5811296701431274},{"id":"https://openalex.org/C42058472","wikidata":"https://www.wikidata.org/wiki/Q810214","display_name":"Base (topology)","level":2,"score":0.5375478267669678},{"id":"https://openalex.org/C85617194","wikidata":"https://www.wikidata.org/wiki/Q2072794","display_name":"Particle swarm optimization","level":2,"score":0.48637011647224426},{"id":"https://openalex.org/C51679486","wikidata":"https://www.wikidata.org/wiki/Q380546","display_name":"DNA sequencing","level":3,"score":0.4792309105396271},{"id":"https://openalex.org/C98045186","wikidata":"https://www.wikidata.org/wiki/Q205663","display_name":"Process (computing)","level":2,"score":0.4639413356781006},{"id":"https://openalex.org/C57273362","wikidata":"https://www.wikidata.org/wiki/Q576722","display_name":"Decoding methods","level":2,"score":0.41392359137535095},{"id":"https://openalex.org/C124101348","wikidata":"https://www.wikidata.org/wiki/Q172491","display_name":"Data mining","level":1,"score":0.37975412607192993},{"id":"https://openalex.org/C154945302","wikidata":"https://www.wikidata.org/wiki/Q11660","display_name":"Artificial intelligence","level":1,"score":0.36931443214416504},{"id":"https://openalex.org/C70721500","wikidata":"https://www.wikidata.org/wiki/Q177005","display_name":"Computational biology","level":1,"score":0.34062570333480835},{"id":"https://openalex.org/C119857082","wikidata":"https://www.wikidata.org/wiki/Q2539","display_name":"Machine learning","level":1,"score":0.29429835081100464},{"id":"https://openalex.org/C11413529","wikidata":"https://www.wikidata.org/wiki/Q8366","display_name":"Algorithm","level":1,"score":0.26462867856025696},{"id":"https://openalex.org/C552990157","wikidata":"https://www.wikidata.org/wiki/Q7430","display_name":"DNA","level":2,"score":0.13825565576553345},{"id":"https://openalex.org/C54355233","wikidata":"https://www.wikidata.org/wiki/Q7162","display_name":"Genetics","level":1,"score":0.13409629464149475},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.12828710675239563},{"id":"https://openalex.org/C111919701","wikidata":"https://www.wikidata.org/wiki/Q9135","display_name":"Operating system","level":1,"score":0.05985623598098755},{"id":"https://openalex.org/C33923547","wikidata":"https://www.wikidata.org/wiki/Q395","display_name":"Mathematics","level":0,"score":0.05856621265411377},{"id":"https://openalex.org/C134306372","wikidata":"https://www.wikidata.org/wiki/Q7754","display_name":"Mathematical analysis","level":1,"score":0.0}],"mesh":[],"locations_count":1,"locations":[{"id":"doi:10.1109/gensips.2010.5719675","is_oa":false,"landing_page_url":"https://doi.org/10.1109/gensips.2010.5719675","pdf_url":null,"source":null,"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"2010 IEEE International Workshop on Genomic Signal Processing and Statistics (GENSIPS)","raw_type":"proceedings-article"}],"best_oa_location":null,"sustainable_development_goals":[],"awards":[],"funders":[],"has_content":{"grobid_xml":false,"pdf":false},"content_urls":null,"referenced_works_count":6,"referenced_works":["https://openalex.org/W315572163","https://openalex.org/W1987940356","https://openalex.org/W1993180531","https://openalex.org/W2103903744","https://openalex.org/W2151732271","https://openalex.org/W2491035845"],"related_works":["https://openalex.org/W3210858261","https://openalex.org/W2921468924","https://openalex.org/W1617115804","https://openalex.org/W875172540","https://openalex.org/W2406306560","https://openalex.org/W4240065208","https://openalex.org/W4293481482","https://openalex.org/W3154810354","https://openalex.org/W2469594221","https://openalex.org/W4295088062"],"abstract_inverted_index":{"In":[0,16],"this":[1],"paper,":[2],"we":[3,18],"study":[4],"the":[5,31,43,53,72,75],"efficacy":[6],"of":[7,30,42,74],"a":[8,26,48],"model-based":[9],"base-calling":[10,82],"approach":[11,77],"for":[12,66],"Illumina's":[13,81],"sequencing":[14,32],"platforms.":[15],"particular,":[17],"investigate":[19],"Genome":[20],"Analyzer":[21],"I":[22],"reads":[23],"and":[24],"provide":[25],"detailed":[27],"biochemical":[28],"model":[29,44],"process,":[33],"incorporating":[34],"various":[35],"non-idealities":[36],"evident":[37],"in":[38],"such":[39],"systems.":[40],"Parameters":[41],"are":[45],"estimated":[46],"via":[47],"supervised":[49],"learning":[50],"based":[51],"on":[52],"particle":[54],"swarm":[55],"optimization":[56],"technique.":[57],"A":[58],"computationally":[59],"efficient":[60],"sequential":[61],"decoding":[62],"method":[63],"is":[64,69,78],"proposed":[65,76],"base-calling.":[67],"It":[68],"demonstrated":[70],"that":[71],"performance":[73],"comparable":[79],"to":[80],"method.":[83]},"counts_by_year":[{"year":2021,"cited_by_count":1}],"updated_date":"2025-11-06T03:46:38.306776","created_date":"2025-10-10T00:00:00"}
