{"id":"https://openalex.org/W3115298268","doi":"https://doi.org/10.1093/bioinformatics/btaa1053","title":"Data-driven noise modeling of digital DNA melting analysis enables prediction of sequence discriminating power","display_name":"Data-driven noise modeling of digital DNA melting analysis enables prediction of sequence discriminating power","publication_year":2020,"publication_date":"2020-12-01","ids":{"openalex":"https://openalex.org/W3115298268","doi":"https://doi.org/10.1093/bioinformatics/btaa1053","mag":"3115298268","pmid":"https://pubmed.ncbi.nlm.nih.gov/33355665"},"language":"en","primary_location":{"id":"doi:10.1093/bioinformatics/btaa1053","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bioinformatics/btaa1053","pdf_url":"https://academic.oup.com/bioinformatics/article-pdf/36/22-23/5337/36855739/btaa1053.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/36/22-23/5337/36855739/btaa1053.pdf","any_repository_has_fulltext":true},"authorships":[{"author_position":"first","author":{"id":null,"display_name":"Lennart Langouche","orcid":null},"institutions":[{"id":"https://openalex.org/I36258959","display_name":"University of California San Diego","ror":"https://ror.org/0168r3w48","country_code":"US","type":"education","lineage":["https://openalex.org/I36258959"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Lennart Langouche","raw_affiliation_strings":["Department of Nanoengineering, University of California , San Diego, La Jolla, CA 92093, USA"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Department of Nanoengineering, University of California , San Diego, La Jolla, CA 92093, USA","institution_ids":["https://openalex.org/I36258959"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5071872145","display_name":"April Aralar","orcid":"https://orcid.org/0000-0002-2944-3417"},"institutions":[{"id":"https://openalex.org/I36258959","display_name":"University of California San Diego","ror":"https://ror.org/0168r3w48","country_code":"US","type":"education","lineage":["https://openalex.org/I36258959"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"April Aralar","raw_affiliation_strings":["Department of Bioengineering, University of California , San Diego, La Jolla, CA 92093, USA"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Department of Bioengineering, University of California , San Diego, La Jolla, CA 92093, USA","institution_ids":["https://openalex.org/I36258959"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5101063111","display_name":"Mridu Sinha","orcid":null},"institutions":[{"id":"https://openalex.org/I36258959","display_name":"University of California San Diego","ror":"https://ror.org/0168r3w48","country_code":"US","type":"education","lineage":["https://openalex.org/I36258959"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Mridu Sinha","raw_affiliation_strings":["Department of Bioengineering, University of California , San Diego, La Jolla, CA 92093, USA"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Department of Bioengineering, University of California , San Diego, La Jolla, CA 92093, USA","institution_ids":["https://openalex.org/I36258959"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5080528617","display_name":"Shelley M. Lawrence","orcid":"https://orcid.org/0000-0001-5608-7051"},"institutions":[{"id":"https://openalex.org/I36258959","display_name":"University of California San Diego","ror":"https://ror.org/0168r3w48","country_code":"US","type":"education","lineage":["https://openalex.org/I36258959"]},{"id":"https://openalex.org/I4210087384","display_name":"Rady Children's Hospital-San Diego","ror":"https://ror.org/00414dg76","country_code":"US","type":"healthcare","lineage":["https://openalex.org/I4210087384"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Shelley M Lawrence","raw_affiliation_strings":["Center for Microbiome Innovation, University of California , San Diego, La Jolla, CA 92093, USA","Department of Pediatrics, Division of Neonatal-Perinatal Medicine , University of California, San Diego, La Jolla, CA 92093, USA","Rady Children\u2019s Hospital of San Diego , San Diego, CA 92123, USA"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Center for Microbiome Innovation, University of California , San Diego, La Jolla, CA 92093, USA","institution_ids":["https://openalex.org/I36258959"]},{"raw_affiliation_string":"Department of Pediatrics, Division of Neonatal-Perinatal Medicine , University of California, San Diego, La Jolla, CA 92093, USA","institution_ids":["https://openalex.org/I36258959"]},{"raw_affiliation_string":"Rady Children\u2019s Hospital of San Diego , San Diego, CA 92123, USA","institution_ids":["https://openalex.org/I4210087384"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5025879044","display_name":"Stephanie I. Fraley","orcid":"https://orcid.org/0000-0003-1548-4442"},"institutions":[{"id":"https://openalex.org/I36258959","display_name":"University of California San Diego","ror":"https://ror.org/0168r3w48","country_code":"US","type":"education","lineage":["https://openalex.org/I36258959"]}],"countries":["US"],"is_corresponding":true,"raw_author_name":"Stephanie I Fraley","raw_affiliation_strings":["Center for Microbiome Innovation, University of California , San Diego, La Jolla, CA 92093, USA","Department of Bioengineering, University of California , San Diego, La Jolla, CA 92093, USA"],"raw_orcid":"https://orcid.org/0000-0003-1548-4442","affiliations":[{"raw_affiliation_string":"Center for Microbiome Innovation, University of California , San Diego, La Jolla, CA 92093, USA","institution_ids":["https://openalex.org/I36258959"]},{"raw_affiliation_string":"Department of Bioengineering, University of California , San Diego, La Jolla, CA 92093, USA","institution_ids":["https://openalex.org/I36258959"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5046582466","display_name":"Todd P. Coleman","orcid":"https://orcid.org/0000-0002-2144-2495"},"institutions":[{"id":"https://openalex.org/I36258959","display_name":"University of California San Diego","ror":"https://ror.org/0168r3w48","country_code":"US","type":"education","lineage":["https://openalex.org/I36258959"]}],"countries":["US"],"is_corresponding":true,"raw_author_name":"Todd P Coleman","raw_affiliation_strings":["Department of Bioengineering, University of California , San Diego, La Jolla, CA 92093, USA"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Department of Bioengineering, University of California , San Diego, La Jolla, CA 92093, USA","institution_ids":["https://openalex.org/I36258959"]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":6,"corresponding_author_ids":["https://openalex.org/A5025879044","https://openalex.org/A5046582466"],"corresponding_institution_ids":["https://openalex.org/I36258959"],"apc_list":{"value":3618,"currency":"USD","value_usd":3618},"apc_paid":null,"fwci":0.5837,"has_fulltext":true,"cited_by_count":12,"citation_normalized_percentile":{"value":0.66258209,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":{"min":89,"max":98},"biblio":{"volume":"36","issue":"22-23","first_page":"5337","last_page":"5343"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T10015","display_name":"Genomics and Phylogenetic Studies","score":0.12890000641345978,"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":0.12890000641345978,"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":0.12409999966621399,"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/T11948","display_name":"Machine Learning in Materials Science","score":0.04749999940395355,"subfield":{"id":"https://openalex.org/subfields/2505","display_name":"Materials Chemistry"},"field":{"id":"https://openalex.org/fields/25","display_name":"Materials Science"},"domain":{"id":"https://openalex.org/domains/3","display_name":"Physical Sciences"}}],"keywords":[{"id":"https://openalex.org/keywords/noise","display_name":"Noise (video)","score":0.6520464420318604},{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.6337735652923584},{"id":"https://openalex.org/keywords/sequence","display_name":"Sequence (biology)","score":0.616565465927124},{"id":"https://openalex.org/keywords/data-mining","display_name":"Data mining","score":0.4749467670917511},{"id":"https://openalex.org/keywords/power","display_name":"Power (physics)","score":0.4668142795562744},{"id":"https://openalex.org/keywords/dna-sequencing","display_name":"DNA sequencing","score":0.44168171286582947},{"id":"https://openalex.org/keywords/software","display_name":"Software","score":0.4214162528514862},{"id":"https://openalex.org/keywords/dna","display_name":"DNA","score":0.37760478258132935},{"id":"https://openalex.org/keywords/pattern-recognition","display_name":"Pattern recognition (psychology)","score":0.3658648133277893},{"id":"https://openalex.org/keywords/computational-biology","display_name":"Computational biology","score":0.3576028048992157},{"id":"https://openalex.org/keywords/artificial-intelligence","display_name":"Artificial intelligence","score":0.3383162021636963},{"id":"https://openalex.org/keywords/biology","display_name":"Biology","score":0.15741100907325745},{"id":"https://openalex.org/keywords/genetics","display_name":"Genetics","score":0.1363142728805542}],"concepts":[{"id":"https://openalex.org/C99498987","wikidata":"https://www.wikidata.org/wiki/Q2210247","display_name":"Noise (video)","level":3,"score":0.6520464420318604},{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.6337735652923584},{"id":"https://openalex.org/C2778112365","wikidata":"https://www.wikidata.org/wiki/Q3511065","display_name":"Sequence (biology)","level":2,"score":0.616565465927124},{"id":"https://openalex.org/C124101348","wikidata":"https://www.wikidata.org/wiki/Q172491","display_name":"Data mining","level":1,"score":0.4749467670917511},{"id":"https://openalex.org/C163258240","wikidata":"https://www.wikidata.org/wiki/Q25342","display_name":"Power (physics)","level":2,"score":0.4668142795562744},{"id":"https://openalex.org/C51679486","wikidata":"https://www.wikidata.org/wiki/Q380546","display_name":"DNA sequencing","level":3,"score":0.44168171286582947},{"id":"https://openalex.org/C2777904410","wikidata":"https://www.wikidata.org/wiki/Q7397","display_name":"Software","level":2,"score":0.4214162528514862},{"id":"https://openalex.org/C552990157","wikidata":"https://www.wikidata.org/wiki/Q7430","display_name":"DNA","level":2,"score":0.37760478258132935},{"id":"https://openalex.org/C153180895","wikidata":"https://www.wikidata.org/wiki/Q7148389","display_name":"Pattern recognition (psychology)","level":2,"score":0.3658648133277893},{"id":"https://openalex.org/C70721500","wikidata":"https://www.wikidata.org/wiki/Q177005","display_name":"Computational biology","level":1,"score":0.3576028048992157},{"id":"https://openalex.org/C154945302","wikidata":"https://www.wikidata.org/wiki/Q11660","display_name":"Artificial intelligence","level":1,"score":0.3383162021636963},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.15741100907325745},{"id":"https://openalex.org/C54355233","wikidata":"https://www.wikidata.org/wiki/Q7162","display_name":"Genetics","level":1,"score":0.1363142728805542},{"id":"https://openalex.org/C115961682","wikidata":"https://www.wikidata.org/wiki/Q860623","display_name":"Image (mathematics)","level":2,"score":0.0},{"id":"https://openalex.org/C62520636","wikidata":"https://www.wikidata.org/wiki/Q944","display_name":"Quantum mechanics","level":1,"score":0.0},{"id":"https://openalex.org/C199360897","wikidata":"https://www.wikidata.org/wiki/Q9143","display_name":"Programming language","level":1,"score":0.0},{"id":"https://openalex.org/C121332964","wikidata":"https://www.wikidata.org/wiki/Q413","display_name":"Physics","level":0,"score":0.0}],"mesh":[],"locations_count":4,"locations":[{"id":"doi:10.1093/bioinformatics/btaa1053","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bioinformatics/btaa1053","pdf_url":"https://academic.oup.com/bioinformatics/article-pdf/36/22-23/5337/36855739/btaa1053.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:33355665","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/33355665","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:escholarship.org:ark:/13030/qt1z25q4gh","is_oa":false,"landing_page_url":"https://escholarship.org/uc/item/1z25q4gh","pdf_url":null,"source":null,"license":null,"license_id":null,"version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"Bioinformatics, vol 36, iss 22-23","raw_type":"article"},{"id":"pmh:oai:pubmedcentral.nih.gov:8016452","is_oa":true,"landing_page_url":"https://www.ncbi.nlm.nih.gov/pmc/articles/8016452","pdf_url":null,"source":{"id":"https://openalex.org/S2764455111","display_name":"PubMed Central","issn_l":null,"issn":null,"is_oa":true,"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/btaa1053","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bioinformatics/btaa1053","pdf_url":"https://academic.oup.com/bioinformatics/article-pdf/36/22-23/5337/36855739/btaa1053.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":[{"score":0.7300000190734863,"display_name":"Reduced inequalities","id":"https://metadata.un.org/sdg/10"}],"awards":[{"id":"https://openalex.org/G1157087654","display_name":null,"funder_award_id":"R01 AI134982","funder_id":"https://openalex.org/F4320337355","funder_display_name":"National Institute of Allergy and Infectious Diseases"},{"id":"https://openalex.org/G64421039","display_name":null,"funder_award_id":"1012027","funder_id":"https://openalex.org/F4320306133","funder_display_name":"Burroughs Wellcome Fund"},{"id":"https://openalex.org/G6778840217","display_name":null,"funder_award_id":"R01AI134982","funder_id":"https://openalex.org/F4320332161","funder_display_name":"National Institutes of Health"},{"id":"https://openalex.org/G8028351090","display_name":null,"funder_award_id":"R01AI134982","funder_id":"https://openalex.org/F4320337355","funder_display_name":"National Institute of Allergy and Infectious Diseases"}],"funders":[{"id":"https://openalex.org/F4320306133","display_name":"Burroughs Wellcome Fund","ror":"https://ror.org/01d35cw23"},{"id":"https://openalex.org/F4320332161","display_name":"National Institutes of Health","ror":"https://ror.org/01cwqze88"},{"id":"https://openalex.org/F4320337355","display_name":"National Institute of Allergy and Infectious Diseases","ror":"https://ror.org/043z4tv69"}],"has_content":{"grobid_xml":true,"pdf":true},"content_urls":{"pdf":"https://content.openalex.org/works/W3115298268.pdf","grobid_xml":"https://content.openalex.org/works/W3115298268.grobid-xml"},"referenced_works_count":24,"referenced_works":["https://openalex.org/W1968432883","https://openalex.org/W1999336249","https://openalex.org/W2028300697","https://openalex.org/W2032019813","https://openalex.org/W2035104901","https://openalex.org/W2082508273","https://openalex.org/W2101234009","https://openalex.org/W2108508548","https://openalex.org/W2126784042","https://openalex.org/W2128160875","https://openalex.org/W2131433013","https://openalex.org/W2150705960","https://openalex.org/W2150757437","https://openalex.org/W2342378735","https://openalex.org/W2555077524","https://openalex.org/W2586207359","https://openalex.org/W2586709961","https://openalex.org/W2593705154","https://openalex.org/W2797311657","https://openalex.org/W2890803903","https://openalex.org/W2911964244","https://openalex.org/W6675354045","https://openalex.org/W6754507972","https://openalex.org/W6911807110"],"related_works":["https://openalex.org/W2112284452","https://openalex.org/W3085798047","https://openalex.org/W2374269412","https://openalex.org/W371123309","https://openalex.org/W2085500676","https://openalex.org/W2186272223","https://openalex.org/W2365096715","https://openalex.org/W2012817876","https://openalex.org/W4287666945","https://openalex.org/W595097604"],"abstract_inverted_index":{"MOTIVATION:":[0],"The":[1],"need":[2,34],"to":[3,31,47,77,107,117,203],"rapidly":[4],"screen":[5],"complex":[6],"samples":[7],"for":[8,52,60,119,194],"a":[9,49,120],"wide":[10],"range":[11],"of":[12,57,87,127,140,148,155,181],"nucleic":[13,39],"acid":[14,40],"targets,":[15],"like":[16],"infectious":[17],"diseases,":[18],"remains":[19],"unmet.":[20],"Digital":[21],"High-Resolution":[22],"Melt":[23],"(dHRM)":[24],"is":[25],"an":[26,152],"emerging":[27],"technology":[28,59],"with":[29,207],"potential":[30],"meet":[32],"this":[33,195],"by":[35],"accomplishing":[36],"broad-based,":[37],"rapid":[38],"sequence":[41,62],"identification.":[42],"Here,":[43],"we":[44,83,161,185],"set":[45],"out":[46],"develop":[48],"computational":[50],"framework":[51],"estimating":[53],"the":[54,85,109,125,134,146,167,179],"resolving":[55],"power":[56],"dHRM":[58,72,89,142],"defined":[61],"profiling":[63],"tasks.":[64],"By":[65],"deriving":[66],"noise":[67],"models":[68],"from":[69,97],"experimentally":[70],"generated":[71],"datasets":[73,90,106],"and":[74,99,123,138,145,171,197,214],"applying":[75],"these":[76,105],"in":[78,135,178,199],"silico":[79,136],"predicted":[80],"melt":[81,112,172,205],"curves,":[82],"enable":[84],"production":[86],"synthetic":[88],"that":[91,163,187],"faithfully":[92],"recapitulate":[93],"real-world":[94],"variations":[95],"arising":[96],"sample":[98],"machine":[100],"variables.":[101],"We":[102],"then":[103],"use":[104],"identify":[108],"most":[110,168],"challenging":[111],"curve":[113],"classification":[114],"tasks":[115],"likely":[116],"arise":[118],"given":[121],"application":[122,154],"test":[124],"performance":[126],"benchmark":[128],"classifiers.":[129,150],"RESULTS:":[130],"This":[131],"toolbox":[132],"enables":[133],"design":[137],"testing":[139],"broad-based":[141],"screening":[143,156],"assays":[144],"selection":[147],"optimal":[149],"For":[151],"example":[153],"common":[157],"human":[158,164],"bacterial":[159],"pathogens,":[160],"show":[162],"pathogens":[165],"having":[166],"similar":[169],"sequences":[170],"curves":[173,206],"are":[174,198,223],"still":[175],"reliably":[176],"identifiable":[177],"presence":[180],"experimental":[182],"noise.":[183],"Further,":[184],"find":[186],"ensemble":[188],"methods":[189],"outperform":[190],"whole":[191],"series":[192],"classifiers":[193],"task":[196],"some":[200],"cases":[201],"able":[202],"resolve":[204],"single-nucleotide":[208],"resolution.":[209],"AVAILABILITY":[210],"AND":[211],"IMPLEMENTATION:":[212],"Data":[213],"code":[215],"available":[216,224],"on":[217],"https://github.com/lenlan/dHRM-noise-modeling.":[218],"SUPPLEMENTARY":[219],"INFORMATION:":[220],"Supplementary":[221],"data":[222],"at":[225],"Bioinformatics":[226],"online.":[227]},"counts_by_year":[{"year":2025,"cited_by_count":1},{"year":2024,"cited_by_count":4},{"year":2023,"cited_by_count":5},{"year":2022,"cited_by_count":1},{"year":2021,"cited_by_count":1}],"updated_date":"2026-06-24T13:16:06.693445","created_date":"2025-10-10T00:00:00"}