{"id":"https://openalex.org/W2577309945","doi":"https://doi.org/10.1109/bibm.2016.7822799","title":"Toward optimization-oriented NGS peak alignment within the context of Precision Medicine Initiative","display_name":"Toward optimization-oriented NGS peak alignment within the context of Precision Medicine Initiative","publication_year":2016,"publication_date":"2016-12-01","ids":{"openalex":"https://openalex.org/W2577309945","doi":"https://doi.org/10.1109/bibm.2016.7822799","mag":"2577309945"},"language":"en","primary_location":{"id":"doi:10.1109/bibm.2016.7822799","is_oa":false,"landing_page_url":"https://doi.org/10.1109/bibm.2016.7822799","pdf_url":null,"source":null,"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"2016 IEEE International Conference on Bioinformatics and Biomedicine (BIBM)","raw_type":"proceedings-article"},"type":"conference-paper","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/A5082800002","display_name":"Binhua Tang","orcid":"https://orcid.org/0000-0003-4744-5835"},"institutions":[{"id":"https://openalex.org/I163340411","display_name":"Hohai University","ror":"https://ror.org/01wd4xt90","country_code":"CN","type":"education","lineage":["https://openalex.org/I163340411"]},{"id":"https://openalex.org/I183067930","display_name":"Shanghai Jiao Tong University","ror":"https://ror.org/0220qvk04","country_code":"CN","type":"education","lineage":["https://openalex.org/I183067930"]}],"countries":["CN"],"is_corresponding":true,"raw_author_name":"Binhua Tang","raw_affiliation_strings":["Epigenetics & Function Group, Hohai University, China","School of Public Health & Biostatistics, Shanghai Jiao Tong University, China"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Epigenetics & Function Group, Hohai University, China","institution_ids":["https://openalex.org/I163340411"]},{"raw_affiliation_string":"School of Public Health & Biostatistics, Shanghai Jiao Tong University, China","institution_ids":["https://openalex.org/I183067930"]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":2,"corresponding_author_ids":["https://openalex.org/A5082800002"],"corresponding_institution_ids":["https://openalex.org/I163340411","https://openalex.org/I183067930"],"apc_list":null,"apc_paid":null,"fwci":null,"has_fulltext":false,"cited_by_count":1,"citation_normalized_percentile":null,"cited_by_percentile_year":null,"biblio":{"volume":"9","issue":null,"first_page":"1848","last_page":"1850"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T10015","display_name":"Genomics and Phylogenetic Studies","score":0.9975000023841858,"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":0.9975000023841858,"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/T10269","display_name":"Epigenetics and DNA Methylation","score":0.9915000200271606,"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/T11213","display_name":"Genomic variations and chromosomal abnormalities","score":0.984000027179718,"subfield":{"id":"https://openalex.org/subfields/1311","display_name":"Genetics"},"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":0.7267652750015259},{"id":"https://openalex.org/keywords/dna-sequencing","display_name":"DNA sequencing","score":0.5077796578407288},{"id":"https://openalex.org/keywords/precision-medicine","display_name":"Precision medicine","score":0.49414876103401184},{"id":"https://openalex.org/keywords/throughput","display_name":"Throughput","score":0.493068665266037},{"id":"https://openalex.org/keywords/reliability","display_name":"Reliability (semiconductor)","score":0.48073267936706543},{"id":"https://openalex.org/keywords/pipeline","display_name":"Pipeline (software)","score":0.4799899756908417},{"id":"https://openalex.org/keywords/context","display_name":"Context (archaeology)","score":0.4695100486278534},{"id":"https://openalex.org/keywords/data-mining","display_name":"Data mining","score":0.4430099129676819},{"id":"https://openalex.org/keywords/quality","display_name":"Quality (philosophy)","score":0.41145169734954834},{"id":"https://openalex.org/keywords/dna","display_name":"DNA","score":0.12859681248664856},{"id":"https://openalex.org/keywords/biology","display_name":"Biology","score":0.09585464000701904}],"concepts":[{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.7267652750015259},{"id":"https://openalex.org/C51679486","wikidata":"https://www.wikidata.org/wiki/Q380546","display_name":"DNA sequencing","level":3,"score":0.5077796578407288},{"id":"https://openalex.org/C163763905","wikidata":"https://www.wikidata.org/wiki/Q17075943","display_name":"Precision medicine","level":2,"score":0.49414876103401184},{"id":"https://openalex.org/C157764524","wikidata":"https://www.wikidata.org/wiki/Q1383412","display_name":"Throughput","level":3,"score":0.493068665266037},{"id":"https://openalex.org/C43214815","wikidata":"https://www.wikidata.org/wiki/Q7310987","display_name":"Reliability (semiconductor)","level":3,"score":0.48073267936706543},{"id":"https://openalex.org/C43521106","wikidata":"https://www.wikidata.org/wiki/Q2165493","display_name":"Pipeline (software)","level":2,"score":0.4799899756908417},{"id":"https://openalex.org/C2779343474","wikidata":"https://www.wikidata.org/wiki/Q3109175","display_name":"Context (archaeology)","level":2,"score":0.4695100486278534},{"id":"https://openalex.org/C124101348","wikidata":"https://www.wikidata.org/wiki/Q172491","display_name":"Data mining","level":1,"score":0.4430099129676819},{"id":"https://openalex.org/C2779530757","wikidata":"https://www.wikidata.org/wiki/Q1207505","display_name":"Quality (philosophy)","level":2,"score":0.41145169734954834},{"id":"https://openalex.org/C552990157","wikidata":"https://www.wikidata.org/wiki/Q7430","display_name":"DNA","level":2,"score":0.12859681248664856},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.09585464000701904},{"id":"https://openalex.org/C121332964","wikidata":"https://www.wikidata.org/wiki/Q413","display_name":"Physics","level":0,"score":0.0},{"id":"https://openalex.org/C76155785","wikidata":"https://www.wikidata.org/wiki/Q418","display_name":"Telecommunications","level":1,"score":0.0},{"id":"https://openalex.org/C111472728","wikidata":"https://www.wikidata.org/wiki/Q9471","display_name":"Epistemology","level":1,"score":0.0},{"id":"https://openalex.org/C555944384","wikidata":"https://www.wikidata.org/wiki/Q249","display_name":"Wireless","level":2,"score":0.0},{"id":"https://openalex.org/C163258240","wikidata":"https://www.wikidata.org/wiki/Q25342","display_name":"Power (physics)","level":2,"score":0.0},{"id":"https://openalex.org/C138885662","wikidata":"https://www.wikidata.org/wiki/Q5891","display_name":"Philosophy","level":0,"score":0.0},{"id":"https://openalex.org/C54355233","wikidata":"https://www.wikidata.org/wiki/Q7162","display_name":"Genetics","level":1,"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/C151730666","wikidata":"https://www.wikidata.org/wiki/Q7205","display_name":"Paleontology","level":1,"score":0.0}],"mesh":[],"locations_count":1,"locations":[{"id":"doi:10.1109/bibm.2016.7822799","is_oa":false,"landing_page_url":"https://doi.org/10.1109/bibm.2016.7822799","pdf_url":null,"source":null,"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"2016 IEEE International Conference on Bioinformatics and Biomedicine (BIBM)","raw_type":"proceedings-article"}],"best_oa_location":null,"sustainable_development_goals":[{"score":0.6800000071525574,"id":"https://metadata.un.org/sdg/9","display_name":"Industry, innovation and infrastructure"}],"awards":[],"funders":[],"has_content":{"grobid_xml":false,"pdf":false},"content_urls":null,"referenced_works_count":25,"referenced_works":["https://openalex.org/W2005337711","https://openalex.org/W2007807048","https://openalex.org/W2018012763","https://openalex.org/W2026682494","https://openalex.org/W2028232278","https://openalex.org/W2029654103","https://openalex.org/W2050112556","https://openalex.org/W2065579185","https://openalex.org/W2092988184","https://openalex.org/W2104183222","https://openalex.org/W2106340111","https://openalex.org/W2120437661","https://openalex.org/W2124225056","https://openalex.org/W2124985265","https://openalex.org/W2127431419","https://openalex.org/W2128130893","https://openalex.org/W2128397771","https://openalex.org/W2133212095","https://openalex.org/W2163327652","https://openalex.org/W2171808845","https://openalex.org/W2259938310","https://openalex.org/W2461593871","https://openalex.org/W2514306961","https://openalex.org/W2524126898","https://openalex.org/W6725913830"],"related_works":["https://openalex.org/W2136583354","https://openalex.org/W2111238207","https://openalex.org/W3037187668","https://openalex.org/W2760721665","https://openalex.org/W2380685755","https://openalex.org/W330130819","https://openalex.org/W2375218795","https://openalex.org/W2772772214","https://openalex.org/W2393010557","https://openalex.org/W1975246544"],"abstract_inverted_index":{"With":[0],"the":[1,44,53,103],"recent":[2,23,92],"Precision":[3],"Medicine":[4],"Initiative,":[5],"more":[6],"institutions":[7],"are":[8,40],"focusing":[9],"on":[10,59],"technical":[11],"innovation":[12],"and":[13,34,46,57,63,107,127,141],"method":[14],"improvement":[15],"in":[16,26,138],"high-throughput":[17,49],"sequencing":[18,38,60],"experiments.":[19,113,148],"We":[20],"first":[21],"review":[22],"technique":[24,56],"progresses":[25],"profiling":[27],"DNA":[28],"methylation,":[29],"then":[30],"as":[31],"data":[32,61],"quality":[33,62],"alignment":[35,64,78,106],"efficiency":[36],"of":[37,48],"profiles":[39],"directly":[41],"related":[42],"to":[43,101,121],"reliability":[45],"reproducibility":[47],"experiments,":[50],"we":[51,89],"repurpose":[52],"prevalent":[54],"ChIP-sequencing":[55,86],"emphasize":[58],"efficiency.":[65],"Till":[66],"now,":[67],"there":[68],"is":[69],"no":[70],"tool":[71],"yet":[72],"specifically":[73],"designed":[74],"for":[75,85,119,124,146],"optimal":[76,104],"peak":[77,98,105],"estimation":[79],"or":[80],"quality-related":[81],"genomic":[82,109],"feature":[83],"extraction":[84],"profiles.":[87],"Finally,":[88],"introduce":[90],"our":[91],"proposed":[93],"pipeline,":[94],"embedded":[95],"with":[96],"optimization-based":[97],"aligner":[99],"(COPAR),":[100],"interrogate":[102],"inherent":[108],"features":[110],"from":[111],"NGS":[112,125],"It":[114],"provides":[115],"a":[116],"versatile":[117],"perspective":[118],"biologists":[120],"perform":[122],"quality-check":[123],"experiments":[126],"optimize":[128],"their":[129],"experiment":[130],"design.":[131],"COPAR":[132],"can":[133],"process":[134],"mapped":[135],"read":[136],"file":[137],"BED":[139],"format":[140],"output":[142],"statistically":[143],"sound":[144],"results":[145],"biological":[147]},"counts_by_year":[{"year":2018,"cited_by_count":1}],"updated_date":"2026-07-14T23:27:15.235271","created_date":"2025-10-10T00:00:00"}