{"id":"https://openalex.org/W2320416228","doi":"https://doi.org/10.1109/tcbb.2015.2389813","title":"NovoExD: &lt;italic&gt;De novo&lt;/italic&gt; Peptide Sequencing for ETD/ECD Spectra","display_name":"NovoExD: &lt;italic&gt;De novo&lt;/italic&gt; Peptide Sequencing for ETD/ECD Spectra","publication_year":2015,"publication_date":"2015-01-09","ids":{"openalex":"https://openalex.org/W2320416228","doi":"https://doi.org/10.1109/tcbb.2015.2389813","mag":"2320416228","pmid":"https://pubmed.ncbi.nlm.nih.gov/28368811"},"language":"en","primary_location":{"id":"doi:10.1109/tcbb.2015.2389813","is_oa":false,"landing_page_url":"https://doi.org/10.1109/tcbb.2015.2389813","pdf_url":null,"source":{"id":"https://openalex.org/S36029991","display_name":"IEEE/ACM Transactions on Computational Biology and Bioinformatics","issn_l":"1545-5963","issn":["1545-5963","1557-9964","2374-0043"],"is_oa":false,"is_in_doaj":false,"is_core":true,"host_organization":"https://openalex.org/P4310319808","host_organization_name":"Institute of Electrical and Electronics Engineers","host_organization_lineage":["https://openalex.org/P4310319808"],"host_organization_lineage_names":["Institute of Electrical and Electronics Engineers"],"type":"journal"},"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"IEEE/ACM Transactions on Computational Biology and Bioinformatics","raw_type":"journal-article"},"type":"article","indexed_in":["crossref","pubmed"],"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/A5100395064","display_name":"Yan Yan","orcid":"https://orcid.org/0000-0002-4915-9544"},"institutions":[{"id":"https://openalex.org/I32625721","display_name":"University of Saskatchewan","ror":"https://ror.org/010x8gc63","country_code":"CA","type":"education","lineage":["https://openalex.org/I32625721"]}],"countries":["CA"],"is_corresponding":false,"raw_author_name":"Yan Yan","raw_affiliation_strings":["Division of Biomedical Engineering, University of Saskatchewan, Saskatoon, SK, Canada"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Division of Biomedical Engineering, University of Saskatchewan, Saskatoon, SK, Canada","institution_ids":["https://openalex.org/I32625721"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5034538230","display_name":"Anthony Kusalik","orcid":"https://orcid.org/0000-0001-9278-8859"},"institutions":[{"id":"https://openalex.org/I32625721","display_name":"University of Saskatchewan","ror":"https://ror.org/010x8gc63","country_code":"CA","type":"education","lineage":["https://openalex.org/I32625721"]}],"countries":["CA"],"is_corresponding":false,"raw_author_name":"Anthony J. Kusalik","raw_affiliation_strings":["Division of Biomedical Engineering and the Department of Computer Science, University of Saskatchewan, Saskatoon, SK, Canada"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Division of Biomedical Engineering and the Department of Computer Science, University of Saskatchewan, Saskatoon, SK, Canada","institution_ids":["https://openalex.org/I32625721"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5091157395","display_name":"Fang\u2010Xiang Wu","orcid":"https://orcid.org/0000-0002-4593-9332"},"institutions":[{"id":"https://openalex.org/I32625721","display_name":"University of Saskatchewan","ror":"https://ror.org/010x8gc63","country_code":"CA","type":"education","lineage":["https://openalex.org/I32625721"]}],"countries":["CA"],"is_corresponding":false,"raw_author_name":"Fang-Xiang Wu","raw_affiliation_strings":["Division of Biomedical Engineering and the Department of Mechanical Engineering, University of Saskatchewan, Saskatoon, SK, Canada"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Division of Biomedical Engineering and the Department of Mechanical Engineering, University of Saskatchewan, Saskatoon, SK, Canada","institution_ids":["https://openalex.org/I32625721"]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":1,"corresponding_author_ids":[],"corresponding_institution_ids":["https://openalex.org/I32625721"],"apc_list":null,"apc_paid":null,"fwci":0.6591,"has_fulltext":false,"cited_by_count":6,"citation_normalized_percentile":{"value":0.68219237,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":{"min":90,"max":96},"biblio":{"volume":"14","issue":"2","first_page":"337","last_page":"344"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T10683","display_name":"Mass Spectrometry Techniques and Applications","score":0.9998999834060669,"subfield":{"id":"https://openalex.org/subfields/1607","display_name":"Spectroscopy"},"field":{"id":"https://openalex.org/fields/16","display_name":"Chemistry"},"domain":{"id":"https://openalex.org/domains/3","display_name":"Physical Sciences"}},"topics":[{"id":"https://openalex.org/T10683","display_name":"Mass Spectrometry Techniques and Applications","score":0.9998999834060669,"subfield":{"id":"https://openalex.org/subfields/1607","display_name":"Spectroscopy"},"field":{"id":"https://openalex.org/fields/16","display_name":"Chemistry"},"domain":{"id":"https://openalex.org/domains/3","display_name":"Physical Sciences"}},{"id":"https://openalex.org/T10519","display_name":"Advanced Proteomics Techniques and Applications","score":0.9995999932289124,"subfield":{"id":"https://openalex.org/subfields/1607","display_name":"Spectroscopy"},"field":{"id":"https://openalex.org/fields/16","display_name":"Chemistry"},"domain":{"id":"https://openalex.org/domains/3","display_name":"Physical Sciences"}},{"id":"https://openalex.org/T11162","display_name":"Enzyme Structure and Function","score":0.9865999817848206,"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/biology","display_name":"Biology","score":0.3066941201686859}],"concepts":[{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.3066941201686859}],"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":"D010455","descriptor_name":"Peptides","qualifier_ui":"Q000032","qualifier_name":"analysis","is_major_topic":false},{"descriptor_ui":"D010455","descriptor_name":"Peptides","qualifier_ui":"Q000032","qualifier_name":"analysis","is_major_topic":false},{"descriptor_ui":"D010455","descriptor_name":"Peptides","qualifier_ui":"Q000032","qualifier_name":"analysis","is_major_topic":false},{"descriptor_ui":"D010455","descriptor_name":"Peptides","qualifier_ui":"Q000737","qualifier_name":"chemistry","is_major_topic":false},{"descriptor_ui":"D010455","descriptor_name":"Peptides","qualifier_ui":"Q000737","qualifier_name":"chemistry","is_major_topic":false},{"descriptor_ui":"D010455","descriptor_name":"Peptides","qualifier_ui":"Q000737","qualifier_name":"chemistry","is_major_topic":false},{"descriptor_ui":"D020539","descriptor_name":"Sequence Analysis, Protein","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D020539","descriptor_name":"Sequence Analysis, Protein","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D020539","descriptor_name":"Sequence Analysis, Protein","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D030562","descriptor_name":"Databases, Protein","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D030562","descriptor_name":"Databases, Protein","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D030562","descriptor_name":"Databases, Protein","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D053719","descriptor_name":"Tandem Mass Spectrometry","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D053719","descriptor_name":"Tandem Mass Spectrometry","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D053719","descriptor_name":"Tandem Mass Spectrometry","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false}],"locations_count":2,"locations":[{"id":"doi:10.1109/tcbb.2015.2389813","is_oa":false,"landing_page_url":"https://doi.org/10.1109/tcbb.2015.2389813","pdf_url":null,"source":{"id":"https://openalex.org/S36029991","display_name":"IEEE/ACM Transactions on Computational Biology and Bioinformatics","issn_l":"1545-5963","issn":["1545-5963","1557-9964","2374-0043"],"is_oa":false,"is_in_doaj":false,"is_core":true,"host_organization":"https://openalex.org/P4310319808","host_organization_name":"Institute of Electrical and Electronics Engineers","host_organization_lineage":["https://openalex.org/P4310319808"],"host_organization_lineage_names":["Institute of Electrical and Electronics Engineers"],"type":"journal"},"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"IEEE/ACM Transactions on Computational Biology and Bioinformatics","raw_type":"journal-article"},{"id":"pmid:28368811","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/28368811","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":"IEEE/ACM transactions on computational biology and bioinformatics","raw_type":null}],"best_oa_location":null,"sustainable_development_goals":[],"awards":[],"funders":[{"id":"https://openalex.org/F4320306160","display_name":"Multiple Sclerosis Foundation","ror":"https://ror.org/049fh2r80"},{"id":"https://openalex.org/F4320334593","display_name":"Natural Sciences and Engineering Research Council of Canada","ror":"https://ror.org/01h531d29"}],"has_content":{"pdf":false,"grobid_xml":false},"content_urls":null,"referenced_works_count":29,"referenced_works":["https://openalex.org/W35024136","https://openalex.org/W166253295","https://openalex.org/W1966557933","https://openalex.org/W1967467171","https://openalex.org/W1971887998","https://openalex.org/W1981337935","https://openalex.org/W2011503307","https://openalex.org/W2023250395","https://openalex.org/W2025689383","https://openalex.org/W2030077714","https://openalex.org/W2031214076","https://openalex.org/W2036634490","https://openalex.org/W2057731158","https://openalex.org/W2068985738","https://openalex.org/W2080011781","https://openalex.org/W2084885918","https://openalex.org/W2085817013","https://openalex.org/W2097126443","https://openalex.org/W2101879802","https://openalex.org/W2105635160","https://openalex.org/W2121612064","https://openalex.org/W2127042395","https://openalex.org/W2131741443","https://openalex.org/W2137285891","https://openalex.org/W2139397135","https://openalex.org/W2140506762","https://openalex.org/W2166538692","https://openalex.org/W2168071329","https://openalex.org/W2327133606"],"related_works":["https://openalex.org/W2082860237","https://openalex.org/W2119695867","https://openalex.org/W2130076355","https://openalex.org/W1990804418","https://openalex.org/W1993764875","https://openalex.org/W2046158694","https://openalex.org/W2788277189","https://openalex.org/W1971568933","https://openalex.org/W2013243191","https://openalex.org/W2117258802"],"abstract_inverted_index":{"De":[0],"novo":[1,61,108],"peptide":[2,87,131],"sequencing":[3,62,109],"using":[4],"tandem":[5],"mass":[6],"spectrometry":[7],"(MS/MS)":[8],"data":[9],"has":[10,113],"become":[11],"a":[12,42,59,72,83],"major":[13],"computational":[14,31],"method":[15,63],"for":[16,64,116],"sequence":[17],"identification":[18,132],"in":[19],"recent":[20],"years.":[21],"With":[22],"the":[23,127],"development":[24],"of":[25,53,75,134,158],"new":[26,73],"instruments":[27],"and":[28,56,89,95,142],"technology,":[29],"novel":[30],"methods":[32,44],"have":[33],"emerged":[34],"with":[35,78,104],"enhanced":[36],"performance.":[37],"However,":[38],"there":[39],"are":[40],"only":[41],"few":[43],"focusing":[45],"on":[46,121,153],"ECD/ETD":[47,65,117],"spectra,":[48,66],"which":[49,112],"mainly":[50],"contain":[51],"variants":[52],"c":[54],"-ions":[55],"z-ions.":[57],"Here,":[58],"de":[60,107],"NovoExD,":[67],"is":[68,102,136,147],"presented.":[69],"NovoExD":[70,135],"applies":[71],"form":[74],"spectrum":[76],"graph":[77],"multiple":[79,86],"edge":[80],"types":[81],"(called":[82],"GMET),":[84],"considers":[85],"tags,":[88],"integrates":[90],"amino":[91],"acid":[92],"combination":[93],"(AAC)":[94],"fragment":[96],"ion":[97],"charge":[98],"information.":[99],"Its":[100],"performance":[101],"compared":[103],"another":[105],"successful":[106],"method,":[110],"pNovo+,":[111],"an":[114],"option":[115],"spectra.":[118],"Experiments":[119],"conducted":[120],"three":[122],"different":[123],"datasets":[124,155],"show":[125],"that":[126,143,157],"average":[128,145],"full":[129],"length":[130],"accuracy":[133,146],"as":[137,139],"high":[138],"88.70":[140],"percent,":[141],"NovoExD's":[144],"more":[148],"than":[149,156],"20":[150],"percent":[151],"greater":[152],"all":[154],"pNovo+.":[159]},"counts_by_year":[{"year":2025,"cited_by_count":2},{"year":2018,"cited_by_count":1},{"year":2017,"cited_by_count":1},{"year":2016,"cited_by_count":2}],"updated_date":"2025-11-06T03:46:38.306776","created_date":"2016-06-24T00:00:00"}
