{"id":"https://openalex.org/W2171284068","doi":"https://doi.org/10.1186/1471-2105-12-115","title":"The Proteogenomic Mapping Tool","display_name":"The Proteogenomic Mapping Tool","publication_year":2011,"publication_date":"2011-04-22","ids":{"openalex":"https://openalex.org/W2171284068","doi":"https://doi.org/10.1186/1471-2105-12-115","mag":"2171284068","pmid":"https://pubmed.ncbi.nlm.nih.gov/21513508"},"language":"en","primary_location":{"id":"doi:10.1186/1471-2105-12-115","is_oa":true,"landing_page_url":"https://doi.org/10.1186/1471-2105-12-115","pdf_url":"https://bmcbioinformatics.biomedcentral.com/counter/pdf/10.1186/1471-2105-12-115","source":{"id":"https://openalex.org/S19032547","display_name":"BMC Bioinformatics","issn_l":"1471-2105","issn":["1471-2105"],"is_oa":true,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310320256","host_organization_name":"BioMed Central","host_organization_lineage":["https://openalex.org/P4310320256","https://openalex.org/P4310319965"],"host_organization_lineage_names":["BioMed Central","Springer Nature"],"type":"journal"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"BMC Bioinformatics","raw_type":"journal-article"},"type":"article","indexed_in":["crossref","doaj","pubmed"],"open_access":{"is_oa":true,"oa_status":"gold","oa_url":"https://bmcbioinformatics.biomedcentral.com/counter/pdf/10.1186/1471-2105-12-115","any_repository_has_fulltext":true},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5014130020","display_name":"William S. Sanders","orcid":"https://orcid.org/0000-0001-9368-3004"},"institutions":[{"id":"https://openalex.org/I99041443","display_name":"Mississippi State University","ror":"https://ror.org/0432jq872","country_code":"US","type":"education","lineage":["https://openalex.org/I4210141039","https://openalex.org/I99041443"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"William S Sanders","raw_affiliation_strings":["Department of Computer Science & Engineering, Mississippi State University, MS, USA","Department of Biochemistry & Molecular Biology, Mississippi State University, MS, USA"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Department of Computer Science & Engineering, Mississippi State University, MS, USA","institution_ids":["https://openalex.org/I99041443"]},{"raw_affiliation_string":"Department of Biochemistry & Molecular Biology, Mississippi State University, MS, USA","institution_ids":["https://openalex.org/I99041443"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5100332800","display_name":"Nan Wang","orcid":"https://orcid.org/0000-0003-4630-5216"},"institutions":[{"id":"https://openalex.org/I44854399","display_name":"University of Southern Mississippi","ror":"https://ror.org/0270vfa57","country_code":"US","type":"education","lineage":["https://openalex.org/I4210141039","https://openalex.org/I44854399"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Nan Wang","raw_affiliation_strings":["Department of Computer Science, University of Southern Mississippi, MS, USA"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Department of Computer Science, University of Southern Mississippi, MS, USA","institution_ids":["https://openalex.org/I44854399"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5112009477","display_name":"Susan M. Bridges","orcid":null},"institutions":[{"id":"https://openalex.org/I4210151352","display_name":"Biocom","ror":"https://ror.org/03ymdxs56","country_code":"US","type":"nonprofit","lineage":["https://openalex.org/I4210151352"]},{"id":"https://openalex.org/I99041443","display_name":"Mississippi State University","ror":"https://ror.org/0432jq872","country_code":"US","type":"education","lineage":["https://openalex.org/I4210141039","https://openalex.org/I99041443"]}],"countries":["US"],"is_corresponding":true,"raw_author_name":"Susan M Bridges","raw_affiliation_strings":["Department of Computer Science & Engineering, Mississippi State University, MS, USA","Institute for Genomics, Biocomputing, and Biotechnology, Mississippi State University, MS, USA"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Department of Computer Science & Engineering, Mississippi State University, MS, USA","institution_ids":["https://openalex.org/I99041443"]},{"raw_affiliation_string":"Institute for Genomics, Biocomputing, and Biotechnology, Mississippi State University, MS, USA","institution_ids":["https://openalex.org/I99041443","https://openalex.org/I4210151352"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5023679130","display_name":"Brandon Malone","orcid":null},"institutions":[{"id":"https://openalex.org/I4210151352","display_name":"Biocom","ror":"https://ror.org/03ymdxs56","country_code":"US","type":"nonprofit","lineage":["https://openalex.org/I4210151352"]},{"id":"https://openalex.org/I99041443","display_name":"Mississippi State University","ror":"https://ror.org/0432jq872","country_code":"US","type":"education","lineage":["https://openalex.org/I4210141039","https://openalex.org/I99041443"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Brandon M Malone","raw_affiliation_strings":["Department of Computer Science & Engineering, Mississippi State University, MS, USA","Institute for Genomics, Biocomputing, and Biotechnology, Mississippi State University, MS, USA"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Department of Computer Science & Engineering, Mississippi State University, MS, USA","institution_ids":["https://openalex.org/I99041443"]},{"raw_affiliation_string":"Institute for Genomics, Biocomputing, and Biotechnology, Mississippi State University, MS, USA","institution_ids":["https://openalex.org/I99041443","https://openalex.org/I4210151352"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5077577982","display_name":"Yoginder S. Dandass","orcid":null},"institutions":[{"id":"https://openalex.org/I4210151352","display_name":"Biocom","ror":"https://ror.org/03ymdxs56","country_code":"US","type":"nonprofit","lineage":["https://openalex.org/I4210151352"]},{"id":"https://openalex.org/I99041443","display_name":"Mississippi State University","ror":"https://ror.org/0432jq872","country_code":"US","type":"education","lineage":["https://openalex.org/I4210141039","https://openalex.org/I99041443"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Yoginder S Dandass","raw_affiliation_strings":["Department of Computer Science & Engineering, Mississippi State University, MS, USA","Institute for Genomics, Biocomputing, and Biotechnology, Mississippi State University, MS, USA"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Department of Computer Science & Engineering, Mississippi State University, MS, USA","institution_ids":["https://openalex.org/I99041443"]},{"raw_affiliation_string":"Institute for Genomics, Biocomputing, and Biotechnology, Mississippi State University, MS, USA","institution_ids":["https://openalex.org/I99041443","https://openalex.org/I4210151352"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5089552380","display_name":"Fiona McCarthy","orcid":"https://orcid.org/0000-0003-2175-5464"},"institutions":[{"id":"https://openalex.org/I4210151352","display_name":"Biocom","ror":"https://ror.org/03ymdxs56","country_code":"US","type":"nonprofit","lineage":["https://openalex.org/I4210151352"]},{"id":"https://openalex.org/I99041443","display_name":"Mississippi State University","ror":"https://ror.org/0432jq872","country_code":"US","type":"education","lineage":["https://openalex.org/I4210141039","https://openalex.org/I99041443"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Fiona M McCarthy","raw_affiliation_strings":["Department of Basic Sciences, College of Veterinary Medicine, Mississippi State University, MS, USA","Institute for Genomics, Biocomputing, and Biotechnology, Mississippi State University, MS, USA"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Department of Basic Sciences, College of Veterinary Medicine, Mississippi State University, MS, USA","institution_ids":["https://openalex.org/I99041443"]},{"raw_affiliation_string":"Institute for Genomics, Biocomputing, and Biotechnology, Mississippi State University, MS, USA","institution_ids":["https://openalex.org/I99041443","https://openalex.org/I4210151352"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5114125460","display_name":"Bindu Nanduri","orcid":null},"institutions":[{"id":"https://openalex.org/I99041443","display_name":"Mississippi State University","ror":"https://ror.org/0432jq872","country_code":"US","type":"education","lineage":["https://openalex.org/I4210141039","https://openalex.org/I99041443"]},{"id":"https://openalex.org/I4210151352","display_name":"Biocom","ror":"https://ror.org/03ymdxs56","country_code":"US","type":"nonprofit","lineage":["https://openalex.org/I4210151352"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Bindu Nanduri","raw_affiliation_strings":["Department of Basic Sciences, College of Veterinary Medicine, Mississippi State University, MS, USA","Institute for Genomics, Biocomputing, and Biotechnology, Mississippi State University, MS, USA"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Department of Basic Sciences, College of Veterinary Medicine, Mississippi State University, MS, USA","institution_ids":["https://openalex.org/I99041443"]},{"raw_affiliation_string":"Institute for Genomics, Biocomputing, and Biotechnology, Mississippi State University, MS, USA","institution_ids":["https://openalex.org/I99041443","https://openalex.org/I4210151352"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5075574028","display_name":"Mark L. Lawrence","orcid":"https://orcid.org/0000-0003-4570-5592"},"institutions":[{"id":"https://openalex.org/I99041443","display_name":"Mississippi State University","ror":"https://ror.org/0432jq872","country_code":"US","type":"education","lineage":["https://openalex.org/I4210141039","https://openalex.org/I99041443"]},{"id":"https://openalex.org/I4210151352","display_name":"Biocom","ror":"https://ror.org/03ymdxs56","country_code":"US","type":"nonprofit","lineage":["https://openalex.org/I4210151352"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Mark L Lawrence","raw_affiliation_strings":["Department of Basic Sciences, College of Veterinary Medicine, Mississippi State University, MS, USA","Institute for Genomics, Biocomputing, and Biotechnology, Mississippi State University, MS, USA"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Department of Basic Sciences, College of Veterinary Medicine, Mississippi State University, MS, USA","institution_ids":["https://openalex.org/I99041443"]},{"raw_affiliation_string":"Institute for Genomics, Biocomputing, and Biotechnology, Mississippi State University, MS, USA","institution_ids":["https://openalex.org/I99041443","https://openalex.org/I4210151352"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5060219125","display_name":"Shane C. Burgess","orcid":"https://orcid.org/0000-0003-0076-9461"},"institutions":[{"id":"https://openalex.org/I4210151352","display_name":"Biocom","ror":"https://ror.org/03ymdxs56","country_code":"US","type":"nonprofit","lineage":["https://openalex.org/I4210151352"]},{"id":"https://openalex.org/I99041443","display_name":"Mississippi State University","ror":"https://ror.org/0432jq872","country_code":"US","type":"education","lineage":["https://openalex.org/I4210141039","https://openalex.org/I99041443"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Shane C Burgess","raw_affiliation_strings":["Department of Basic Sciences, College of Veterinary Medicine, Mississippi State University, MS, USA","Institute for Genomics, Biocomputing, and Biotechnology, Mississippi State University, MS, USA"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Department of Basic Sciences, College of Veterinary Medicine, Mississippi State University, MS, USA","institution_ids":["https://openalex.org/I99041443"]},{"raw_affiliation_string":"Institute for Genomics, Biocomputing, and Biotechnology, Mississippi State University, MS, USA","institution_ids":["https://openalex.org/I99041443","https://openalex.org/I4210151352"]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":9,"corresponding_author_ids":["https://openalex.org/A5112009477"],"corresponding_institution_ids":["https://openalex.org/I4210151352","https://openalex.org/I99041443"],"apc_list":{"value":1690,"currency":"GBP","value_usd":2072},"apc_paid":{"value":1690,"currency":"GBP","value_usd":2072},"fwci":2.7429,"has_fulltext":true,"cited_by_count":42,"citation_normalized_percentile":{"value":0.89918454,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":{"min":90,"max":99},"biblio":{"volume":"12","issue":"1","first_page":"115","last_page":"115"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T10519","display_name":"Advanced Proteomics Techniques and Applications","score":0.5971999764442444,"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/T10519","display_name":"Advanced Proteomics Techniques and Applications","score":0.5971999764442444,"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/T12254","display_name":"Machine Learning in Bioinformatics","score":0.15289999544620514,"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":0.03009999915957451,"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":0.7442582845687866},{"id":"https://openalex.org/keywords/genome","display_name":"Genome","score":0.725766122341156},{"id":"https://openalex.org/keywords/proteogenomics","display_name":"Proteogenomics","score":0.6480505466461182},{"id":"https://openalex.org/keywords/java","display_name":"Java","score":0.6249616742134094},{"id":"https://openalex.org/keywords/annotation","display_name":"Annotation","score":0.5714074373245239},{"id":"https://openalex.org/keywords/computational-biology","display_name":"Computational biology","score":0.5151375532150269},{"id":"https://openalex.org/keywords/scripting-language","display_name":"Scripting language","score":0.48890581727027893},{"id":"https://openalex.org/keywords/proteomics","display_name":"Proteomics","score":0.48160597681999207},{"id":"https://openalex.org/keywords/genome-project","display_name":"Genome project","score":0.4491923153400421},{"id":"https://openalex.org/keywords/dna-microarray","display_name":"DNA microarray","score":0.43896228075027466},{"id":"https://openalex.org/keywords/source-code","display_name":"Source code","score":0.4370588958263397},{"id":"https://openalex.org/keywords/genomics","display_name":"Genomics","score":0.33379030227661133},{"id":"https://openalex.org/keywords/biology","display_name":"Biology","score":0.25124025344848633},{"id":"https://openalex.org/keywords/programming-language","display_name":"Programming language","score":0.14541813731193542},{"id":"https://openalex.org/keywords/genetics","display_name":"Genetics","score":0.14240789413452148},{"id":"https://openalex.org/keywords/artificial-intelligence","display_name":"Artificial intelligence","score":0.13697165250778198},{"id":"https://openalex.org/keywords/gene","display_name":"Gene","score":0.09947508573532104}],"concepts":[{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.7442582845687866},{"id":"https://openalex.org/C141231307","wikidata":"https://www.wikidata.org/wiki/Q7020","display_name":"Genome","level":3,"score":0.725766122341156},{"id":"https://openalex.org/C145741570","wikidata":"https://www.wikidata.org/wiki/Q7251534","display_name":"Proteogenomics","level":5,"score":0.6480505466461182},{"id":"https://openalex.org/C548217200","wikidata":"https://www.wikidata.org/wiki/Q251","display_name":"Java","level":2,"score":0.6249616742134094},{"id":"https://openalex.org/C2776321320","wikidata":"https://www.wikidata.org/wiki/Q857525","display_name":"Annotation","level":2,"score":0.5714074373245239},{"id":"https://openalex.org/C70721500","wikidata":"https://www.wikidata.org/wiki/Q177005","display_name":"Computational biology","level":1,"score":0.5151375532150269},{"id":"https://openalex.org/C61423126","wikidata":"https://www.wikidata.org/wiki/Q187432","display_name":"Scripting language","level":2,"score":0.48890581727027893},{"id":"https://openalex.org/C46111723","wikidata":"https://www.wikidata.org/wiki/Q471857","display_name":"Proteomics","level":3,"score":0.48160597681999207},{"id":"https://openalex.org/C89566754","wikidata":"https://www.wikidata.org/wiki/Q2273828","display_name":"Genome project","level":4,"score":0.4491923153400421},{"id":"https://openalex.org/C95371953","wikidata":"https://www.wikidata.org/wiki/Q591745","display_name":"DNA microarray","level":4,"score":0.43896228075027466},{"id":"https://openalex.org/C43126263","wikidata":"https://www.wikidata.org/wiki/Q128751","display_name":"Source code","level":2,"score":0.4370588958263397},{"id":"https://openalex.org/C189206191","wikidata":"https://www.wikidata.org/wiki/Q222046","display_name":"Genomics","level":4,"score":0.33379030227661133},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.25124025344848633},{"id":"https://openalex.org/C199360897","wikidata":"https://www.wikidata.org/wiki/Q9143","display_name":"Programming language","level":1,"score":0.14541813731193542},{"id":"https://openalex.org/C54355233","wikidata":"https://www.wikidata.org/wiki/Q7162","display_name":"Genetics","level":1,"score":0.14240789413452148},{"id":"https://openalex.org/C154945302","wikidata":"https://www.wikidata.org/wiki/Q11660","display_name":"Artificial intelligence","level":1,"score":0.13697165250778198},{"id":"https://openalex.org/C104317684","wikidata":"https://www.wikidata.org/wiki/Q7187","display_name":"Gene","level":2,"score":0.09947508573532104},{"id":"https://openalex.org/C150194340","wikidata":"https://www.wikidata.org/wiki/Q26972","display_name":"Gene expression","level":3,"score":0.0}],"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":"D003062","descriptor_name":"Codon","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D003062","descriptor_name":"Codon","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D003062","descriptor_name":"Codon","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D010455","descriptor_name":"Peptides","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D010455","descriptor_name":"Peptides","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D010455","descriptor_name":"Peptides","qualifier_ui":"Q000235","qualifier_name":"genetics","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":"D013058","descriptor_name":"Mass Spectrometry","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D013058","descriptor_name":"Mass Spectrometry","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D013058","descriptor_name":"Mass Spectrometry","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D014176","descriptor_name":"Protein Biosynthesis","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D014176","descriptor_name":"Protein Biosynthesis","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D014176","descriptor_name":"Protein Biosynthesis","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D023281","descriptor_name":"Genomics","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D023281","descriptor_name":"Genomics","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D023281","descriptor_name":"Genomics","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D040901","descriptor_name":"Proteomics","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D040901","descriptor_name":"Proteomics","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D040901","descriptor_name":"Proteomics","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D058977","descriptor_name":"Molecular Sequence Annotation","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D058977","descriptor_name":"Molecular Sequence Annotation","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D058977","descriptor_name":"Molecular Sequence Annotation","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false}],"locations_count":5,"locations":[{"id":"doi:10.1186/1471-2105-12-115","is_oa":true,"landing_page_url":"https://doi.org/10.1186/1471-2105-12-115","pdf_url":"https://bmcbioinformatics.biomedcentral.com/counter/pdf/10.1186/1471-2105-12-115","source":{"id":"https://openalex.org/S19032547","display_name":"BMC Bioinformatics","issn_l":"1471-2105","issn":["1471-2105"],"is_oa":true,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310320256","host_organization_name":"BioMed Central","host_organization_lineage":["https://openalex.org/P4310320256","https://openalex.org/P4310319965"],"host_organization_lineage_names":["BioMed Central","Springer Nature"],"type":"journal"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"BMC Bioinformatics","raw_type":"journal-article"},{"id":"pmid:21513508","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/21513508","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":"BMC bioinformatics","raw_type":null},{"id":"pmh:oai:aquila.usm.edu:fac_pubs-1602","is_oa":false,"landing_page_url":"https://aquila.usm.edu/fac_pubs/603","pdf_url":null,"source":{"id":"https://openalex.org/S4306402529","display_name":"Aquila Digital Community (University of Southern Mississippi)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I44854399","host_organization_name":"University of Southern Mississippi","host_organization_lineage":["https://openalex.org/I44854399"],"host_organization_lineage_names":[],"type":"repository"},"license":null,"license_id":null,"version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"Faculty Publications","raw_type":"text"},{"id":"pmh:oai:doaj.org/article:5aa6288411774adb9de902fd3d06a1a8","is_oa":true,"landing_page_url":"https://doaj.org/article/5aa6288411774adb9de902fd3d06a1a8","pdf_url":null,"source":{"id":"https://openalex.org/S112646816","display_name":"SHILAP Revista de lepidopterolog\u00eda","issn_l":"0300-5267","issn":["0300-5267","2340-4078"],"is_oa":true,"is_in_doaj":true,"is_core":false,"host_organization":null,"host_organization_name":null,"host_organization_lineage":[],"host_organization_lineage_names":[],"type":"journal"},"license":"cc-by-sa","license_id":"https://openalex.org/licenses/cc-by-sa","version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"BMC Bioinformatics, Vol 12, Iss 1, p 115 (2011)","raw_type":"article"},{"id":"pmh:oai:pubmedcentral.nih.gov:3107813","is_oa":true,"landing_page_url":"https://www.ncbi.nlm.nih.gov/pmc/articles/3107813","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":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"BMC Bioinformatics","raw_type":"Text"}],"best_oa_location":{"id":"doi:10.1186/1471-2105-12-115","is_oa":true,"landing_page_url":"https://doi.org/10.1186/1471-2105-12-115","pdf_url":"https://bmcbioinformatics.biomedcentral.com/counter/pdf/10.1186/1471-2105-12-115","source":{"id":"https://openalex.org/S19032547","display_name":"BMC Bioinformatics","issn_l":"1471-2105","issn":["1471-2105"],"is_oa":true,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310320256","host_organization_name":"BioMed Central","host_organization_lineage":["https://openalex.org/P4310320256","https://openalex.org/P4310319965"],"host_organization_lineage_names":["BioMed Central","Springer Nature"],"type":"journal"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"BMC Bioinformatics","raw_type":"journal-article"},"sustainable_development_goals":[],"awards":[{"id":"https://openalex.org/G2512333561","display_name":null,"funder_award_id":"0903787","funder_id":"https://openalex.org/F4320338283","funder_display_name":"Office of Experimental Program to Stimulate Competitive Research"},{"id":"https://openalex.org/G4429118497","display_name":null,"funder_award_id":"EPS-0903787","funder_id":"https://openalex.org/F4320306114","funder_display_name":"U.S. Department of Agriculture"},{"id":"https://openalex.org/G4478365492","display_name":null,"funder_award_id":"EPS-0903787","funder_id":"https://openalex.org/F4320332161","funder_display_name":"National Institutes of Health"},{"id":"https://openalex.org/G5411396108","display_name":null,"funder_award_id":"EPS-0903787","funder_id":"https://openalex.org/F4320306076","funder_display_name":"National Science Foundation"},{"id":"https://openalex.org/G6805318589","display_name":null,"funder_award_id":"0903787","funder_id":"https://openalex.org/F4320306076","funder_display_name":"National Science Foundation"},{"id":"https://openalex.org/G7314163092","display_name":null,"funder_award_id":"EPS-0903787","funder_id":"https://openalex.org/F4320338283","funder_display_name":"Office of Experimental Program to Stimulate Competitive Research"}],"funders":[{"id":"https://openalex.org/F4320306076","display_name":"National Science Foundation","ror":"https://ror.org/021nxhr62"},{"id":"https://openalex.org/F4320306114","display_name":"U.S. Department of Agriculture","ror":"https://ror.org/01na82s61"},{"id":"https://openalex.org/F4320332161","display_name":"National Institutes of Health","ror":"https://ror.org/01cwqze88"},{"id":"https://openalex.org/F4320338283","display_name":"Office of Experimental Program to Stimulate Competitive Research","ror":"https://ror.org/04k9mqs78"}],"has_content":{"grobid_xml":true,"pdf":true},"content_urls":{"pdf":"https://content.openalex.org/works/W2171284068.pdf","grobid_xml":"https://content.openalex.org/works/W2171284068.grobid-xml"},"referenced_works_count":12,"referenced_works":["https://openalex.org/W201263205","https://openalex.org/W1991782483","https://openalex.org/W1992740075","https://openalex.org/W2003480590","https://openalex.org/W2019126169","https://openalex.org/W2021653707","https://openalex.org/W2039711645","https://openalex.org/W2068161803","https://openalex.org/W2093451145","https://openalex.org/W2099964107","https://openalex.org/W2110400205","https://openalex.org/W2149118168"],"related_works":["https://openalex.org/W2955310315","https://openalex.org/W2294108133","https://openalex.org/W2131807022","https://openalex.org/W1975798613","https://openalex.org/W2068600821","https://openalex.org/W2549951352","https://openalex.org/W2117510233","https://openalex.org/W2411238026","https://openalex.org/W2754860811","https://openalex.org/W4251119835"],"abstract_inverted_index":{"BACKGROUND:":[0],"High-throughput":[1],"mass":[2],"spectrometry":[3],"(MS)":[4],"proteomics":[5,219],"data":[6,27],"is":[7,207],"increasingly":[8],"being":[9],"used":[10],"to":[11,30,40,44,55,61,69,135,159,196,201,212],"complement":[12],"traditional":[13],"structural":[14,33],"genome":[15,34,47,119,162],"annotation":[16],"methods.":[17],"To":[18],"keep":[19],"pace":[20],"with":[21,84,138,170],"the":[22,53,98,133,185,199],"high":[23],"speed":[24],"of":[25,97,166,182,187],"experimental":[26],"generation":[28],"and":[29,50,79,110,175,206],"aid":[31],"in":[32,121],"annotation,":[35],"experimentally":[36,113],"observed":[37,114],"peptides":[38,115,157],"need":[39],"be":[41],"mapped":[42],"back":[43,158],"their":[45,71,160,202],"source":[46,161],"location":[48],"quickly":[49],"exactly.":[51],"Previously,":[52],"tools":[54],"do":[56,80],"this":[57],"have":[58],"been":[59],"limited":[60],"custom":[62],"scripts":[63],"designed":[64],"by":[65],"individual":[66],"research":[67,204],"groups":[68],"analyze":[70],"own":[72,203],"data,":[73],"are":[74],"generally":[75],"not":[76,81],"widely":[77],"available,":[78],"scale":[82,136],"well":[83,137],"large":[85],"eukaryotic":[86,140],"genomes.":[87],"RESULTS:":[88],"The":[89,129,147],"Proteogenomic":[90,148],"Mapping":[91,149],"Tool":[92,150],"includes":[93],"a":[94,117,152,164,180],"Java":[95,130],"implementation":[96,131],"Aho-Corasick":[99],"string":[100],"searching":[101],"algorithm":[102],"which":[103],"takes":[104],"as":[105],"input":[106],"standardized":[107],"file":[108],"types":[109],"rapidly":[111,178],"searches":[112],"against":[116],"given":[118],"translated":[120],"all":[122],"6":[123],"reading":[124],"frames":[125],"for":[126,155,179,191,209],"exact":[127],"matches.":[128],"allows":[132,194],"application":[134,154],"larger":[139],"genomes":[141,215],"while":[142],"providing":[143],"cross-platform":[144],"functionality.":[145],"CONCLUSIONS:":[146],"provides":[151],"standalone":[153],"mapping":[156],"on":[163],"number":[165],"operating":[167],"system":[168],"platforms":[169],"standard":[171],"desktop":[172],"computer":[173],"hardware":[174],"executes":[176],"very":[177],"variety":[181],"datasets.":[183],"Allowing":[184],"selection":[186],"different":[188,192],"genetic":[189],"codes":[190],"organisms":[193],"researchers":[195],"easily":[197],"customize":[198],"tool":[200],"interests":[205],"recommended":[208],"anyone":[210],"working":[211],"structurally":[213],"annotate":[214],"using":[216],"MS":[217],"derived":[218],"data.":[220]},"counts_by_year":[{"year":2024,"cited_by_count":1},{"year":2022,"cited_by_count":2},{"year":2021,"cited_by_count":2},{"year":2019,"cited_by_count":1},{"year":2018,"cited_by_count":4},{"year":2017,"cited_by_count":4},{"year":2016,"cited_by_count":6},{"year":2015,"cited_by_count":5},{"year":2014,"cited_by_count":3},{"year":2013,"cited_by_count":6},{"year":2012,"cited_by_count":4}],"updated_date":"2026-04-29T09:16:38.111599","created_date":"2025-10-10T00:00:00"}