{"id":"https://openalex.org/W2166491438","doi":"https://doi.org/10.1093/bioinformatics/btt642","title":"PTMTreeSearch: a novel two-stage tree-search algorithm with pruning rules for the identification of post-translational modification of proteins in MS/MS spectra","display_name":"PTMTreeSearch: a novel two-stage tree-search algorithm with pruning rules for the identification of post-translational modification of proteins in MS/MS spectra","publication_year":2013,"publication_date":"2013-11-08","ids":{"openalex":"https://openalex.org/W2166491438","doi":"https://doi.org/10.1093/bioinformatics/btt642","mag":"2166491438","pmid":"https://pubmed.ncbi.nlm.nih.gov/24215026"},"language":"en","primary_location":{"id":"doi:10.1093/bioinformatics/btt642","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bioinformatics/btt642","pdf_url":"https://academic.oup.com/bioinformatics/article-pdf/30/2/234/48914382/bioinformatics_30_2_234.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/30/2/234/48914382/bioinformatics_30_2_234.pdf","any_repository_has_fulltext":true},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5037717293","display_name":"Attila Kert\u00e9sz\u2010Farkas","orcid":"https://orcid.org/0000-0001-8110-7253"},"institutions":[{"id":"https://openalex.org/I2800351701","display_name":"HUN-REN Szegedi Biol\u00f3giai Kutat\u00f3k\u00f6zpont","ror":"https://ror.org/016gb1631","country_code":"HU","type":"facility","lineage":["https://openalex.org/I2800351701","https://openalex.org/I7597260"]},{"id":"https://openalex.org/I91080651","display_name":"International Centre for Genetic Engineering and Biotechnology","ror":"https://ror.org/043bgf219","country_code":"IT","type":"nonprofit","lineage":["https://openalex.org/I91080651"]}],"countries":["HU","IT"],"is_corresponding":false,"raw_author_name":"Attila Kert\u00e9sz-Farkas","raw_affiliation_strings":["1 Protein Structure and Bioinformatics Group, International Centre for Genetic Engineering and Biotechnology, AREA Research Park, 99 Padriciano, Trieste, Italy, 34149, 2Institute of Biophysics, Biological Research Centre, Temesvari krt. 62, H-6727 Szeged, Hungary, 3Protein Networks Group, International Centre for Genetic Engineering and Biotechnology, AREA Research Park, Padriciano 99, 34149 Trieste, Italy and 4Faculty of Information Technology, P\u00e1zm\u00e1ny P\u00e9ter Catholic University, Pr\u00e1ter u. 50/a, H-1083 Budapest, Hungary"],"affiliations":[{"raw_affiliation_string":"1 Protein Structure and Bioinformatics Group, International Centre for Genetic Engineering and Biotechnology, AREA Research Park, 99 Padriciano, Trieste, Italy, 34149, 2Institute of Biophysics, Biological Research Centre, Temesvari krt. 62, H-6727 Szeged, Hungary, 3Protein Networks Group, International Centre for Genetic Engineering and Biotechnology, AREA Research Park, Padriciano 99, 34149 Trieste, Italy and 4Faculty of Information Technology, P\u00e1zm\u00e1ny P\u00e9ter Catholic University, Pr\u00e1ter u. 50/a, H-1083 Budapest, Hungary","institution_ids":["https://openalex.org/I91080651","https://openalex.org/I2800351701"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5088860744","display_name":"Be\u00e1ta Reiz","orcid":null},"institutions":[{"id":"https://openalex.org/I2800351701","display_name":"HUN-REN Szegedi Biol\u00f3giai Kutat\u00f3k\u00f6zpont","ror":"https://ror.org/016gb1631","country_code":"HU","type":"facility","lineage":["https://openalex.org/I2800351701","https://openalex.org/I7597260"]},{"id":"https://openalex.org/I91080651","display_name":"International Centre for Genetic Engineering and Biotechnology","ror":"https://ror.org/043bgf219","country_code":"IT","type":"nonprofit","lineage":["https://openalex.org/I91080651"]}],"countries":["HU","IT"],"is_corresponding":false,"raw_author_name":"Be\u00e1ta Reiz","raw_affiliation_strings":["1 Protein Structure and Bioinformatics Group, International Centre for Genetic Engineering and Biotechnology, AREA Research Park, 99 Padriciano, Trieste, Italy, 34149, 2Institute of Biophysics, Biological Research Centre, Temesvari krt. 62, H-6727 Szeged, Hungary, 3Protein Networks Group, International Centre for Genetic Engineering and Biotechnology, AREA Research Park, Padriciano 99, 34149 Trieste, Italy and 4Faculty of Information Technology, P\u00e1zm\u00e1ny P\u00e9ter Catholic University, Pr\u00e1ter u. 50/a, H-1083 Budapest, Hungary"],"affiliations":[{"raw_affiliation_string":"1 Protein Structure and Bioinformatics Group, International Centre for Genetic Engineering and Biotechnology, AREA Research Park, 99 Padriciano, Trieste, Italy, 34149, 2Institute of Biophysics, Biological Research Centre, Temesvari krt. 62, H-6727 Szeged, Hungary, 3Protein Networks Group, International Centre for Genetic Engineering and Biotechnology, AREA Research Park, Padriciano 99, 34149 Trieste, Italy and 4Faculty of Information Technology, P\u00e1zm\u00e1ny P\u00e9ter Catholic University, Pr\u00e1ter u. 50/a, H-1083 Budapest, Hungary","institution_ids":["https://openalex.org/I91080651","https://openalex.org/I2800351701"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5081637994","display_name":"Roberto Vera Alvarez","orcid":"https://orcid.org/0000-0002-4108-5982"},"institutions":[{"id":"https://openalex.org/I2800351701","display_name":"HUN-REN Szegedi Biol\u00f3giai Kutat\u00f3k\u00f6zpont","ror":"https://ror.org/016gb1631","country_code":"HU","type":"facility","lineage":["https://openalex.org/I2800351701","https://openalex.org/I7597260"]},{"id":"https://openalex.org/I91080651","display_name":"International Centre for Genetic Engineering and Biotechnology","ror":"https://ror.org/043bgf219","country_code":"IT","type":"nonprofit","lineage":["https://openalex.org/I91080651"]}],"countries":["HU","IT"],"is_corresponding":false,"raw_author_name":"Roberto Vera","raw_affiliation_strings":["1 Protein Structure and Bioinformatics Group, International Centre for Genetic Engineering and Biotechnology, AREA Research Park, 99 Padriciano, Trieste, Italy, 34149, 2Institute of Biophysics, Biological Research Centre, Temesvari krt. 62, H-6727 Szeged, Hungary, 3Protein Networks Group, International Centre for Genetic Engineering and Biotechnology, AREA Research Park, Padriciano 99, 34149 Trieste, Italy and 4Faculty of Information Technology, P\u00e1zm\u00e1ny P\u00e9ter Catholic University, Pr\u00e1ter u. 50/a, H-1083 Budapest, Hungary"],"affiliations":[{"raw_affiliation_string":"1 Protein Structure and Bioinformatics Group, International Centre for Genetic Engineering and Biotechnology, AREA Research Park, 99 Padriciano, Trieste, Italy, 34149, 2Institute of Biophysics, Biological Research Centre, Temesvari krt. 62, H-6727 Szeged, Hungary, 3Protein Networks Group, International Centre for Genetic Engineering and Biotechnology, AREA Research Park, Padriciano 99, 34149 Trieste, Italy and 4Faculty of Information Technology, P\u00e1zm\u00e1ny P\u00e9ter Catholic University, Pr\u00e1ter u. 50/a, H-1083 Budapest, Hungary","institution_ids":["https://openalex.org/I91080651","https://openalex.org/I2800351701"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5006044124","display_name":"Michael P. Myers","orcid":null},"institutions":[{"id":"https://openalex.org/I2800351701","display_name":"HUN-REN Szegedi Biol\u00f3giai Kutat\u00f3k\u00f6zpont","ror":"https://ror.org/016gb1631","country_code":"HU","type":"facility","lineage":["https://openalex.org/I2800351701","https://openalex.org/I7597260"]},{"id":"https://openalex.org/I91080651","display_name":"International Centre for Genetic Engineering and Biotechnology","ror":"https://ror.org/043bgf219","country_code":"IT","type":"nonprofit","lineage":["https://openalex.org/I91080651"]}],"countries":["HU","IT"],"is_corresponding":false,"raw_author_name":"Michael P. Myers","raw_affiliation_strings":["1 Protein Structure and Bioinformatics Group, International Centre for Genetic Engineering and Biotechnology, AREA Research Park, 99 Padriciano, Trieste, Italy, 34149, 2Institute of Biophysics, Biological Research Centre, Temesvari krt. 62, H-6727 Szeged, Hungary, 3Protein Networks Group, International Centre for Genetic Engineering and Biotechnology, AREA Research Park, Padriciano 99, 34149 Trieste, Italy and 4Faculty of Information Technology, P\u00e1zm\u00e1ny P\u00e9ter Catholic University, Pr\u00e1ter u. 50/a, H-1083 Budapest, Hungary"],"affiliations":[{"raw_affiliation_string":"1 Protein Structure and Bioinformatics Group, International Centre for Genetic Engineering and Biotechnology, AREA Research Park, 99 Padriciano, Trieste, Italy, 34149, 2Institute of Biophysics, Biological Research Centre, Temesvari krt. 62, H-6727 Szeged, Hungary, 3Protein Networks Group, International Centre for Genetic Engineering and Biotechnology, AREA Research Park, Padriciano 99, 34149 Trieste, Italy and 4Faculty of Information Technology, P\u00e1zm\u00e1ny P\u00e9ter Catholic University, Pr\u00e1ter u. 50/a, H-1083 Budapest, Hungary","institution_ids":["https://openalex.org/I91080651","https://openalex.org/I2800351701"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5111912750","display_name":"S\u00e1ndor Pongor","orcid":null},"institutions":[{"id":"https://openalex.org/I2800351701","display_name":"HUN-REN Szegedi Biol\u00f3giai Kutat\u00f3k\u00f6zpont","ror":"https://ror.org/016gb1631","country_code":"HU","type":"facility","lineage":["https://openalex.org/I2800351701","https://openalex.org/I7597260"]},{"id":"https://openalex.org/I91080651","display_name":"International Centre for Genetic Engineering and Biotechnology","ror":"https://ror.org/043bgf219","country_code":"IT","type":"nonprofit","lineage":["https://openalex.org/I91080651"]}],"countries":["HU","IT"],"is_corresponding":true,"raw_author_name":"S\u00e1ndor Pongor","raw_affiliation_strings":["1 Protein Structure and Bioinformatics Group, International Centre for Genetic Engineering and Biotechnology, AREA Research Park, 99 Padriciano, Trieste, Italy, 34149, 2Institute of Biophysics, Biological Research Centre, Temesvari krt. 62, H-6727 Szeged, Hungary, 3Protein Networks Group, International Centre for Genetic Engineering and Biotechnology, AREA Research Park, Padriciano 99, 34149 Trieste, Italy and 4Faculty of Information Technology, P\u00e1zm\u00e1ny P\u00e9ter Catholic University, Pr\u00e1ter u. 50/a, H-1083 Budapest, Hungary"],"affiliations":[{"raw_affiliation_string":"1 Protein Structure and Bioinformatics Group, International Centre for Genetic Engineering and Biotechnology, AREA Research Park, 99 Padriciano, Trieste, Italy, 34149, 2Institute of Biophysics, Biological Research Centre, Temesvari krt. 62, H-6727 Szeged, Hungary, 3Protein Networks Group, International Centre for Genetic Engineering and Biotechnology, AREA Research Park, Padriciano 99, 34149 Trieste, Italy and 4Faculty of Information Technology, P\u00e1zm\u00e1ny P\u00e9ter Catholic University, Pr\u00e1ter u. 50/a, H-1083 Budapest, Hungary","institution_ids":["https://openalex.org/I91080651","https://openalex.org/I2800351701"]}]}],"institutions":[],"countries_distinct_count":2,"institutions_distinct_count":5,"corresponding_author_ids":["https://openalex.org/A5111912750"],"corresponding_institution_ids":["https://openalex.org/I2800351701","https://openalex.org/I91080651"],"apc_list":{"value":3618,"currency":"USD","value_usd":3618},"apc_paid":null,"fwci":0.6848,"has_fulltext":false,"cited_by_count":5,"citation_normalized_percentile":{"value":0.6865727,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":{"min":90,"max":97},"biblio":{"volume":"30","issue":"2","first_page":"234","last_page":"241"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T10519","display_name":"Advanced Proteomics Techniques and Applications","score":0.9998999834060669,"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/T10519","display_name":"Advanced Proteomics 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/T10683","display_name":"Mass Spectrometry Techniques and Applications","score":0.9994999766349792,"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/T10836","display_name":"Metabolomics and Mass Spectrometry Studies","score":0.9944999814033508,"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/pruning","display_name":"Pruning","score":0.8188884258270264},{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.785720705986023},{"id":"https://openalex.org/keywords/identification","display_name":"Identification (biology)","score":0.6204767823219299},{"id":"https://openalex.org/keywords/sequence-database","display_name":"Sequence database","score":0.6023030281066895},{"id":"https://openalex.org/keywords/set","display_name":"Set (abstract data type)","score":0.5870449542999268},{"id":"https://openalex.org/keywords/tree","display_name":"Tree (set theory)","score":0.5265788435935974},{"id":"https://openalex.org/keywords/database-search-engine","display_name":"Database search engine","score":0.5020556449890137},{"id":"https://openalex.org/keywords/algorithm","display_name":"Algorithm","score":0.48307111859321594},{"id":"https://openalex.org/keywords/posttranslational-modification","display_name":"Posttranslational modification","score":0.47710472345352173},{"id":"https://openalex.org/keywords/tandem-mass-spectrometry","display_name":"Tandem mass spectrometry","score":0.46562641859054565},{"id":"https://openalex.org/keywords/sequence","display_name":"Sequence (biology)","score":0.4521229565143585},{"id":"https://openalex.org/keywords/search-tree","display_name":"Search tree","score":0.42777228355407715},{"id":"https://openalex.org/keywords/construct","display_name":"Construct (python library)","score":0.41176167130470276},{"id":"https://openalex.org/keywords/data-mining","display_name":"Data mining","score":0.3943175673484802},{"id":"https://openalex.org/keywords/search-algorithm","display_name":"Search algorithm","score":0.38017159700393677},{"id":"https://openalex.org/keywords/search-engine","display_name":"Search engine","score":0.3682730197906494},{"id":"https://openalex.org/keywords/information-retrieval","display_name":"Information retrieval","score":0.15754160284996033},{"id":"https://openalex.org/keywords/mass-spectrometry","display_name":"Mass spectrometry","score":0.14514976739883423},{"id":"https://openalex.org/keywords/mathematics","display_name":"Mathematics","score":0.14511394500732422},{"id":"https://openalex.org/keywords/biology","display_name":"Biology","score":0.13067370653152466},{"id":"https://openalex.org/keywords/programming-language","display_name":"Programming language","score":0.11416465044021606},{"id":"https://openalex.org/keywords/chemistry","display_name":"Chemistry","score":0.10781818628311157}],"concepts":[{"id":"https://openalex.org/C108010975","wikidata":"https://www.wikidata.org/wiki/Q500094","display_name":"Pruning","level":2,"score":0.8188884258270264},{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.785720705986023},{"id":"https://openalex.org/C116834253","wikidata":"https://www.wikidata.org/wiki/Q2039217","display_name":"Identification (biology)","level":2,"score":0.6204767823219299},{"id":"https://openalex.org/C41584329","wikidata":"https://www.wikidata.org/wiki/Q175902","display_name":"Sequence database","level":3,"score":0.6023030281066895},{"id":"https://openalex.org/C177264268","wikidata":"https://www.wikidata.org/wiki/Q1514741","display_name":"Set (abstract data type)","level":2,"score":0.5870449542999268},{"id":"https://openalex.org/C113174947","wikidata":"https://www.wikidata.org/wiki/Q2859736","display_name":"Tree (set theory)","level":2,"score":0.5265788435935974},{"id":"https://openalex.org/C48000682","wikidata":"https://www.wikidata.org/wiki/Q5227411","display_name":"Database search engine","level":3,"score":0.5020556449890137},{"id":"https://openalex.org/C11413529","wikidata":"https://www.wikidata.org/wiki/Q8366","display_name":"Algorithm","level":1,"score":0.48307111859321594},{"id":"https://openalex.org/C100631289","wikidata":"https://www.wikidata.org/wiki/Q898362","display_name":"Posttranslational modification","level":3,"score":0.47710472345352173},{"id":"https://openalex.org/C31827203","wikidata":"https://www.wikidata.org/wiki/Q874296","display_name":"Tandem mass spectrometry","level":3,"score":0.46562641859054565},{"id":"https://openalex.org/C2778112365","wikidata":"https://www.wikidata.org/wiki/Q3511065","display_name":"Sequence (biology)","level":2,"score":0.4521229565143585},{"id":"https://openalex.org/C207024777","wikidata":"https://www.wikidata.org/wiki/Q621673","display_name":"Search tree","level":3,"score":0.42777228355407715},{"id":"https://openalex.org/C2780801425","wikidata":"https://www.wikidata.org/wiki/Q5164392","display_name":"Construct (python library)","level":2,"score":0.41176167130470276},{"id":"https://openalex.org/C124101348","wikidata":"https://www.wikidata.org/wiki/Q172491","display_name":"Data mining","level":1,"score":0.3943175673484802},{"id":"https://openalex.org/C125583679","wikidata":"https://www.wikidata.org/wiki/Q755673","display_name":"Search algorithm","level":2,"score":0.38017159700393677},{"id":"https://openalex.org/C97854310","wikidata":"https://www.wikidata.org/wiki/Q19541","display_name":"Search engine","level":2,"score":0.3682730197906494},{"id":"https://openalex.org/C23123220","wikidata":"https://www.wikidata.org/wiki/Q816826","display_name":"Information retrieval","level":1,"score":0.15754160284996033},{"id":"https://openalex.org/C162356407","wikidata":"https://www.wikidata.org/wiki/Q180809","display_name":"Mass spectrometry","level":2,"score":0.14514976739883423},{"id":"https://openalex.org/C33923547","wikidata":"https://www.wikidata.org/wiki/Q395","display_name":"Mathematics","level":0,"score":0.14511394500732422},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.13067370653152466},{"id":"https://openalex.org/C199360897","wikidata":"https://www.wikidata.org/wiki/Q9143","display_name":"Programming language","level":1,"score":0.11416465044021606},{"id":"https://openalex.org/C185592680","wikidata":"https://www.wikidata.org/wiki/Q2329","display_name":"Chemistry","level":0,"score":0.10781818628311157},{"id":"https://openalex.org/C59822182","wikidata":"https://www.wikidata.org/wiki/Q441","display_name":"Botany","level":1,"score":0.0},{"id":"https://openalex.org/C134306372","wikidata":"https://www.wikidata.org/wiki/Q7754","display_name":"Mathematical analysis","level":1,"score":0.0},{"id":"https://openalex.org/C55493867","wikidata":"https://www.wikidata.org/wiki/Q7094","display_name":"Biochemistry","level":1,"score":0.0},{"id":"https://openalex.org/C6557445","wikidata":"https://www.wikidata.org/wiki/Q173113","display_name":"Agronomy","level":1,"score":0.0},{"id":"https://openalex.org/C104317684","wikidata":"https://www.wikidata.org/wiki/Q7187","display_name":"Gene","level":2,"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/C43617362","wikidata":"https://www.wikidata.org/wiki/Q170050","display_name":"Chromatography","level":1,"score":0.0},{"id":"https://openalex.org/C181199279","wikidata":"https://www.wikidata.org/wiki/Q8047","display_name":"Enzyme","level":2,"score":0.0}],"mesh":[{"descriptor_ui":"D000465","descriptor_name":"Algorithms","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D000465","descriptor_name":"Algorithms","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D000465","descriptor_name":"Algorithms","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D006801","descriptor_name":"Humans","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D006801","descriptor_name":"Humans","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D006801","descriptor_name":"Humans","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D010446","descriptor_name":"Peptide Fragments","qualifier_ui":"Q000032","qualifier_name":"analysis","is_major_topic":false},{"descriptor_ui":"D010446","descriptor_name":"Peptide Fragments","qualifier_ui":"Q000032","qualifier_name":"analysis","is_major_topic":false},{"descriptor_ui":"D010446","descriptor_name":"Peptide Fragments","qualifier_ui":"Q000032","qualifier_name":"analysis","is_major_topic":false},{"descriptor_ui":"D011499","descriptor_name":"Protein Processing, Post-Translational","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D011499","descriptor_name":"Protein Processing, Post-Translational","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D011499","descriptor_name":"Protein Processing, Post-Translational","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D011506","descriptor_name":"Proteins","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":false},{"descriptor_ui":"D011506","descriptor_name":"Proteins","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":false},{"descriptor_ui":"D011506","descriptor_name":"Proteins","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":false},{"descriptor_ui":"D011506","descriptor_name":"Proteins","qualifier_ui":"Q000737","qualifier_name":"chemistry","is_major_topic":false},{"descriptor_ui":"D011506","descriptor_name":"Proteins","qualifier_ui":"Q000737","qualifier_name":"chemistry","is_major_topic":false},{"descriptor_ui":"D011506","descriptor_name":"Proteins","qualifier_ui":"Q000737","qualifier_name":"chemistry","is_major_topic":false},{"descriptor_ui":"D012984","descriptor_name":"Software","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D012984","descriptor_name":"Software","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D012984","descriptor_name":"Software","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D019295","descriptor_name":"Computational Biology","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D019295","descriptor_name":"Computational Biology","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D019295","descriptor_name":"Computational Biology","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":3,"locations":[{"id":"doi:10.1093/bioinformatics/btt642","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bioinformatics/btt642","pdf_url":"https://academic.oup.com/bioinformatics/article-pdf/30/2/234/48914382/bioinformatics_30_2_234.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:24215026","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/24215026","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:zenodo.org:100779","is_oa":true,"landing_page_url":"https://www.openaccessrepository.it/record/100779","pdf_url":null,"source":{"id":"https://openalex.org/S4306402478","display_name":"INFM-OAR (INFN Catania)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I4210116497","host_organization_name":"Istituto Nazionale di Fisica Nucleare, Sezione di Catania","host_organization_lineage":["https://openalex.org/I4210116497"],"host_organization_lineage_names":[],"type":"repository"},"license":"other-oa","license_id":"https://openalex.org/licenses/other-oa","version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"","raw_type":"info:eu-repo/semantics/article"}],"best_oa_location":{"id":"doi:10.1093/bioinformatics/btt642","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bioinformatics/btt642","pdf_url":"https://academic.oup.com/bioinformatics/article-pdf/30/2/234/48914382/bioinformatics_30_2_234.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":[],"awards":[],"funders":[],"has_content":{"grobid_xml":true,"pdf":true},"content_urls":{"pdf":"https://content.openalex.org/works/W2166491438.pdf","grobid_xml":"https://content.openalex.org/works/W2166491438.grobid-xml"},"referenced_works_count":59,"referenced_works":["https://openalex.org/W94340303","https://openalex.org/W278754083","https://openalex.org/W1784695092","https://openalex.org/W1963989877","https://openalex.org/W1966831909","https://openalex.org/W1969483458","https://openalex.org/W1987445292","https://openalex.org/W1999751815","https://openalex.org/W2003781119","https://openalex.org/W2022080991","https://openalex.org/W2023040274","https://openalex.org/W2023096047","https://openalex.org/W2029900321","https://openalex.org/W2030598149","https://openalex.org/W2031095666","https://openalex.org/W2034645824","https://openalex.org/W2047275456","https://openalex.org/W2048249425","https://openalex.org/W2048552782","https://openalex.org/W2050065024","https://openalex.org/W2051795211","https://openalex.org/W2054353708","https://openalex.org/W2059572899","https://openalex.org/W2062706447","https://openalex.org/W2063493461","https://openalex.org/W2068016108","https://openalex.org/W2080258378","https://openalex.org/W2082044494","https://openalex.org/W2086987611","https://openalex.org/W2088899342","https://openalex.org/W2096057003","https://openalex.org/W2101128616","https://openalex.org/W2109691687","https://openalex.org/W2110065044","https://openalex.org/W2113381588","https://openalex.org/W2114958077","https://openalex.org/W2116063068","https://openalex.org/W2130447268","https://openalex.org/W2130488902","https://openalex.org/W2130706354","https://openalex.org/W2132811240","https://openalex.org/W2134604442","https://openalex.org/W2134968830","https://openalex.org/W2141415922","https://openalex.org/W2145361425","https://openalex.org/W2147698768","https://openalex.org/W2147788028","https://openalex.org/W2151797643","https://openalex.org/W2160777680","https://openalex.org/W2163078532","https://openalex.org/W2164698543","https://openalex.org/W2171938017","https://openalex.org/W2322958071","https://openalex.org/W2912283112","https://openalex.org/W2921629193","https://openalex.org/W6679352456","https://openalex.org/W6681217416","https://openalex.org/W6681726713","https://openalex.org/W6683665396"],"related_works":["https://openalex.org/W1510682440","https://openalex.org/W2383524940","https://openalex.org/W2387514770","https://openalex.org/W2014706981","https://openalex.org/W2367502800","https://openalex.org/W2533169899","https://openalex.org/W2350822473","https://openalex.org/W4220790513","https://openalex.org/W2089790232","https://openalex.org/W2166491438"],"abstract_inverted_index":{"The":[0],"source":[1],"code":[2],"of":[3],"PTMTreeSearch":[4],"and":[5],"a":[6],"demo":[7],"server":[8],"application":[9],"can":[10],"be":[11],"found":[12],"at":[13],"http://net.icgeb.org/ptmtreesearch":[14]},"counts_by_year":[{"year":2017,"cited_by_count":1},{"year":2016,"cited_by_count":3},{"year":2014,"cited_by_count":1}],"updated_date":"2026-04-17T18:11:37.981687","created_date":"2025-10-10T00:00:00"}
