{"id":"https://openalex.org/W2170416222","doi":"https://doi.org/10.1093/bioinformatics/bts703","title":"Glycosylation Network Analysis Toolbox: a MATLAB-based environment for systems glycobiology","display_name":"Glycosylation Network Analysis Toolbox: a MATLAB-based environment for systems glycobiology","publication_year":2012,"publication_date":"2012-12-10","ids":{"openalex":"https://openalex.org/W2170416222","doi":"https://doi.org/10.1093/bioinformatics/bts703","mag":"2170416222","pmid":"https://pubmed.ncbi.nlm.nih.gov/23230149"},"language":"en","primary_location":{"id":"doi:10.1093/bioinformatics/bts703","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bioinformatics/bts703","pdf_url":"https://academic.oup.com/bioinformatics/article-pdf/29/3/404/48894124/bioinformatics_29_3_404.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/29/3/404/48894124/bioinformatics_29_3_404.pdf","any_repository_has_fulltext":false},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5100412471","display_name":"Gang Liu","orcid":"https://orcid.org/0000-0002-9475-5134"},"institutions":[{"id":"https://openalex.org/I63190737","display_name":"University at Buffalo, State University of New York","ror":"https://ror.org/01y64my43","country_code":"US","type":"education","lineage":["https://openalex.org/I63190737"]}],"countries":["US"],"is_corresponding":true,"raw_author_name":"Gang Liu","raw_affiliation_strings":["1 Department of Chemical and Biological Engineering and 2The NY State Center for Excellence in Bioinformatics and Life Sciences, State University of New York, Buffalo, NY 14260, USA"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"1 Department of Chemical and Biological Engineering and 2The NY State Center for Excellence in Bioinformatics and Life Sciences, State University of New York, Buffalo, NY 14260, USA","institution_ids":["https://openalex.org/I63190737"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5083820586","display_name":"Apurv Puri","orcid":null},"institutions":[{"id":"https://openalex.org/I63190737","display_name":"University at Buffalo, State University of New York","ror":"https://ror.org/01y64my43","country_code":"US","type":"education","lineage":["https://openalex.org/I63190737"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Apurv Puri","raw_affiliation_strings":["1 Department of Chemical and Biological Engineering and 2The NY State Center for Excellence in Bioinformatics and Life Sciences, State University of New York, Buffalo, NY 14260, USA"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"1 Department of Chemical and Biological Engineering and 2The NY State Center for Excellence in Bioinformatics and Life Sciences, State University of New York, Buffalo, NY 14260, USA","institution_ids":["https://openalex.org/I63190737"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5054244721","display_name":"Sriram Neelamegham","orcid":"https://orcid.org/0000-0002-1371-8500"},"institutions":[{"id":"https://openalex.org/I63190737","display_name":"University at Buffalo, State University of New York","ror":"https://ror.org/01y64my43","country_code":"US","type":"education","lineage":["https://openalex.org/I63190737"]}],"countries":["US"],"is_corresponding":true,"raw_author_name":"Sriram Neelamegham","raw_affiliation_strings":["1 Department of Chemical and Biological Engineering and 2The NY State Center for Excellence in Bioinformatics and Life Sciences, State University of New York, Buffalo, NY 14260, USA"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"1 Department of Chemical and Biological Engineering and 2The NY State Center for Excellence in Bioinformatics and Life Sciences, State University of New York, Buffalo, NY 14260, USA","institution_ids":["https://openalex.org/I63190737"]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":1,"corresponding_author_ids":["https://openalex.org/A5054244721","https://openalex.org/A5100412471"],"corresponding_institution_ids":["https://openalex.org/I63190737"],"apc_list":{"value":3618,"currency":"USD","value_usd":3618},"apc_paid":null,"fwci":0.5297,"has_fulltext":true,"cited_by_count":35,"citation_normalized_percentile":{"value":0.66265667,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":{"min":89,"max":98},"biblio":{"volume":"29","issue":"3","first_page":"404","last_page":"406"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T10602","display_name":"Glycosylation and Glycoproteins Research","score":0.9218999743461609,"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/T10602","display_name":"Glycosylation and Glycoproteins Research","score":0.9218999743461609,"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/T12688","display_name":"Microbial metabolism and enzyme function","score":0.017999999225139618,"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/T10932","display_name":"Microbial Metabolic Engineering and Bioproduction","score":0.013000000268220901,"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/glycobiology","display_name":"Glycobiology","score":0.9258906841278076},{"id":"https://openalex.org/keywords/toolbox","display_name":"Toolbox","score":0.7487534284591675},{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.686108410358429},{"id":"https://openalex.org/keywords/glycosylation","display_name":"Glycosylation","score":0.6692715287208557},{"id":"https://openalex.org/keywords/matlab","display_name":"MATLAB","score":0.5210187435150146},{"id":"https://openalex.org/keywords/computational-biology","display_name":"Computational biology","score":0.4353674054145813},{"id":"https://openalex.org/keywords/software-engineering","display_name":"Software engineering","score":0.32084769010543823},{"id":"https://openalex.org/keywords/chemistry","display_name":"Chemistry","score":0.2619798183441162},{"id":"https://openalex.org/keywords/programming-language","display_name":"Programming language","score":0.25779902935028076},{"id":"https://openalex.org/keywords/glycan","display_name":"Glycan","score":0.1776713728904724},{"id":"https://openalex.org/keywords/biology","display_name":"Biology","score":0.17234578728675842},{"id":"https://openalex.org/keywords/biochemistry","display_name":"Biochemistry","score":0.16526013612747192},{"id":"https://openalex.org/keywords/glycoprotein","display_name":"Glycoprotein","score":0.12781932950019836}],"concepts":[{"id":"https://openalex.org/C204641814","wikidata":"https://www.wikidata.org/wiki/Q899224","display_name":"Glycobiology","level":4,"score":0.9258906841278076},{"id":"https://openalex.org/C2777655017","wikidata":"https://www.wikidata.org/wiki/Q1501161","display_name":"Toolbox","level":2,"score":0.7487534284591675},{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.686108410358429},{"id":"https://openalex.org/C2777313579","wikidata":"https://www.wikidata.org/wiki/Q898365","display_name":"Glycosylation","level":2,"score":0.6692715287208557},{"id":"https://openalex.org/C2780365114","wikidata":"https://www.wikidata.org/wiki/Q169478","display_name":"MATLAB","level":2,"score":0.5210187435150146},{"id":"https://openalex.org/C70721500","wikidata":"https://www.wikidata.org/wiki/Q177005","display_name":"Computational biology","level":1,"score":0.4353674054145813},{"id":"https://openalex.org/C115903868","wikidata":"https://www.wikidata.org/wiki/Q80993","display_name":"Software engineering","level":1,"score":0.32084769010543823},{"id":"https://openalex.org/C185592680","wikidata":"https://www.wikidata.org/wiki/Q2329","display_name":"Chemistry","level":0,"score":0.2619798183441162},{"id":"https://openalex.org/C199360897","wikidata":"https://www.wikidata.org/wiki/Q9143","display_name":"Programming language","level":1,"score":0.25779902935028076},{"id":"https://openalex.org/C206212055","wikidata":"https://www.wikidata.org/wiki/Q2553138","display_name":"Glycan","level":3,"score":0.1776713728904724},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.17234578728675842},{"id":"https://openalex.org/C55493867","wikidata":"https://www.wikidata.org/wiki/Q7094","display_name":"Biochemistry","level":1,"score":0.16526013612747192},{"id":"https://openalex.org/C108625454","wikidata":"https://www.wikidata.org/wiki/Q187126","display_name":"Glycoprotein","level":2,"score":0.12781932950019836}],"mesh":[{"descriptor_ui":"D006031","descriptor_name":"Glycosylation","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D006031","descriptor_name":"Glycosylation","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D006031","descriptor_name":"Glycosylation","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D011134","descriptor_name":"Polysaccharides","qualifier_ui":"Q000737","qualifier_name":"chemistry","is_major_topic":false},{"descriptor_ui":"D011134","descriptor_name":"Polysaccharides","qualifier_ui":"Q000737","qualifier_name":"chemistry","is_major_topic":false},{"descriptor_ui":"D011134","descriptor_name":"Polysaccharides","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":"D049490","descriptor_name":"Systems Biology","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D049490","descriptor_name":"Systems Biology","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D049490","descriptor_name":"Systems Biology","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D054794","descriptor_name":"Glycomics","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D054794","descriptor_name":"Glycomics","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D054794","descriptor_name":"Glycomics","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D062126","descriptor_name":"Databases, Chemical","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D062126","descriptor_name":"Databases, Chemical","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D062126","descriptor_name":"Databases, Chemical","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false}],"locations_count":3,"locations":[{"id":"doi:10.1093/bioinformatics/bts703","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bioinformatics/bts703","pdf_url":"https://academic.oup.com/bioinformatics/article-pdf/29/3/404/48894124/bioinformatics_29_3_404.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:23230149","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/23230149","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:europepmc.org:2892621","is_oa":false,"landing_page_url":"https://www.ncbi.nlm.nih.gov/pmc/articles/3562062","pdf_url":null,"source":{"id":"https://openalex.org/S4306400806","display_name":"Europe PMC (PubMed Central)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I1303153112","host_organization_name":"European Bioinformatics Institute","host_organization_lineage":["https://openalex.org/I1303153112"],"host_organization_lineage_names":[],"type":"repository"},"license":null,"license_id":null,"version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":null,"raw_type":"Text"}],"best_oa_location":{"id":"doi:10.1093/bioinformatics/bts703","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bioinformatics/bts703","pdf_url":"https://academic.oup.com/bioinformatics/article-pdf/29/3/404/48894124/bioinformatics_29_3_404.pdf","source":{"id":"https://openalex.org/S52395412","display_name":"Bioinformatics","issn_l":"1367-4803","issn":["1367-4803","1367-4811"],"is_oa":false,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310311648","host_organization_name":"Oxford University Press","host_organization_lineage":["https://openalex.org/P4310311648","https://openalex.org/P4310311647"],"host_organization_lineage_names":["Oxford University Press","University of Oxford"],"type":"journal"},"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Bioinformatics","raw_type":"journal-article"},"sustainable_development_goals":[{"score":0.41999998688697815,"id":"https://metadata.un.org/sdg/9","display_name":"Industry, innovation and infrastructure"}],"awards":[{"id":"https://openalex.org/G1098948129","display_name":null,"funder_award_id":"R01 HL103411","funder_id":"https://openalex.org/F4320337338","funder_display_name":"National Heart, Lung, and Blood Institute"},{"id":"https://openalex.org/G2421118050","display_name":null,"funder_award_id":"HL103411","funder_id":"https://openalex.org/F4320337338","funder_display_name":"National Heart, Lung, and Blood Institute"},{"id":"https://openalex.org/G2725070594","display_name":null,"funder_award_id":"P01 HL107146","funder_id":"https://openalex.org/F4320337338","funder_display_name":"National Heart, Lung, and Blood Institute"},{"id":"https://openalex.org/G4828684533","display_name":null,"funder_award_id":"HL107146","funder_id":"https://openalex.org/F4320332161","funder_display_name":"National Institutes of Health"},{"id":"https://openalex.org/G6041813789","display_name":null,"funder_award_id":"HL103411","funder_id":"https://openalex.org/F4320332161","funder_display_name":"National Institutes of Health"},{"id":"https://openalex.org/G8588361313","display_name":null,"funder_award_id":"HL107146","funder_id":"https://openalex.org/F4320337338","funder_display_name":"National Heart, Lung, and Blood Institute"},{"id":"https://openalex.org/G8980778423","display_name":null,"funder_award_id":"R01 HL063014","funder_id":"https://openalex.org/F4320337338","funder_display_name":"National Heart, Lung, and Blood Institute"}],"funders":[{"id":"https://openalex.org/F4320332161","display_name":"National Institutes of Health","ror":"https://ror.org/01cwqze88"},{"id":"https://openalex.org/F4320337338","display_name":"National Heart, Lung, and Blood Institute","ror":"https://ror.org/012pb6c26"}],"has_content":{"grobid_xml":true,"pdf":true},"content_urls":{"pdf":"https://content.openalex.org/works/W2170416222.pdf","grobid_xml":"https://content.openalex.org/works/W2170416222.grobid-xml"},"referenced_works_count":10,"referenced_works":["https://openalex.org/W1990147844","https://openalex.org/W2102281287","https://openalex.org/W2124450302","https://openalex.org/W2129817935","https://openalex.org/W2137128504","https://openalex.org/W2147118358","https://openalex.org/W2150908245","https://openalex.org/W2160650963","https://openalex.org/W2163508159","https://openalex.org/W2167301307"],"related_works":["https://openalex.org/W4205140848","https://openalex.org/W2068663075","https://openalex.org/W3004995273","https://openalex.org/W3126673474","https://openalex.org/W2978678743","https://openalex.org/W2377984624","https://openalex.org/W2348740175","https://openalex.org/W4243049533","https://openalex.org/W2372487761","https://openalex.org/W2342104405"],"abstract_inverted_index":{"UNLABELLED:":[0],"Systems":[1],"glycobiology":[2],"studies":[3],"the":[4,18],"interaction":[5],"of":[6,22,55,75,90],"various":[7],"pathways":[8,24],"that":[9,37,67],"regulate":[10],"glycan":[11,57],"biosynthesis":[12],"and":[13,20,46,49,73,82,92,95,110],"function.":[14],"Software":[15],"tools":[16],"for":[17],"construction":[19],"analysis":[21],"such":[23],"are":[25,98,112],"not":[26],"yet":[27],"available.":[28],"We":[29],"present":[30],"GNAT,":[31],"a":[32],"platform-independent,":[33],"user-extensible":[34],"MATLAB-based":[35],"toolbox":[36],"provides":[38],"an":[39],"integrated":[40],"computational":[41],"environment":[42],"to":[43],"construct,":[44],"manipulate":[45],"simulate":[47],"glycans":[48],"their":[50,93],"networks.":[51,71],"It":[52],"enables":[53],"integration":[54],"XML-based":[56],"structure":[58],"data":[59],"into":[60],"SBML":[61],"(Systems":[62],"Biology":[63],"Markup":[64],"Language)":[65],"files":[66],"describe":[68],"glycosylation":[69],"reaction":[70],"Curation":[72],"manipulation":[74],"networks":[76,91],"is":[77],"facilitated":[78],"using":[79],"class":[80],"definitions":[81],"glycomics":[83],"database":[84],"query":[85],"tools.":[86],"High":[87],"quality":[88],"visualization":[89],"steady-state":[94],"dynamic":[96],"simulation":[97],"also":[99],"supported.":[100],"AVAILABILITY:":[101],"The":[102],"software":[103],"package":[104],"including":[105],"source":[106],"code,":[107],"help":[108],"documentation":[109],"demonstrations":[111],"available":[113],"at":[114],"http://sourceforge.net/projects/gnatmatlab/files/.":[115]},"counts_by_year":[{"year":2026,"cited_by_count":1},{"year":2025,"cited_by_count":1},{"year":2024,"cited_by_count":6},{"year":2023,"cited_by_count":1},{"year":2022,"cited_by_count":5},{"year":2021,"cited_by_count":3},{"year":2020,"cited_by_count":4},{"year":2019,"cited_by_count":1},{"year":2017,"cited_by_count":5},{"year":2016,"cited_by_count":4},{"year":2015,"cited_by_count":1},{"year":2014,"cited_by_count":2},{"year":2013,"cited_by_count":1}],"updated_date":"2026-06-16T07:32:37.131356","created_date":"2025-10-10T00:00:00"}