{"id":"https://openalex.org/W3044455202","doi":"https://doi.org/10.1145/3311790.3400853","title":"TopPIC Gateway: A Web Gateway for Top-Down Mass Spectrometry Data Interpretation","display_name":"TopPIC Gateway: A Web Gateway for Top-Down Mass Spectrometry Data Interpretation","publication_year":2020,"publication_date":"2020-07-22","ids":{"openalex":"https://openalex.org/W3044455202","doi":"https://doi.org/10.1145/3311790.3400853","mag":"3044455202","pmid":"https://pubmed.ncbi.nlm.nih.gov/35615582"},"language":"en","primary_location":{"id":"doi:10.1145/3311790.3400853","is_oa":false,"landing_page_url":"https://doi.org/10.1145/3311790.3400853","pdf_url":null,"source":{"id":"https://openalex.org/S4306523034","display_name":"Practice and Experience in Advanced Research Computing","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":true,"host_organization":null,"host_organization_name":null,"host_organization_lineage":[],"host_organization_lineage_names":[],"type":"journal"},"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Practice and Experience in Advanced Research Computing","raw_type":"proceedings-article"},"type":"conference-paper","indexed_in":["crossref","pubmed"],"open_access":{"is_oa":true,"oa_status":"green","oa_url":"https://www.ncbi.nlm.nih.gov/pmc/articles/9128478","any_repository_has_fulltext":true},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5101622014","display_name":"In Kwon Choi","orcid":"https://orcid.org/0000-0003-1242-0099"},"institutions":[{"id":"https://openalex.org/I55769427","display_name":"Indiana University \u2013 Purdue University Indianapolis","ror":"https://ror.org/05gxnyn08","country_code":"US","type":"education","lineage":["https://openalex.org/I55769427","https://openalex.org/I592451"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"In Kwon Choi","raw_affiliation_strings":["Indiana University:Purdue University Indianapolis, USA"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Indiana University:Purdue University Indianapolis, USA","institution_ids":["https://openalex.org/I55769427"]}]},{"author_position":"middle","author":{"id":null,"display_name":"Eroma Abeysinghe","orcid":null},"institutions":[{"id":"https://openalex.org/I592451","display_name":"Indiana University","ror":"https://ror.org/01kg8sb98","country_code":"US","type":"education","lineage":["https://openalex.org/I592451"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Eroma Abeysinghe","raw_affiliation_strings":["Indiana University, USA"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Indiana University, USA","institution_ids":["https://openalex.org/I592451"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5112460137","display_name":"Eric Coulter","orcid":null},"institutions":[{"id":"https://openalex.org/I592451","display_name":"Indiana University","ror":"https://ror.org/01kg8sb98","country_code":"US","type":"education","lineage":["https://openalex.org/I592451"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Eric Coulter","raw_affiliation_strings":["Indiana University, USA"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Indiana University, USA","institution_ids":["https://openalex.org/I592451"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5037778136","display_name":"Suresh Marru","orcid":"https://orcid.org/0000-0002-6374-095X"},"institutions":[{"id":"https://openalex.org/I592451","display_name":"Indiana University","ror":"https://ror.org/01kg8sb98","country_code":"US","type":"education","lineage":["https://openalex.org/I592451"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Suresh Marru","raw_affiliation_strings":["Indiana University, USA"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Indiana University, USA","institution_ids":["https://openalex.org/I592451"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5082786549","display_name":"Marlon Pierce","orcid":"https://orcid.org/0000-0002-9582-5712"},"institutions":[{"id":"https://openalex.org/I592451","display_name":"Indiana University","ror":"https://ror.org/01kg8sb98","country_code":"US","type":"education","lineage":["https://openalex.org/I592451"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Marlon Pierce","raw_affiliation_strings":["Indiana University, USA"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Indiana University, USA","institution_ids":["https://openalex.org/I592451"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5100437902","display_name":"Xiaowen Liu","orcid":"https://orcid.org/0000-0003-4139-1127"},"institutions":[{"id":"https://openalex.org/I55769427","display_name":"Indiana University \u2013 Purdue University Indianapolis","ror":"https://ror.org/05gxnyn08","country_code":"US","type":"education","lineage":["https://openalex.org/I55769427","https://openalex.org/I592451"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Xiaowen Liu","raw_affiliation_strings":["Indiana University:Purdue University Indianapolis, USA"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Indiana University:Purdue University Indianapolis, USA","institution_ids":["https://openalex.org/I55769427"]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":2,"corresponding_author_ids":[],"corresponding_institution_ids":[],"apc_list":null,"apc_paid":null,"fwci":3.061,"has_fulltext":false,"cited_by_count":2,"citation_normalized_percentile":{"value":0.89517625,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":{"min":94,"max":96},"biblio":{"volume":"2020","issue":null,"first_page":"461","last_page":"464"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T10519","display_name":"Advanced Proteomics Techniques and Applications","score":0.9998000264167786,"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":0.9998000264167786,"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":0.9957000017166138,"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/T10683","display_name":"Mass Spectrometry Techniques and Applications","score":0.9955999851226807,"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"}}],"keywords":[{"id":"https://openalex.org/keywords/gateway","display_name":"Gateway (web page)","score":0.8391098976135254},{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.7865376472473145},{"id":"https://openalex.org/keywords/suite","display_name":"Suite","score":0.7656902074813843},{"id":"https://openalex.org/keywords/cloud-computing","display_name":"Cloud computing","score":0.6292684078216553},{"id":"https://openalex.org/keywords/software","display_name":"Software","score":0.5623290538787842},{"id":"https://openalex.org/keywords/resource","display_name":"Resource (disambiguation)","score":0.5253015160560608},{"id":"https://openalex.org/keywords/software-suite","display_name":"Software suite","score":0.4641948938369751},{"id":"https://openalex.org/keywords/world-wide-web","display_name":"World Wide Web","score":0.336651086807251},{"id":"https://openalex.org/keywords/operating-system","display_name":"Operating system","score":0.23835328221321106},{"id":"https://openalex.org/keywords/computer-network","display_name":"Computer network","score":0.1928117275238037}],"concepts":[{"id":"https://openalex.org/C2777710495","wikidata":"https://www.wikidata.org/wiki/Q5527195","display_name":"Gateway (web page)","level":2,"score":0.8391098976135254},{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.7865376472473145},{"id":"https://openalex.org/C79581498","wikidata":"https://www.wikidata.org/wiki/Q1367530","display_name":"Suite","level":2,"score":0.7656902074813843},{"id":"https://openalex.org/C79974875","wikidata":"https://www.wikidata.org/wiki/Q483639","display_name":"Cloud computing","level":2,"score":0.6292684078216553},{"id":"https://openalex.org/C2777904410","wikidata":"https://www.wikidata.org/wiki/Q7397","display_name":"Software","level":2,"score":0.5623290538787842},{"id":"https://openalex.org/C206345919","wikidata":"https://www.wikidata.org/wiki/Q20380951","display_name":"Resource (disambiguation)","level":2,"score":0.5253015160560608},{"id":"https://openalex.org/C2778736646","wikidata":"https://www.wikidata.org/wiki/Q1143070","display_name":"Software suite","level":3,"score":0.4641948938369751},{"id":"https://openalex.org/C136764020","wikidata":"https://www.wikidata.org/wiki/Q466","display_name":"World Wide Web","level":1,"score":0.336651086807251},{"id":"https://openalex.org/C111919701","wikidata":"https://www.wikidata.org/wiki/Q9135","display_name":"Operating system","level":1,"score":0.23835328221321106},{"id":"https://openalex.org/C31258907","wikidata":"https://www.wikidata.org/wiki/Q1301371","display_name":"Computer network","level":1,"score":0.1928117275238037},{"id":"https://openalex.org/C95457728","wikidata":"https://www.wikidata.org/wiki/Q309","display_name":"History","level":0,"score":0.0},{"id":"https://openalex.org/C166957645","wikidata":"https://www.wikidata.org/wiki/Q23498","display_name":"Archaeology","level":1,"score":0.0}],"mesh":[],"locations_count":3,"locations":[{"id":"doi:10.1145/3311790.3400853","is_oa":false,"landing_page_url":"https://doi.org/10.1145/3311790.3400853","pdf_url":null,"source":{"id":"https://openalex.org/S4306523034","display_name":"Practice and Experience in Advanced Research Computing","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":true,"host_organization":null,"host_organization_name":null,"host_organization_lineage":[],"host_organization_lineage_names":[],"type":"journal"},"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Practice and Experience in Advanced Research Computing","raw_type":"proceedings-article"},{"id":"pmid:35615582","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/35615582","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":"PEARC20 : Practice and Experience in Advanced Research Computing 2020 : Catch the wave : July 27-31, 2020, Portland, Or Virtual Conference. Practice and Experience in Advanced Research Computing (Conference) (2020 : Online)","raw_type":null},{"id":"pmh:oai:pubmedcentral.nih.gov:9128478","is_oa":true,"landing_page_url":"https://www.ncbi.nlm.nih.gov/pmc/articles/9128478","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":null,"license_id":null,"version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"PEARC20 (2020)","raw_type":"Text"}],"best_oa_location":{"id":"pmh:oai:pubmedcentral.nih.gov:9128478","is_oa":true,"landing_page_url":"https://www.ncbi.nlm.nih.gov/pmc/articles/9128478","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":null,"license_id":null,"version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"PEARC20 (2020)","raw_type":"Text"},"sustainable_development_goals":[{"display_name":"Industry, innovation and infrastructure","id":"https://metadata.un.org/sdg/9","score":0.41999998688697815}],"awards":[{"id":"https://openalex.org/G219979627","display_name":"Administrative and Data Management Core","funder_award_id":"3u54ag065181-05s1","funder_id":"https://openalex.org/F4320332161","funder_display_name":"National Institutes of Health"},{"id":"https://openalex.org/G2506161245","display_name":null,"funder_award_id":"R01 GM118470","funder_id":"https://openalex.org/F4320337354","funder_display_name":"National Institute of General Medical Sciences"},{"id":"https://openalex.org/G3270224250","display_name":null,"funder_award_id":"U54AG065181,R01GM118470","funder_id":"https://openalex.org/F4320337373","funder_display_name":"Center for Information Technology"},{"id":"https://openalex.org/G3665008154","display_name":"COMPUTATIONAL TOOLS FOR PROTEOFORM IDENTIFICATION BY TOP-DOWNDATA INDEPENDENT ACQUISITION MASS SPECTROMETRY","funder_award_id":"5r01gm118470-09","funder_id":"https://openalex.org/F4320332161","funder_display_name":"National Institutes of Health"},{"id":"https://openalex.org/G540769836","display_name":null,"funder_award_id":"U54 AG065181","funder_id":"https://openalex.org/F4320337337","funder_display_name":"National Institute on Aging"}],"funders":[{"id":"https://openalex.org/F4320332161","display_name":"National Institutes of Health","ror":"https://ror.org/01cwqze88"},{"id":"https://openalex.org/F4320337337","display_name":"National Institute on Aging","ror":"https://ror.org/049v75w11"},{"id":"https://openalex.org/F4320337354","display_name":"National Institute of General Medical Sciences","ror":"https://ror.org/04q48ey07"},{"id":"https://openalex.org/F4320337373","display_name":"Center for Information Technology","ror":"https://ror.org/03jh5a977"}],"has_content":{"grobid_xml":false,"pdf":false},"content_urls":null,"referenced_works_count":20,"referenced_works":["https://openalex.org/W1508404489","https://openalex.org/W1899011294","https://openalex.org/W1981132421","https://openalex.org/W2001818158","https://openalex.org/W2023096047","https://openalex.org/W2025955263","https://openalex.org/W2089375051","https://openalex.org/W2129154270","https://openalex.org/W2424385274","https://openalex.org/W2462197865","https://openalex.org/W2562897054","https://openalex.org/W2725432521","https://openalex.org/W2731648980","https://openalex.org/W2783149164","https://openalex.org/W2857907774","https://openalex.org/W2880001313","https://openalex.org/W2910154982","https://openalex.org/W2964680656","https://openalex.org/W2975931408","https://openalex.org/W2979463162"],"related_works":["https://openalex.org/W4231704780","https://openalex.org/W1516095885","https://openalex.org/W2158573927","https://openalex.org/W2108921801","https://openalex.org/W4206079007","https://openalex.org/W2398058485","https://openalex.org/W254965819","https://openalex.org/W4205365843","https://openalex.org/W3156231268","https://openalex.org/W3101967630"],"abstract_inverted_index":{"Top-down":[0],"mass":[1,39,79],"spectrometry-based":[2],"proteomics":[3,94],"has":[4],"become":[5],"the":[6,51],"method":[7],"of":[8,33,57],"choice":[9],"for":[10,24,37,77,93],"identifying":[11],"and":[12,46,69,96],"quantifying":[13],"intact":[14],"proteoforms":[15],"in":[16],"biological":[17],"samples.":[18],"We":[19],"present":[20],"a":[21,27,90],"web-based":[22],"gateway":[23,49,87],"TopPIC":[25,84],"suite,":[26],"widely":[28],"used":[29],"software":[30,35],"suite":[31],"consisting":[32],"four":[34],"tools":[36],"top-down":[38,78],"spectrometry":[40],"data":[41,81],"interpretation:":[42],"TopFD,":[43],"TopPIC,":[44],"TopMG,":[45],"TopDiff.":[47],"The":[48,86],"enables":[50],"community":[52],"to":[53,102],"use":[54],"heterogeneous":[55],"collection":[56],"computing":[58,64,104],"resources":[59,105],"that":[60],"includes":[61],"high":[62],"performance":[63],"clusters":[65,71],"at":[66],"Indiana":[67],"University":[68],"virtual":[70],"on":[72],"XSEDE's":[73],"Jetstream":[74],"Cloud":[75],"resource":[76,92],"spectral":[80],"analysis":[82],"using":[83],"suite.":[85],"will":[88],"be":[89],"useful":[91],"researchers":[95],"students":[97],"who":[98,107],"have":[99],"limited":[100],"access":[101],"high-performance":[103],"or":[106],"are":[108],"not":[109],"familiar":[110],"with":[111,113],"interacting":[112],"server-side":[114],"supercomputers.":[115]},"counts_by_year":[{"year":2023,"cited_by_count":2}],"updated_date":"2026-08-06T08:24:18.245995","created_date":"2025-10-10T00:00:00"}
