{"id":"https://openalex.org/W3114526652","doi":"https://doi.org/10.1109/access.2020.3047588","title":"Methods for Proteogenomics Data Analysis, Challenges, and Scalability Bottlenecks: A Survey","display_name":"Methods for Proteogenomics Data Analysis, Challenges, and Scalability Bottlenecks: A Survey","publication_year":2020,"publication_date":"2020-12-25","ids":{"openalex":"https://openalex.org/W3114526652","doi":"https://doi.org/10.1109/access.2020.3047588","mag":"3114526652","pmid":"https://pubmed.ncbi.nlm.nih.gov/33537181"},"language":"en","primary_location":{"id":"doi:10.1109/access.2020.3047588","is_oa":true,"landing_page_url":"https://doi.org/10.1109/access.2020.3047588","pdf_url":"https://ieeexplore.ieee.org/ielx7/6287639/9312710/09309010.pdf","source":{"id":"https://openalex.org/S2485537415","display_name":"IEEE Access","issn_l":"2169-3536","issn":["2169-3536"],"is_oa":true,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310319808","host_organization_name":"Institute of Electrical and Electronics Engineers","host_organization_lineage":["https://openalex.org/P4310319808"],"host_organization_lineage_names":["Institute of Electrical and Electronics Engineers"],"type":"journal"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"IEEE Access","raw_type":"journal-article"},"type":"article","indexed_in":["crossref","doaj","pubmed"],"open_access":{"is_oa":true,"oa_status":"gold","oa_url":"https://ieeexplore.ieee.org/ielx7/6287639/9312710/09309010.pdf","any_repository_has_fulltext":true},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5101942028","display_name":"Muhammad Usman Tariq","orcid":"https://orcid.org/0000-0003-4643-3875"},"institutions":[{"id":"https://openalex.org/I19700959","display_name":"Florida International University","ror":"https://ror.org/02gz6gg07","country_code":"US","type":"education","lineage":["https://openalex.org/I19700959"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Muhammad Usman Tariq","raw_affiliation_strings":["School of Computing and Information Sciences, Florida International University, Miami, FL 33199, USA","School of Computing and Information Sciences, Florida International University, Miami, FL, USA"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"School of Computing and Information Sciences, Florida International University, Miami, FL 33199, USA","institution_ids":["https://openalex.org/I19700959"]},{"raw_affiliation_string":"School of Computing and Information Sciences, Florida International University, Miami, FL, USA","institution_ids":["https://openalex.org/I19700959"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5082182788","display_name":"Muhammad Haseeb","orcid":"https://orcid.org/0000-0002-0697-6894"},"institutions":[{"id":"https://openalex.org/I19700959","display_name":"Florida International University","ror":"https://ror.org/02gz6gg07","country_code":"US","type":"education","lineage":["https://openalex.org/I19700959"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Muhammad Haseeb","raw_affiliation_strings":["School of Computing and Information Sciences, Florida International University, Miami, FL 33199, USA","School of Computing and Information Sciences, Florida International University, Miami, FL, USA"],"raw_orcid":"https://orcid.org/0000-0002-0697-6894","affiliations":[{"raw_affiliation_string":"School of Computing and Information Sciences, Florida International University, Miami, FL 33199, USA","institution_ids":["https://openalex.org/I19700959"]},{"raw_affiliation_string":"School of Computing and Information Sciences, Florida International University, Miami, FL, USA","institution_ids":["https://openalex.org/I19700959"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5034854700","display_name":"Mohammed Aledhari","orcid":"https://orcid.org/0000-0002-5380-6003"},"institutions":[{"id":"https://openalex.org/I172980758","display_name":"Kennesaw State University","ror":"https://ror.org/00jeqjx33","country_code":"US","type":"education","lineage":["https://openalex.org/I172980758"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Mohammed Aledhari","raw_affiliation_strings":["College of Computing and Software Engineering, Kennesaw State University, Marietta, GA 30060, USA","College of Computing and Software Engineering, Kennesaw State University, Marietta, GA, USA"],"raw_orcid":"https://orcid.org/0000-0002-5380-6003","affiliations":[{"raw_affiliation_string":"College of Computing and Software Engineering, Kennesaw State University, Marietta, GA 30060, USA","institution_ids":["https://openalex.org/I172980758"]},{"raw_affiliation_string":"College of Computing and Software Engineering, Kennesaw State University, Marietta, GA, USA","institution_ids":["https://openalex.org/I172980758"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5030247822","display_name":"Rehma Razzak","orcid":"https://orcid.org/0000-0002-5301-8955"},"institutions":[{"id":"https://openalex.org/I172980758","display_name":"Kennesaw State University","ror":"https://ror.org/00jeqjx33","country_code":"US","type":"education","lineage":["https://openalex.org/I172980758"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Rehma Razzak","raw_affiliation_strings":["College of Computing and Software Engineering, Kennesaw State University, Marietta, GA 30060, USA","College of Computing and Software Engineering, Kennesaw State University, Marietta, GA, USA"],"raw_orcid":"https://orcid.org/0000-0002-5301-8955","affiliations":[{"raw_affiliation_string":"College of Computing and Software Engineering, Kennesaw State University, Marietta, GA 30060, USA","institution_ids":["https://openalex.org/I172980758"]},{"raw_affiliation_string":"College of Computing and Software Engineering, Kennesaw State University, Marietta, GA, USA","institution_ids":["https://openalex.org/I172980758"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5087589295","display_name":"Reza M. Parizi","orcid":"https://orcid.org/0000-0002-0049-4296"},"institutions":[{"id":"https://openalex.org/I172980758","display_name":"Kennesaw State University","ror":"https://ror.org/00jeqjx33","country_code":"US","type":"education","lineage":["https://openalex.org/I172980758"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Reza M. Parizi","raw_affiliation_strings":["College of Computing and Software Engineering, Kennesaw State University, Marietta, GA 30060, USA","College of Computing and Software Engineering, Kennesaw State University, Marietta, GA, USA"],"raw_orcid":"https://orcid.org/0000-0002-0049-4296","affiliations":[{"raw_affiliation_string":"College of Computing and Software Engineering, Kennesaw State University, Marietta, GA 30060, USA","institution_ids":["https://openalex.org/I172980758"]},{"raw_affiliation_string":"College of Computing and Software Engineering, Kennesaw State University, Marietta, GA, USA","institution_ids":["https://openalex.org/I172980758"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5102729196","display_name":"Fahad Saeed","orcid":"https://orcid.org/0000-0002-3410-9552"},"institutions":[{"id":"https://openalex.org/I19700959","display_name":"Florida International University","ror":"https://ror.org/02gz6gg07","country_code":"US","type":"education","lineage":["https://openalex.org/I19700959"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Fahad Saeed","raw_affiliation_strings":["School of Computing and Information Sciences, Florida International University, Miami, FL 33199, USA","School of Computing and Information Sciences, Florida International University, Miami, FL, USA"],"raw_orcid":"https://orcid.org/0000-0002-3410-9552","affiliations":[{"raw_affiliation_string":"School of Computing and Information Sciences, Florida International University, Miami, FL 33199, USA","institution_ids":["https://openalex.org/I19700959"]},{"raw_affiliation_string":"School of Computing and Information Sciences, Florida International University, Miami, FL, USA","institution_ids":["https://openalex.org/I19700959"]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":6,"corresponding_author_ids":[],"corresponding_institution_ids":[],"apc_list":{"value":1850,"currency":"USD","value_usd":1850},"apc_paid":{"value":1850,"currency":"USD","value_usd":1850},"fwci":1.6926,"has_fulltext":true,"cited_by_count":28,"citation_normalized_percentile":{"value":0.8342393,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":{"min":94,"max":99},"biblio":{"volume":"9","issue":null,"first_page":"5497","last_page":"5516"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T10519","display_name":"Advanced Proteomics Techniques and Applications","score":0.9995999932289124,"subfield":{"id":"https://openalex.org/subfields/1607","display_name":"Spectroscopy"},"field":{"id":"https://openalex.org/fields/16","display_name":"Chemistry"},"domain":{"id":"https://openalex.org/domains/3","display_name":"Physical Sciences"}},"topics":[{"id":"https://openalex.org/T10519","display_name":"Advanced Proteomics Techniques and Applications","score":0.9995999932289124,"subfield":{"id":"https://openalex.org/subfields/1607","display_name":"Spectroscopy"},"field":{"id":"https://openalex.org/fields/16","display_name":"Chemistry"},"domain":{"id":"https://openalex.org/domains/3","display_name":"Physical Sciences"}},{"id":"https://openalex.org/T10836","display_name":"Metabolomics and Mass Spectrometry Studies","score":0.9980999827384949,"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/T10015","display_name":"Genomics and Phylogenetic Studies","score":0.9966999888420105,"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/proteogenomics","display_name":"Proteogenomics","score":0.9668673872947693},{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.8177759647369385},{"id":"https://openalex.org/keywords/scalability","display_name":"Scalability","score":0.7468727827072144},{"id":"https://openalex.org/keywords/big-data","display_name":"Big data","score":0.6071823835372925},{"id":"https://openalex.org/keywords/workflow","display_name":"Workflow","score":0.49464985728263855},{"id":"https://openalex.org/keywords/proteomics","display_name":"Proteomics","score":0.4868318438529968},{"id":"https://openalex.org/keywords/genomics","display_name":"Genomics","score":0.4767480790615082},{"id":"https://openalex.org/keywords/process","display_name":"Process (computing)","score":0.44227513670921326},{"id":"https://openalex.org/keywords/computational-biology","display_name":"Computational biology","score":0.394076406955719},{"id":"https://openalex.org/keywords/genome","display_name":"Genome","score":0.3888357877731323},{"id":"https://openalex.org/keywords/data-science","display_name":"Data science","score":0.38325464725494385},{"id":"https://openalex.org/keywords/data-mining","display_name":"Data mining","score":0.37487471103668213},{"id":"https://openalex.org/keywords/database","display_name":"Database","score":0.265717089176178},{"id":"https://openalex.org/keywords/biology","display_name":"Biology","score":0.13003677129745483}],"concepts":[{"id":"https://openalex.org/C145741570","wikidata":"https://www.wikidata.org/wiki/Q7251534","display_name":"Proteogenomics","level":5,"score":0.9668673872947693},{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.8177759647369385},{"id":"https://openalex.org/C48044578","wikidata":"https://www.wikidata.org/wiki/Q727490","display_name":"Scalability","level":2,"score":0.7468727827072144},{"id":"https://openalex.org/C75684735","wikidata":"https://www.wikidata.org/wiki/Q858810","display_name":"Big data","level":2,"score":0.6071823835372925},{"id":"https://openalex.org/C177212765","wikidata":"https://www.wikidata.org/wiki/Q627335","display_name":"Workflow","level":2,"score":0.49464985728263855},{"id":"https://openalex.org/C46111723","wikidata":"https://www.wikidata.org/wiki/Q471857","display_name":"Proteomics","level":3,"score":0.4868318438529968},{"id":"https://openalex.org/C189206191","wikidata":"https://www.wikidata.org/wiki/Q222046","display_name":"Genomics","level":4,"score":0.4767480790615082},{"id":"https://openalex.org/C98045186","wikidata":"https://www.wikidata.org/wiki/Q205663","display_name":"Process (computing)","level":2,"score":0.44227513670921326},{"id":"https://openalex.org/C70721500","wikidata":"https://www.wikidata.org/wiki/Q177005","display_name":"Computational biology","level":1,"score":0.394076406955719},{"id":"https://openalex.org/C141231307","wikidata":"https://www.wikidata.org/wiki/Q7020","display_name":"Genome","level":3,"score":0.3888357877731323},{"id":"https://openalex.org/C2522767166","wikidata":"https://www.wikidata.org/wiki/Q2374463","display_name":"Data science","level":1,"score":0.38325464725494385},{"id":"https://openalex.org/C124101348","wikidata":"https://www.wikidata.org/wiki/Q172491","display_name":"Data mining","level":1,"score":0.37487471103668213},{"id":"https://openalex.org/C77088390","wikidata":"https://www.wikidata.org/wiki/Q8513","display_name":"Database","level":1,"score":0.265717089176178},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.13003677129745483},{"id":"https://openalex.org/C111919701","wikidata":"https://www.wikidata.org/wiki/Q9135","display_name":"Operating system","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/C55493867","wikidata":"https://www.wikidata.org/wiki/Q7094","display_name":"Biochemistry","level":1,"score":0.0}],"mesh":[],"locations_count":5,"locations":[{"id":"doi:10.1109/access.2020.3047588","is_oa":true,"landing_page_url":"https://doi.org/10.1109/access.2020.3047588","pdf_url":"https://ieeexplore.ieee.org/ielx7/6287639/9312710/09309010.pdf","source":{"id":"https://openalex.org/S2485537415","display_name":"IEEE Access","issn_l":"2169-3536","issn":["2169-3536"],"is_oa":true,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310319808","host_organization_name":"Institute of Electrical and Electronics Engineers","host_organization_lineage":["https://openalex.org/P4310319808"],"host_organization_lineage_names":["Institute of Electrical and Electronics Engineers"],"type":"journal"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"IEEE Access","raw_type":"journal-article"},{"id":"pmid:33537181","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/33537181","pdf_url":null,"source":{"id":"https://openalex.org/S4306525036","display_name":"PubMed","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I1299303238","host_organization_name":"National Institutes of Health","host_organization_lineage":["https://openalex.org/I1299303238"],"host_organization_lineage_names":[],"type":"repository"},"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"IEEE access : practical innovations, open solutions","raw_type":null},{"id":"pmh:oai:digitalcommons.kennesaw.edu:facpubs-6156","is_oa":false,"landing_page_url":"https://digitalcommons.kennesaw.edu/facpubs/5000","pdf_url":null,"source":{"id":"https://openalex.org/S4377196456","display_name":"DigitalCommons - Kennesaw State University (Kennesaw State University)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I172980758","host_organization_name":"Kennesaw State University","host_organization_lineage":["https://openalex.org/I172980758"],"host_organization_lineage_names":[],"type":"repository"},"license":null,"license_id":null,"version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"Faculty Articles","raw_type":"text"},{"id":"pmh:oai:doaj.org/article:c0f8574a8ff64b949a36eef5a93f9b57","is_oa":true,"landing_page_url":"https://doaj.org/article/c0f8574a8ff64b949a36eef5a93f9b57","pdf_url":null,"source":{"id":"https://openalex.org/S4306401280","display_name":"DOAJ (DOAJ: Directory of Open Access Journals)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":null,"host_organization_name":null,"host_organization_lineage":[],"host_organization_lineage_names":[],"type":"repository"},"license":"cc-by-sa","license_id":"https://openalex.org/licenses/cc-by-sa","version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"IEEE Access, Vol 9, Pp 5497-5516 (2021)","raw_type":"article"},{"id":"pmh:oai:pubmedcentral.nih.gov:7853650","is_oa":true,"landing_page_url":"https://www.ncbi.nlm.nih.gov/pmc/articles/7853650","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":"IEEE Access","raw_type":"Text"}],"best_oa_location":{"id":"doi:10.1109/access.2020.3047588","is_oa":true,"landing_page_url":"https://doi.org/10.1109/access.2020.3047588","pdf_url":"https://ieeexplore.ieee.org/ielx7/6287639/9312710/09309010.pdf","source":{"id":"https://openalex.org/S2485537415","display_name":"IEEE Access","issn_l":"2169-3536","issn":["2169-3536"],"is_oa":true,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310319808","host_organization_name":"Institute of Electrical and Electronics Engineers","host_organization_lineage":["https://openalex.org/P4310319808"],"host_organization_lineage_names":["Institute of Electrical and Electronics Engineers"],"type":"journal"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"IEEE Access","raw_type":"journal-article"},"sustainable_development_goals":[],"awards":[{"id":"https://openalex.org/G3984346783","display_name":null,"funder_award_id":"OAC 1925960","funder_id":"https://openalex.org/F4320306076","funder_display_name":"National Science Foundation"},{"id":"https://openalex.org/G4555316915","display_name":null,"funder_award_id":"R01GM134384","funder_id":"https://openalex.org/F4320332161","funder_display_name":"National Institutes of Health"},{"id":"https://openalex.org/G6221148523","display_name":null,"funder_award_id":"R01 GM134384","funder_id":"https://openalex.org/F4320337354","funder_display_name":"National Institute of General Medical Sciences"},{"id":"https://openalex.org/G6671297155","display_name":null,"funder_award_id":"CAREER","funder_id":"https://openalex.org/F4320306076","funder_display_name":"National Science Foundation"},{"id":"https://openalex.org/G6792757867","display_name":null,"funder_award_id":"R01GM134384","funder_id":"https://openalex.org/F4320337354","funder_display_name":"National Institute of General Medical Sciences"},{"id":"https://openalex.org/G8549540667","display_name":"CAREER: Towards Fast and Scalable Algorithms for Big Proteogenomics Data Analytics","funder_award_id":"1925960","funder_id":"https://openalex.org/F4320306076","funder_display_name":"National Science Foundation"}],"funders":[{"id":"https://openalex.org/F4320306076","display_name":"National Science Foundation","ror":"https://ror.org/021nxhr62"},{"id":"https://openalex.org/F4320332161","display_name":"National Institutes of Health","ror":"https://ror.org/01cwqze88"},{"id":"https://openalex.org/F4320337354","display_name":"National Institute of General Medical Sciences","ror":"https://ror.org/04q48ey07"}],"has_content":{"pdf":true,"grobid_xml":true},"content_urls":{"pdf":"https://content.openalex.org/works/W3114526652.pdf","grobid_xml":"https://content.openalex.org/works/W3114526652.grobid-xml"},"referenced_works_count":225,"referenced_works":["https://openalex.org/W53594632","https://openalex.org/W381649575","https://openalex.org/W1480858518","https://openalex.org/W1501473470","https://openalex.org/W1553575840","https://openalex.org/W1558516755","https://openalex.org/W1567286985","https://openalex.org/W1577446317","https://openalex.org/W1607051143","https://openalex.org/W1935529429","https://openalex.org/W1956110712","https://openalex.org/W1964194772","https://openalex.org/W1964443249","https://openalex.org/W1966822396","https://openalex.org/W1968044788","https://openalex.org/W1971887998","https://openalex.org/W1973051173","https://openalex.org/W1975450451","https://openalex.org/W1975798613","https://openalex.org/W1976217821","https://openalex.org/W1976287380","https://openalex.org/W1976797410","https://openalex.org/W1977790981","https://openalex.org/W1978275829","https://openalex.org/W1978941223","https://openalex.org/W1981098361","https://openalex.org/W1981558659","https://openalex.org/W1981593008","https://openalex.org/W1982185581","https://openalex.org/W1983291888","https://openalex.org/W1984450835","https://openalex.org/W1984566266","https://openalex.org/W1986060649","https://openalex.org/W1988810589","https://openalex.org/W1988929438","https://openalex.org/W1989299822","https://openalex.org/W1990937720","https://openalex.org/W1991502938","https://openalex.org/W1991694145","https://openalex.org/W1994660369","https://openalex.org/W1995693931","https://openalex.org/W1996701734","https://openalex.org/W1997246534","https://openalex.org/W1997839167","https://openalex.org/W1998295756","https://openalex.org/W1999751815","https://openalex.org/W2002452099","https://openalex.org/W2003463139","https://openalex.org/W2004515150","https://openalex.org/W2008317045","https://openalex.org/W2011354186","https://openalex.org/W2014200075","https://openalex.org/W2014201551","https://openalex.org/W2014344192","https://openalex.org/W2017636423","https://openalex.org/W2018126724","https://openalex.org/W2020101499","https://openalex.org/W2020103130","https://openalex.org/W2020973783","https://openalex.org/W2023655541","https://openalex.org/W2023911006","https://openalex.org/W2024668145","https://openalex.org/W2025583382","https://openalex.org/W2026433130","https://openalex.org/W2026465178","https://openalex.org/W2028673251","https://openalex.org/W2031764625","https://openalex.org/W2033107146","https://openalex.org/W2033292629","https://openalex.org/W2035283832","https://openalex.org/W2036321220","https://openalex.org/W2038615001","https://openalex.org/W2039997444","https://openalex.org/W2041020482","https://openalex.org/W2042328527","https://openalex.org/W2045117578","https://openalex.org/W2047275456","https://openalex.org/W2051009737","https://openalex.org/W2051064077","https://openalex.org/W2051367768","https://openalex.org/W2052388444","https://openalex.org/W2052877141","https://openalex.org/W2053943711","https://openalex.org/W2057323233","https://openalex.org/W2058135122","https://openalex.org/W2060872060","https://openalex.org/W2063282826","https://openalex.org/W2068016108","https://openalex.org/W2068161803","https://openalex.org/W2068199476","https://openalex.org/W2070574247","https://openalex.org/W2075036506","https://openalex.org/W2076151007","https://openalex.org/W2076852968","https://openalex.org/W2078117585","https://openalex.org/W2079733254","https://openalex.org/W2079843936","https://openalex.org/W2082044279","https://openalex.org/W2084540302","https://openalex.org/W2088267098","https://openalex.org/W2094910305","https://openalex.org/W2095650214","https://openalex.org/W2097420863","https://openalex.org/W2097635389","https://openalex.org/W2099015198","https://openalex.org/W2099314206","https://openalex.org/W2102572519","https://openalex.org/W2103441770","https://openalex.org/W2103718154","https://openalex.org/W2103726776","https://openalex.org/W2104373803","https://openalex.org/W2109463754","https://openalex.org/W2112078820","https://openalex.org/W2115501618","https://openalex.org/W2118544454","https://openalex.org/W2120048439","https://openalex.org/W2124985265","https://openalex.org/W2125043293","https://openalex.org/W2126450798","https://openalex.org/W2127379559","https://openalex.org/W2127407003","https://openalex.org/W2129730522","https://openalex.org/W2130429766","https://openalex.org/W2130706354","https://openalex.org/W2131806062","https://openalex.org/W2135078307","https://openalex.org/W2137957056","https://openalex.org/W2138270253","https://openalex.org/W2138745251","https://openalex.org/W2138832989","https://openalex.org/W2139608682","https://openalex.org/W2142331971","https://openalex.org/W2143801239","https://openalex.org/W2144054945","https://openalex.org/W2146188580","https://openalex.org/W2150893146","https://openalex.org/W2151188405","https://openalex.org/W2153885469","https://openalex.org/W2158135404","https://openalex.org/W2158272257","https://openalex.org/W2159725359","https://openalex.org/W2160556205","https://openalex.org/W2160777680","https://openalex.org/W2160969485","https://openalex.org/W2163078532","https://openalex.org/W2168909179","https://openalex.org/W2171475724","https://openalex.org/W2171970660","https://openalex.org/W2179747797","https://openalex.org/W2194477621","https://openalex.org/W2207277820","https://openalex.org/W2212342797","https://openalex.org/W2212804909","https://openalex.org/W2239179888","https://openalex.org/W2269102739","https://openalex.org/W2293199826","https://openalex.org/W2305332353","https://openalex.org/W2321144071","https://openalex.org/W2327886352","https://openalex.org/W2330828906","https://openalex.org/W2403906864","https://openalex.org/W2411756201","https://openalex.org/W2429135500","https://openalex.org/W2465480251","https://openalex.org/W2484254102","https://openalex.org/W2535799347","https://openalex.org/W2538143681","https://openalex.org/W2566649003","https://openalex.org/W2592570088","https://openalex.org/W2603081759","https://openalex.org/W2607310450","https://openalex.org/W2728534204","https://openalex.org/W2729724577","https://openalex.org/W2736151189","https://openalex.org/W2736859409","https://openalex.org/W2755251026","https://openalex.org/W2755804176","https://openalex.org/W2768087917","https://openalex.org/W2788228074","https://openalex.org/W2789843538","https://openalex.org/W2793208063","https://openalex.org/W2801006204","https://openalex.org/W2807248405","https://openalex.org/W2887566220","https://openalex.org/W2894727674","https://openalex.org/W2900820755","https://openalex.org/W2903819617","https://openalex.org/W2916192076","https://openalex.org/W2918401251","https://openalex.org/W2930099314","https://openalex.org/W2937143321","https://openalex.org/W2941052365","https://openalex.org/W2945525532","https://openalex.org/W2947763854","https://openalex.org/W2947784859","https://openalex.org/W2949278902","https://openalex.org/W2950101967","https://openalex.org/W2950354111","https://openalex.org/W2950804227","https://openalex.org/W2953131540","https://openalex.org/W2959428074","https://openalex.org/W2960326819","https://openalex.org/W2968156700","https://openalex.org/W2970571774","https://openalex.org/W2980266835","https://openalex.org/W2981119379","https://openalex.org/W2992976869","https://openalex.org/W3003896859","https://openalex.org/W3008401039","https://openalex.org/W3022783334","https://openalex.org/W3090870634","https://openalex.org/W3100417409","https://openalex.org/W3212100218","https://openalex.org/W4237832766","https://openalex.org/W4243977291","https://openalex.org/W4245955616","https://openalex.org/W4255164188","https://openalex.org/W4285719527","https://openalex.org/W4287659530","https://openalex.org/W6656636295","https://openalex.org/W6697200464","https://openalex.org/W6698034700","https://openalex.org/W6749203160","https://openalex.org/W6761849724","https://openalex.org/W6783822721"],"related_works":["https://openalex.org/W4399671710","https://openalex.org/W2184473026","https://openalex.org/W4317567415","https://openalex.org/W4236949517","https://openalex.org/W2184120357","https://openalex.org/W2126088744","https://openalex.org/W2366576702","https://openalex.org/W3148091054","https://openalex.org/W1516026788","https://openalex.org/W4224313187"],"abstract_inverted_index":{"Big":[0],"Data":[1],"Proteogenomics":[2],"lies":[3],"at":[4],"the":[5,42,48,66,81,107,110,165,185,195,214,219],"intersection":[6],"of":[7,25,45,55,83,90,109,135,142,153,164,188,198,206,221],"high-throughput":[8,28],"Mass":[9],"Spectrometry":[10],"(MS)":[11],"based":[12,18],"proteomics":[13],"and":[14,22,37,79,169,178],"Next":[15],"Generation":[16],"Sequencing":[17],"genomics.":[19],"The":[20],"combined":[21],"integrated":[23,46],"analysis":[24,105,163],"these":[26,189],"two":[27],"technologies":[29],"can":[30,123,156,181],"help":[31],"discover":[32],"novel":[33],"proteins":[34,64],"using":[35],"genomic,":[36],"transcriptomic":[38],"data.":[39,200],"Due":[40],"to":[41,65,130,191,217],"biological":[43],"significance":[44],"analysis,":[47],"recent":[49],"past":[50],"has":[51],"seen":[52],"an":[53,150],"influx":[54],"proteogenomic":[56,103,158,199,225],"tools":[57,92,122,154],"that":[58,99,155,180],"perform":[59],"various":[60],"tasks,":[61],"including":[62],"mapping":[63],"genomic":[67],"data,":[68],"searching":[69],"experimental":[70],"MS":[71],"spectra":[72,138],"against":[73,139],"a":[74,116,128,132,140,161,204],"six-frame":[75],"translation":[76],"genome":[77,85,141],"database,":[78],"automating":[80],"process":[82,131],"annotating":[84],"sequences.":[86],"To":[87],"date,":[88],"most":[89],"such":[91],"have":[93],"not":[94],"focused":[95],"on":[96],"scalability":[97,193,220],"issues":[98],"are":[100],"inherent":[101],"in":[102,184],"data":[104,224,226],"where":[106],"size":[108,197],"database":[111],"is":[112],"much":[113],"larger":[114],"than":[115,126],"typical":[117],"protein":[118],"database.":[119],"These":[120],"state-of-the-art":[121],"take":[124],"more":[125],"half":[127],"month":[129],"small-scale":[133],"dataset":[134],"one":[136],"million":[137],"3":[143],"GB.":[144],"In":[145],"this":[146],"article,":[147],"we":[148,202],"provide":[149],"up-to-date":[151],"review":[152],"analyze":[157],"datasets,":[159],"providing":[160],"critical":[162],"techniques'":[166],"relative":[167],"merits":[168],"potential":[170,176],"pitfalls.":[171],"We":[172],"also":[173],"point":[174],"out":[175],"bottlenecks":[177],"recommendations":[179],"be":[182,213],"incorporated":[183],"future":[186,222],"design":[187],"workflows":[190],"ensure":[192,218],"with":[194],"increasing":[196],"Lastly,":[201],"make":[203],"case":[205],"how":[207],"high-performance":[208],"computing":[209],"(HPC)":[210],"solutions":[211],"may":[212],"best":[215],"bet":[216],"big":[223],"analysis.":[227]},"counts_by_year":[{"year":2026,"cited_by_count":1},{"year":2025,"cited_by_count":5},{"year":2024,"cited_by_count":7},{"year":2023,"cited_by_count":6},{"year":2022,"cited_by_count":7},{"year":2021,"cited_by_count":2}],"updated_date":"2026-06-24T13:16:06.693445","created_date":"2025-10-10T00:00:00"}
