{"id":"https://openalex.org/W2556538705","doi":"https://doi.org/10.1039/9781782626732-00321","title":"R for Proteomics","display_name":"R for Proteomics","publication_year":2016,"publication_date":"2016-11-15","ids":{"openalex":"https://openalex.org/W2556538705","doi":"https://doi.org/10.1039/9781782626732-00321","mag":"2556538705"},"language":"en","primary_location":{"id":"doi:10.1039/9781782626732-00321","is_oa":false,"landing_page_url":"https://doi.org/10.1039/9781782626732-00321","pdf_url":null,"source":null,"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Proteome Informatics","raw_type":"book-chapter"},"type":"book-chapter","indexed_in":["crossref"],"open_access":{"is_oa":false,"oa_status":"closed","oa_url":null,"any_repository_has_fulltext":false},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5046918535","display_name":"Lisa M. Breckels","orcid":"https://orcid.org/0000-0001-8918-7171"},"institutions":[{"id":"https://openalex.org/I241749","display_name":"University of Cambridge","ror":"https://ror.org/013meh722","country_code":"GB","type":"education","lineage":["https://openalex.org/I241749"]}],"countries":["GB"],"is_corresponding":true,"raw_author_name":"Lisa M. Breckels","raw_affiliation_strings":["Computational Proteomics Unit and Cambridge Centre for Proteomics, Cambridge Systems Biology Centre, University of Cambridge Tennis Court Road Cambridge CB2 1GA UK lg390@cam.ac.uk"],"affiliations":[{"raw_affiliation_string":"Computational Proteomics Unit and Cambridge Centre for Proteomics, Cambridge Systems Biology Centre, University of Cambridge Tennis Court Road Cambridge CB2 1GA UK lg390@cam.ac.uk","institution_ids":["https://openalex.org/I241749"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5060564118","display_name":"Sebastian Gibb","orcid":"https://orcid.org/0000-0001-7406-4443"},"institutions":[{"id":"https://openalex.org/I2799318839","display_name":"Universit\u00e4tsmedizin Greifswald","ror":"https://ror.org/025vngs54","country_code":"DE","type":"education","lineage":["https://openalex.org/I2799318839"]}],"countries":["DE"],"is_corresponding":false,"raw_author_name":"Sebastian Gibb","raw_affiliation_strings":["Department of Anesthesiology and Intensive Care, University Medicine Greifswald Ferdinand-Sauerbruch-Stra\u00dfe 17475 Greifswald Germany"],"affiliations":[{"raw_affiliation_string":"Department of Anesthesiology and Intensive Care, University Medicine Greifswald Ferdinand-Sauerbruch-Stra\u00dfe 17475 Greifswald Germany","institution_ids":["https://openalex.org/I2799318839"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5058811459","display_name":"Vladislav Petyuk","orcid":"https://orcid.org/0000-0003-4076-151X"},"institutions":[{"id":"https://openalex.org/I142606810","display_name":"Pacific Northwest National Laboratory","ror":"https://ror.org/05h992307","country_code":"US","type":"facility","lineage":["https://openalex.org/I1325736334","https://openalex.org/I1330989302","https://openalex.org/I142606810","https://openalex.org/I39565521"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Vladislav Petyuk","raw_affiliation_strings":["Earth and Biological Sciences Directorate, Pacific Northwest National Laboratory Richland WA 99352 USA"],"affiliations":[{"raw_affiliation_string":"Earth and Biological Sciences Directorate, Pacific Northwest National Laboratory Richland WA 99352 USA","institution_ids":["https://openalex.org/I142606810"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5064560423","display_name":"Laurent Gatto","orcid":"https://orcid.org/0000-0002-1520-2268"},"institutions":[{"id":"https://openalex.org/I241749","display_name":"University of Cambridge","ror":"https://ror.org/013meh722","country_code":"GB","type":"education","lineage":["https://openalex.org/I241749"]}],"countries":["GB"],"is_corresponding":false,"raw_author_name":"Laurent Gatto","raw_affiliation_strings":["Computational Proteomics Unit and Cambridge Centre for Proteomics, Cambridge Systems Biology Centre, University of Cambridge Tennis Court Road Cambridge CB2 1GA UK lg390@cam.ac.uk"],"affiliations":[{"raw_affiliation_string":"Computational Proteomics Unit and Cambridge Centre for Proteomics, Cambridge Systems Biology Centre, University of Cambridge Tennis Court Road Cambridge CB2 1GA UK lg390@cam.ac.uk","institution_ids":["https://openalex.org/I241749"]}]}],"institutions":[],"countries_distinct_count":3,"institutions_distinct_count":4,"corresponding_author_ids":["https://openalex.org/A5046918535"],"corresponding_institution_ids":["https://openalex.org/I241749"],"apc_list":null,"apc_paid":null,"fwci":0.0,"has_fulltext":false,"cited_by_count":1,"citation_normalized_percentile":{"value":0.18660714,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":{"min":89,"max":94},"biblio":{"volume":null,"issue":null,"first_page":"321","last_page":"364"},"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":0.9993000030517578,"subfield":{"id":"https://openalex.org/subfields/1312","display_name":"Molecular Biology"},"field":{"id":"https://openalex.org/fields/13","display_name":"Biochemistry, Genetics and Molecular Biology"},"domain":{"id":"https://openalex.org/domains/1","display_name":"Life Sciences"}},{"id":"https://openalex.org/T10887","display_name":"Bioinformatics and Genomic Networks","score":0.9930999875068665,"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/bioconductor","display_name":"Bioconductor","score":0.8430688381195068},{"id":"https://openalex.org/keywords/executable","display_name":"Executable","score":0.759972333908081},{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.7182581424713135},{"id":"https://openalex.org/keywords/software","display_name":"Software","score":0.5562531352043152},{"id":"https://openalex.org/keywords/process","display_name":"Process (computing)","score":0.4883675277233124},{"id":"https://openalex.org/keywords/proteomics","display_name":"Proteomics","score":0.46836981177330017},{"id":"https://openalex.org/keywords/data-mining","display_name":"Data mining","score":0.3777621388435364},{"id":"https://openalex.org/keywords/programming-language","display_name":"Programming language","score":0.29618924856185913},{"id":"https://openalex.org/keywords/chemistry","display_name":"Chemistry","score":0.09630268812179565}],"concepts":[{"id":"https://openalex.org/C2779694297","wikidata":"https://www.wikidata.org/wiki/Q2888953","display_name":"Bioconductor","level":3,"score":0.8430688381195068},{"id":"https://openalex.org/C160145156","wikidata":"https://www.wikidata.org/wiki/Q778586","display_name":"Executable","level":2,"score":0.759972333908081},{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.7182581424713135},{"id":"https://openalex.org/C2777904410","wikidata":"https://www.wikidata.org/wiki/Q7397","display_name":"Software","level":2,"score":0.5562531352043152},{"id":"https://openalex.org/C98045186","wikidata":"https://www.wikidata.org/wiki/Q205663","display_name":"Process (computing)","level":2,"score":0.4883675277233124},{"id":"https://openalex.org/C46111723","wikidata":"https://www.wikidata.org/wiki/Q471857","display_name":"Proteomics","level":3,"score":0.46836981177330017},{"id":"https://openalex.org/C124101348","wikidata":"https://www.wikidata.org/wiki/Q172491","display_name":"Data mining","level":1,"score":0.3777621388435364},{"id":"https://openalex.org/C199360897","wikidata":"https://www.wikidata.org/wiki/Q9143","display_name":"Programming language","level":1,"score":0.29618924856185913},{"id":"https://openalex.org/C185592680","wikidata":"https://www.wikidata.org/wiki/Q2329","display_name":"Chemistry","level":0,"score":0.09630268812179565},{"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":1,"locations":[{"id":"doi:10.1039/9781782626732-00321","is_oa":false,"landing_page_url":"https://doi.org/10.1039/9781782626732-00321","pdf_url":null,"source":null,"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Proteome Informatics","raw_type":"book-chapter"}],"best_oa_location":null,"sustainable_development_goals":[{"score":0.6399999856948853,"display_name":"Industry, innovation and infrastructure","id":"https://metadata.un.org/sdg/9"}],"awards":[],"funders":[],"has_content":{"pdf":false,"grobid_xml":false},"content_urls":null,"referenced_works_count":59,"referenced_works":["https://openalex.org/W1964010911","https://openalex.org/W1964336313","https://openalex.org/W1966626540","https://openalex.org/W1966815294","https://openalex.org/W1973094248","https://openalex.org/W1974667981","https://openalex.org/W1977943199","https://openalex.org/W1981593008","https://openalex.org/W1987479467","https://openalex.org/W1990273811","https://openalex.org/W1990283005","https://openalex.org/W1991024525","https://openalex.org/W2019664317","https://openalex.org/W2023010129","https://openalex.org/W2026465178","https://openalex.org/W2033278690","https://openalex.org/W2036503673","https://openalex.org/W2040665675","https://openalex.org/W2043828494","https://openalex.org/W2043964720","https://openalex.org/W2046627400","https://openalex.org/W2048280438","https://openalex.org/W2057652593","https://openalex.org/W2081098333","https://openalex.org/W2081465448","https://openalex.org/W2083637865","https://openalex.org/W2097489988","https://openalex.org/W2098213262","https://openalex.org/W2102307317","https://openalex.org/W2106839391","https://openalex.org/W2106855677","https://openalex.org/W2109606373","https://openalex.org/W2110017950","https://openalex.org/W2111846704","https://openalex.org/W2114104545","https://openalex.org/W2114117605","https://openalex.org/W2114165700","https://openalex.org/W2120016245","https://openalex.org/W2120865735","https://openalex.org/W2121710589","https://openalex.org/W2122537861","https://openalex.org/W2130706354","https://openalex.org/W2135233310","https://openalex.org/W2140946052","https://openalex.org/W2146103026","https://openalex.org/W2146197170","https://openalex.org/W2147214095","https://openalex.org/W2148430691","https://openalex.org/W2152239989","https://openalex.org/W2153349010","https://openalex.org/W2160697532","https://openalex.org/W2161371306","https://openalex.org/W2167557822","https://openalex.org/W2168130065","https://openalex.org/W2171209110","https://openalex.org/W2177119832","https://openalex.org/W2179438025","https://openalex.org/W2272852695","https://openalex.org/W2332972329"],"related_works":["https://openalex.org/W1969324738","https://openalex.org/W2583313884","https://openalex.org/W3089673996","https://openalex.org/W2063468672","https://openalex.org/W1530299232","https://openalex.org/W2559784535","https://openalex.org/W4322710807","https://openalex.org/W1967838552","https://openalex.org/W2106019987","https://openalex.org/W2114533060"],"abstract_inverted_index":{"In":[0],"this":[1],"chapter,":[2],"we":[3,35],"introduce":[4],"some":[5],"R":[6],"and":[7,13,17,49,55,62,69,87],"Bioconductor":[8,60],"software":[9,72],"to":[10,23,28,40,47,74],"process,":[11],"analyse":[12,48],"interpret":[14],"mass":[15,57],"spectrometry":[16,58],"proteomics":[18,75],"data.":[19,76],"We":[20],"describe":[21,45],"how":[22,27,46],"programmatically":[24],"access":[25],"data,":[26,52],"read":[29],"various":[30],"data":[31],"formats":[32],"into":[33],"R,":[34],"review":[36,53],"the":[37,78,94],"existing":[38],"infrastructure":[39],"reliably":[41],"identify":[42],"peptide-spectrum":[43],"matches,":[44],"process":[50],"quantitative":[51],"MALDI":[54],"imaging":[56],"using":[59],"packages":[61],"conclude":[63],"with":[64],"an":[65],"overview":[66],"of":[67],"statistical":[68],"machine":[70],"learning":[71],"applicable":[73],"All":[77],"use":[79],"cases":[80],"are":[81,91],"accompanied":[82],"by":[83],"executable":[84],"example":[85],"code":[86],"further":[88],"reproducible":[89],"examples":[90],"provided":[92],"in":[93],"companion":[95],"RforProteomics":[96],"package.":[97]},"counts_by_year":[{"year":2022,"cited_by_count":1}],"updated_date":"2025-11-06T03:46:38.306776","created_date":"2016-11-30T00:00:00"}
