A Data Analysis Protocol for Quantitative Data-Independent Acquisition Proteomics.

Tietueen suppeat tiedot
dc.contributor.authorPietilä S
dc.contributor.authorSuomi T
dc.contributor.authorAakko J
dc.contributor.authorElo LL.
dc.contributor.organizationfi=Turun biotiedekeskus|en=Turku Bioscience Centre|
dc.contributor.organization-code1.2.246.10.2458963.20.18586209670
dc.contributor.organization-code2609200
dc.contributor.organization-code2609201
dc.converis.publication-id41624965
dc.converis.urlhttps://research.utu.fi/converis/portal/Publication/41624965
dc.date.accessioned2022-10-28T12:31:30Z
dc.date.available2022-10-28T12:31:30Z
dc.description.abstract<p>Data-independent acquisition (DIA) mode of mass spectrometry, such as the SWATH-MS technology, enables accurate and consistent measurement of proteins, which is crucial for comparative proteomics studies. However, there is lack of free and easy to implement data analysis protocols that can handle the different data processing steps from raw spectrum files to peptide intensity matrix and its downstream analysis. Here, we provide a data analysis protocol, named diatools, covering all these steps from spectral library building to differential expression analysis of DIA proteomics data. The data analysis tools used in this protocol are open source and the protocol is distributed at Docker Hub as a complete software environment that supports Linux, Windows, and macOS operating systems.</p>
dc.format.extent10
dc.format.pagerange455
dc.format.pagerange465
dc.identifier.eisbn978-1-4939-8814-3
dc.identifier.isbn978-1-4939-8813-6
dc.identifier.olddbid177029
dc.identifier.oldhandle10024/160123
dc.identifier.urihttps://www.utupub.fi/handle/11111/32776
dc.identifier.urnURN:NBN:fi-fe2021042824990
dc.language.isoen
dc.okm.affiliatedauthorPietilä, Sami
dc.okm.affiliatedauthorSuomi, Tomi
dc.okm.affiliatedauthorElo, Laura
dc.okm.affiliatedauthorAakko, Juhani
dc.okm.discipline1182 Biochemistry, cell and molecular biologyen_GB
dc.okm.discipline1182 Biokemia, solu- ja molekyylibiologiafi_FI
dc.okm.internationalcopublicationnot an international co-publication
dc.okm.internationalityInternational publication
dc.okm.typeA3 Book
dc.publisherSpringer
dc.publisher.countryUnited Statesen_GB
dc.publisher.countryYhdysvallat (USA)fi_FI
dc.publisher.country-codeUS
dc.publisher.isbn978-81-322;978-3-540;978-3-642;978-3-662;978-3-7908;978-3-8274;978-3-8347;978-90-481;978-94-007;978-94-009;978-94-010;978-94-011;978-94-015;978-94-017;978-94-024;978-0-387;978-0-8176;978-1-4419;978-1-4612;978-1-4613;978-1-4614;978-1-4615;978-1-4684;978-1-4757;978-1-4899;978-1-4939;978-1-5041;978-3-319;978-1-4020;978-0-85729;978-1-4471;978-1-84628;978-1-84800;978-1-84882;978-1-84996;978-1-85233;978-3-211;978-3-7091;978-4-431;978-3-322;978-3-409;978-3-531;978-3-658;978-3-663;978-3-8100;978-981-287;978-981-10;978-981-13;978-3-030;978-981-32;978-981-15;978-981-16;978-981-329;978-981-334;978-981-336;978-3-031;978-981-19;
dc.publisher.placeNew York
dc.relation.doi10.1007/978-1-4939-8814-3_27
dc.relation.ispartofseriesMethods in Molecular Biology
dc.relation.volume1871
dc.source.identifierhttps://www.utupub.fi/handle/10024/160123
dc.titleA Data Analysis Protocol for Quantitative Data-Independent Acquisition Proteomics.
dc.title.bookFunctional Proteomics
dc.year.issued2019

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