Tomi Suomi

Tomi Suomi

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Tomi Suomi

Tomi Suomi

Publications by authors named "Tomi Suomi"

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13Publications

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

Methods Mol Biol 2019 ;1871:455-465

Turku Centre for Biotechnology, University of Turku and Åbo Akademi University, Turku, Finland.

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http://dx.doi.org/10.1007/978-1-4939-8814-3_27DOI Listing
June 2019

A comprehensive evaluation of popular proteomics software workflows for label-free proteome quantification and imputation.

Brief Bioinform 2018 11;19(6):1344-1355

Biomathematics, Research Director in Bioinformatics and Group Leader in Computational Biomedicine at Turku Centre for Biotechnology, University of Turku, Finland.

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http://dx.doi.org/10.1093/bib/bbx054DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC6291797PMC
November 2018

Phosphonormalizer: an R package for normalization of MS-based label-free phosphoproteomics.

Bioinformatics 2018 02;34(4):693-694

Bioinformatics Unit, Turku Centre for Biotechnology, University of Turku and Åbo Akademi University, Tykistökatu 6, FI-20520 Turku, Finland.

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http://dx.doi.org/10.1093/bioinformatics/btx573DOI Listing
February 2018

Accurate Detection of Differential Expression and Splicing Using Low-Level Features.

Methods Mol Biol 2017 ;1507:141-151

Turku Centre for Biotechnology, Tykistökatu 6, 20520, Turku, Finland.

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http://dx.doi.org/10.1007/978-1-4939-6518-2_11DOI Listing
January 2018

HIF prolyl hydroxylase PHD3 regulates translational machinery and glucose metabolism in clear cell renal cell carcinoma.

Cancer Metab 2017 4;5. Epub 2017 Jul 4.

Turku Centre for Biotechnology, University of Turku and Åbo Akademi University, Tykistökatu 6, 20520 Turku, Finland.

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http://dx.doi.org/10.1186/s40170-017-0167-yDOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5496173PMC
July 2017

Enhanced differential expression statistics for data-independent acquisition proteomics.

Sci Rep 2017 07 19;7(1):5869. Epub 2017 Jul 19.

Turku Centre for Biotechnology, University of Turku and Åbo Akademi University, FI-20520, Turku, Finland.

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http://dx.doi.org/10.1038/s41598-017-05949-yDOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5517573PMC
July 2017

ROTS: An R package for reproducibility-optimized statistical testing.

PLoS Comput Biol 2017 05 25;13(5):e1005562. Epub 2017 May 25.

Turku Centre for Biotechnology, University of Turku and Åbo Akademi University, Turku, Finland.

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http://dx.doi.org/10.1371/journal.pcbi.1005562DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5470739PMC
May 2017

Brief Isoflurane Anesthesia Produces Prominent Phosphoproteomic Changes in the Adult Mouse Hippocampus.

ACS Chem Neurosci 2016 06 28;7(6):749-56. Epub 2016 Apr 28.

Turku Centre for Biotechnology, University of Turku , FI-20014 Turku, Finland.

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http://dx.doi.org/10.1021/acschemneuro.6b00002DOI Listing
June 2016

Using Peptide-Level Proteomics Data for Detecting Differentially Expressed Proteins.

J Proteome Res 2015 Nov 29;14(11):4564-70. Epub 2015 Sep 29.

Van't Hoff Institute for Molecular Sciences, University of Amsterdam , 1090 GD Amsterdam , The Netherlands.

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http://dx.doi.org/10.1021/acs.jproteome.5b00363DOI Listing
November 2015

Optimization of Statistical Methods Impact on Quantitative Proteomics Data.

J Proteome Res 2015 Oct 8;14(10):4118-26. Epub 2015 Sep 8.

Turku Centre for Biotechnology, University of Turku and Åbo Akademi University , Tykistökatu 6, FI-20520 Turku, Finland.

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http://dx.doi.org/10.1021/acs.jproteome.5b00183DOI Listing
October 2015

Cross-correlation of spectral count ranking to validate quantitative proteome measurements.

J Proteome Res 2014 Apr 26;13(4):1957-68. Epub 2014 Mar 26.

Turku Centre for Biotechnology, University of Turku and Åbo Akademi University , 20520 Turku, Finland.

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http://dx.doi.org/10.1021/pr401096zDOI Listing
April 2014