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Publications

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

Author(s): Tommi Välikangas, Tomi Suomi, Laura L. Elo
Published in: Briefings in Bioinformatics, 2017, ISSN 1467-5463
DOI: 10.1093/bib/bbx054

A systematic evaluation of normalization methods in quantitative label-free proteomics

Author(s): Tommi Välikangas, Tomi Suomi, Laura L. Elo
Published in: Briefings in Bioinformatics, 2018, Page(s) bbw095, ISSN 1467-5463
DOI: 10.1093/bib/bbw095

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

Author(s): Sohrab Saraei, Tomi Suomi, Otto Kauko, Laura L Elo
Published in: Bioinformatics, 2017, ISSN 1367-4803
DOI: 10.1093/bioinformatics/btx573

Enterovirus-associated changes in blood transcriptomic profiles of children with genetic susceptibility to type 1 diabetes

Author(s): Niina Lietzen, Le T. T. An, Maria K. Jaakkola, Henna Kallionpää, Sami Oikarinen, Juha Mykkänen, Mikael Knip, Riitta Veijola, Jorma Ilonen, Jorma Toppari, Heikki Hyöty, Riitta Lahesmaa, Laura L. Elo
Published in: Diabetologia, Issue 61/2, 2018, Page(s) 381-388, ISSN 0012-186X
DOI: 10.1007/s00125-017-4460-7

Prediction of Adulthood Obesity Using Genetic and Childhood Clinical Risk Factors in the Cardiovascular Risk in Young Finns StudyCLINICAL PERSPECTIVE

Author(s): Fatemeh Seyednasrollah, Johanna Mäkelä, Niina Pitkänen, Markus Juonala, Nina Hutri-Kähönen, Terho Lehtimäki, Jorma Viikari, Tanika Kelly, Changwei Li, Lydia Bazzano, Laura L. Elo, Olli T. Raitakari
Published in: Circulation: Cardiovascular Genetics, Issue 10/3, 2017, Page(s) e001554, ISSN 1942-3268
DOI: 10.1161/CIRCGENETICS.116.001554

PASI: A novel pathway method to identify delicate group effects

Author(s): Maria K. Jaakkola, Aidan J. McGlinchey, Riku Klén, Laura L. Elo
Published in: PLOS ONE, Issue 13/7, 2018, Page(s) e0199991, ISSN 1932-6203
DOI: 10.1371/journal.pone.0199991

Transcriptional Repressor HIC1 Contributes to Suppressive Function of Human Induced Regulatory T Cells

Author(s): Ubaid Ullah, Syed Bilal Ahmad Andrabi, Subhash Kumar Tripathi, Obaiah Dirasantha, Kartiek Kanduri, Sini Rautio, Catharina C. Gross, Sari Lehtimäki, Kanchan Bala, Johanna Tuomisto, Urvashi Bhatia, Deepankar Chakroborty, Laura L. Elo, Harri Lähdesmäki, Heinz Wiendl, Omid Rasool, Riitta Lahesmaa
Published in: Cell Reports, Issue 22/8, 2018, Page(s) 2094-2106, ISSN 2211-1247
DOI: 10.1016/j.celrep.2018.01.070

Enhanced differential expression statistics for data-independent acquisition proteomics

Author(s): Tomi Suomi, Laura L. Elo
Published in: Scientific Reports, Issue 7/1, 2017, ISSN 2045-2322
DOI: 10.1038/s41598-017-05949-y

ROTS: An R package for reproducibility-optimized statistical testing

Author(s): Tomi Suomi, Fatemeh Seyednasrollah, Maria K. Jaakkola, Thomas Faux, Laura L. Elo
Published in: PLOS Computational Biology, Issue 13/5, 2017, Page(s) e1005562, ISSN 1553-7358
DOI: 10.1371/journal.pcbi.1005562

Quantitative Proteomics Reveals the Dynamic Protein Landscape during Initiation of Human Th17 Cell Polarization

Author(s): Subhash K. Tripathi, Tommi Välikangas, Ankitha Shetty, Mohd Moin Khan, Robert Moulder, Santosh D. Bhosale, Elina Komsi, Verna Salo, Rafael Sales De Albuquerque, Omid Rasool, Sanjeev Galande, Laura L. Elo, Riitta Lahesmaa
Published in: iScience, Issue 11, 2019, Page(s) 334-355, ISSN 2589-0042
DOI: 10.1016/j.isci.2018.12.020