Research Output per year
Personal profile
Description of research and teaching
My background is in signal processing, pattern recognition, and machine learning. Before starting to do bioinformatics, I was working with automatic speech recognition and neural networks at Neural Networks Research Centre, Helsinki University of Technology. Year 2005 I moved to Viikki campus of University of Helsinki. During 2005-2010 I did microarray data analysis including detection, gene expression, and array comparative genomic hybridization. Majority of that work was done with custom arrays where I did also the probe design. During that time I participated as a teacher in several microarray courses at UH and IT center CSC, and an Erasmus course in Italy. Year 2010 I joined Metapopulation Research Group to participate in a butterfly sequencing project. I have run NGS teaching courses both at the university and CSC in Finland, at University of Mauritius, Uppsala (Sweden), Cape Town (South Africa), and Bari (Italy). At the moment I am in Otso Ovaskainen's group working to build a taxonomic classifier for DNA data.
Being an engineer, I am interested in machine learning methods and Bayesian modeling. At the same time I am curious to understand biology better.
Fields of Science
- 113 Computer and information sciences
- 1184 Genetics, developmental biology, physiology
International and National Collaboration
Publications and projects within past five years.
Publications
Monitoring Fungal Communities With the Global Spore Sampling Project
Ovaskainen, O., Abrego, N., Somervuo, P. J., Palorinne, I., Hardwick, B. V. P., Pitkänen, J-M., Andrew, N. R., Niklaus, P. A., Schmidt, N. M., Seibold, S., Vogt, J., Zakharov, E. V., Hebert, P. D. N., Roslin, T. & Ivanova, N., 14 Jan 2020, In : Frontiers in Ecology and Evolution. 7, 511.Research output: Contribution to journal › Article › Scientific › peer-review
Open Access
File
A unified framework for analysis of individual-based models in ecology and beyond
Cornell, S. J., Suprunenko, Y. F., Finkelshtein, D., Somervuo, P. & Ovaskainen, O., 17 Oct 2019, In : Nature Communications. 10, 14 p., 4716.Research output: Contribution to journal › Article › Scientific › peer-review
Open Access
File
Effect of wet storage conditions on potato tuber transcriptome, phytohormones and growth
Peivastegan, B., Hadizadeh, I., Nykyri, J., Nielsen, K. L., Somervuo, P., Sipari, N., Tran, C. & Pirhonen, M., 17 Jun 2019, In : BMC Plant Biology. 19, 18 p., 262.Research output: Contribution to journal › Article › Scientific › peer-review
Open Access
File
Scaling up the effects of inbreeding depression from individuals to metapopulations
Nonaka, E., Sirén, J., Somervuo, P., Ruokolainen, L., Ovaskainen, O. & Hanski, I., Aug 2019, In : Journal of Animal Ecology. 88, 8, p. 1202-1214 13 p.Research output: Contribution to journal › Article › Scientific › peer-review
Open Access
File
Time-frequency warping of spectrograms applied to bird sound analyses
Somervuo, P., 4 May 2019, In : Bioacoustics. 28, 3, p. 257-268 12 p.Research output: Contribution to journal › Article › Scientific › peer-review
Projects
- 1 Finished
Glanville fritillary butterfly genomics and genetics
Lehtonen, R., Ahola, V., Somervuo, P. J., Frilander, M., Auvinen, P., Paulin, L. & Holm, L.
02/02/2009 → 30/03/2013
Project: Research project
Activities
Epigenetics, coding and non-coding RNAs - Challenging NGS data
Panu Juhani Somervuo (Speaker: Presenter)27 Jun 2014
Activity: Participating in or organising an event types › Organisation and participation in conferences, workshops, courses, seminars
COST training school: Next Generation Sequencing Data Analysis
Panu Juhani Somervuo (Speaker: Presenter)29 May 2012
Activity: Participating in or organising an event types › Organisation and participation in conferences, workshops, courses, seminars
NGS Assembly Course
Panu Juhani Somervuo (Speaker: Presenter)5 Sep 2012
Activity: Participating in or organising an event types › Organisation and participation in conferences, workshops, courses, seminars
Variant Calling from Genomic Sequencing Data EMBL course
Panu Juhani Somervuo (Attendee)18 Jul 2011 → 20 Jul 2011
Activity: Participating in or organising an event types › Organisation and participation in conferences, workshops, courses, seminars
University of Mauritius
Panu Juhani Somervuo (Visiting lecturer)21 Nov 2011 → 26 Nov 2011
Activity: Visiting an external institution types › Academic visit to other institution