Photo of Panu Juhani Somervuo
  • Finland

  • PL 56 (Viikinkaari 5)

    00014

    Finland

20062019
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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.

Keywords

  • 113 Computer and information sciences
  • 1184 Genetics, developmental biology, physiology

International and National Collaboration Publications and projects within past five years.

Publications 2006 2019

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 journalArticleScientificpeer-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., 11 May 2019, In : Journal of Animal Ecology.

Research output: Contribution to journalArticleScientificpeer-review

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 journalArticleScientificpeer-review

Animal Sound Identifier (ASI): software for automated identification of vocal animals

Ovaskainen, O., de Camargo, U. M. & Somervuo, P., Aug 2018, In : Ecology Letters. 21, 8, p. 1244-1254 11 p.

Research output: Contribution to journalArticleScientificpeer-review

Open Access
File

BARCOSEL: a tool for selecting an optimal barcode set for high-throughput sequencing

Somervuo, P., Koskinen, P., Mei, P., Holm, L., Auvinen, P. & Paulin, L., 5 Jul 2018, In : BMC Bioinformatics. 19, 257, 6 p., 257.

Research output: Contribution to journalArticleScientificpeer-review

Open Access
File

Projects 2009 2013

Activities 2010 2014

  • 4 Organisation and participation in conferences, workshops, courses, seminars
  • 2 Academic visit to other institution

Epigenetics, coding and non-coding RNAs - Challenging NGS data

Panu Juhani Somervuo (Speaker: Presenter)
27 Jun 2014

Activity: Participating in or organising an event typesOrganisation 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 typesOrganisation 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 typesOrganisation and participation in conferences, workshops, courses, seminars

Variant Calling from Genomic Sequencing Data EMBL course

Panu Juhani Somervuo (Attendee)
18 Jul 201120 Jul 2011

Activity: Participating in or organising an event typesOrganisation and participation in conferences, workshops, courses, seminars

University of Mauritius

Panu Juhani Somervuo (Visiting lecturer)
21 Nov 201126 Nov 2011

Activity: Visiting an external institution typesAcademic visit to other institution