Adjunct professor, Institute of Biomedicine / Turku Bioscience Centre Kalle Rytkönen - UTU Research Portal

Kalle Rytkönen
Adjunct professor, Institute of Biomedicine / Turku Bioscience Centre

Senior Research Fellow, Institute of Biomedicine (Institute of Biomedicine)
Docent, Institute of Biomedicine (Institute of Biomedicine)

katury@utu.fi

Tykistökatu 6

Turku

ORCID identifier: https://orcid.org/0000-0002-5138-0889

Areas of expertise

Female reproduction; uterus; endometrium; endometriosis; preeclampsia; hypoxia; gene regulation; functional genomics; single-cell transcriptomics

Biography

2011, PhD, University of Turku

2012-2015 Post Doc, Prof. Gunter Wagner lab, Yale Systems Biology Institute, Yale University

2016-2018 Marie Curie Research Fellow, Institute of Biomedicine / Turku Centre for Biotechnology

2019- Research Fellow associated with Prof. Laura Elo and Prof. Matti Poutanen groups, Turku Bioscience Centre / Institute of Biomedicine

2022- Adjunct professor, Institute of Biomedicine

Research

Current research focuses on the gene regulation of the uterine endometrium and endometrium related disorders such as preeclampsia, endometriosis and heavy menstrual bleeding. To better understand the uterine biology and the roles of specific uterine cell types I utilize transcriptomics, steroidomics and computational biology tools.

Teaching

Lectures in courses: Modern biotechnologies and bioinformatics; Systems biology; Bioinformatics in Drug Discovery.

Publications

1 of 2

Cell type markers indicate distinct contributions of decidual stromal cells and natural killer cells in preeclampsia (2022)
- Reproduction
Rytkönen Kalle T, Adossa Nigatu, Mahmoudian Mehrad, Lönnberg Tapio, Poutanen Matti, Elo Laura L
(Refereed journal article or data article (A1))
COVID-19-specific transcriptomic signature detectable in blood across multiple cohorts (2022)
- Frontiers in Genetics
Välikangas Tommi, Junttila Sini, Rytkönen Kalle T, Kukkonen-Macchi Anu, Suomi Tomi, Elo Laura L
(Refereed journal article or data article (A1))
Dirichlet process mixture models for single-cell RNA-seq clustering (2022)
- Biology Open
Adossa Nigatu A., Rytkönen Kalle T, Elo Laura
(Refereed journal article or data article (A1))
Glycolysis and Heavy Menstrual Bleeding (2022)
- Reproductive Sciences
Rytkönen Kalle T
(Article or data-article in scientific journal (B1))
Histone H3K4me3 breadth in hypoxia reveals endometrial core functions and stress adaptation linked to endometriosis (2022)
- iScience
Rytkönen Kalle T, Faux Thomas, Mahmoudian Mehrad, Heinosalo Taija, Nnamani Maurice C, Perheentupa Antti, Poutanen Matti, Elo Laura L, Wagner Günter P
(Refereed journal article or data article (A1))
Overexpression of Human Estrogen Biosynthetic Enzyme Hydroxysteroid (17beta) Dehydrogenase Type 1 Induces Adenomyosis-like Phenotype in Transgenic Mice (2022)
- International Journal of Molecular Sciences
Heinosalo Taija, Rytkönen Kalle T., Saarinen Niina, Järvensivu Päivi, Damdimopoulou Pauliina, Strauss Leena, Orasniemi Satu, Horshauge Petricia, Gabriel Michael, Koskimies Pasi, Ohlsson Claes, Kronqvist Pauliina, Poutanen Matti
(Refereed journal article or data article (A1))
Computational strategies for single-cell multi-omics integration (2021)
- Computational and Structural Biotechnology Journal
Adossa Nigatu, Khan Sofia, Rytkönen Kalle T., Elo Laura L.
(Refereed journal article or data article (A1))
Differential ATAC-seq and ChIP-seq peak detection using ROTS (2021)
- NAR Genomics and Bioinformatics: Nucleic Acids Research Genomics and Bioinformatics
Faux Thomas, Rytkönen Kalle T., Mahmoudian Mehrad, Paulin Niklas, Junttila Sini, Laiho Asta, Elo Laura L.
(Refereed journal article or data article (A1))
A relational database to identify differentially expressed genes in the endometrium and endometriosis lesions (2020)
- Scientific Data
Gabriel M, Fey V, Heinosalo T, Adhikari P, Rytkönen K, Komulainen T, Huhtinen K, Laajala TD, Siitari H, Virkki A, Suvitie P, Kujari H, Aittokallio T, Perheentupa A, Poutanen M
(Refereed journal article or data article (A1))
Transcriptomic responses to hypoxia in endometrial and decidual stromal cells (2020)
- Reproduction
Rytkönen KT, Heinosalo T, Mahmoudian M, Ma X, Perheentupa A, Elo LL, Poutanen M, Wagner GP
(Refereed journal article or data article (A1))
Decidualization of Human Endometrial Stromal Fibroblasts is a Multiphasic Process Involving Distinct Transcriptional Programs (2019)
- Reproductive Sciences
Rytkönen KT, Erkenbrack EM, Poutanen M, Elo LL, Pavlicev M, Wagner GP
(Refereed journal article or data article (A1))
RepViz: A replicate-driven R tool for visualizing genomic regions (2019)
- BMC Research Notes
Faux T., Rytkönen K., Laiho A., Elo L.
(Refereed journal article or data article (A1))
Evolution: Oxygen and early animals (2018)
- eLife
Rytkönen KT
(Article or data-article in scientific journal (B1))
Keskenmeno on ihmisellä sääntö eikä poikkeus – kohtu valikoi tarkkaan, kenet se ottaa vastaan (2018)
- Helsingin Sanomat
Kalle Rytkönen
(Popularised article or blog post (E1))
The evolution of early cellular systems viewed through the lens of biological interactions. (2015)
- Frontiers in Microbiology
Poole AM, Lundin D, Rytkönen KT.
(Refereed review article in scientific journal (A2))
From genomes to functions in aquatic biology (2012)
- Marine Genomics
Nikinmaa M, Rytkonen KT
(Refereed journal article or data article (A1))
Transcriptional responses to hypoxia are enhanced by recurrent hypoxia (hypoxic preconditioning) in the epaulette shark (2012)
- Physiological Genomics
Rytkonen KT, Renshaw GMC, Vainio PP, Ashton KJ, Williams-Pritchard G, Leder EH, Nikinmaa M
(Refereed journal article or data article (A1))
Evolutionary origins of oxygen sensing in animals (2011)
- EMBO Reports
Rytkönen K T, Storz J F
(Refereed review article in scientific journal (A2))
Functional genomics in aquatic toxicology-Do not forget the function (2011)
- Aquatic Toxicology
Nikinmaa M, Rytkonen KT
(Refereed review article in scientific journal (A2))
Molecular Evolution of the Metazoan PHD-HIF Oxygen-Sensing System (2011)
- Molecular Biology and Evolution
Rytkonen KT, Williams TA, Renshaw GM, Primmer CR, Nikinmaa M
(Refereed journal article or data article (A1))