My research mission is to understand how RNA-binding proteins regulate gene expression and contribute to human disease. In the Davis lab, I combine experimental, sequencing based techniques and bioinformatic data analysis to elucidate how RNA-binding proteins regulate neural stem cell differentiation. I also work together with the Castello lab on characterising the roles of RNA-binding proteins in viral infection.
EDUCATION AND RESEARCH BACKGROUND
DPhil (2009-2013) at European Molecular Biology Laboratory (EMBL) and University of Heidelberg, Germany.
During my PhD, I worked on the bioinformatics of new, genome-wide sequencing methods to map RNA isoform variants.
MSc (2008-2009) in Biotechnology/Bioinformatics at University of Tampere, Finland.
For my MSc thesis final project, I worked on using genome-wide gene expression profiling of drug/chemical-treated tissue samples in order to classify novel compounds and to predict potential (later) adverse effects (so called “predictive toxicogenomics”).
BSc (2004-2008) in Biochemistry, University of Tampere, Finland
For my BSc thesis project, I wrote a literature review on how the bacterial communities living in and on us (the so called “human microbiome”) contribute to our health and wellbeing, and how (then new) experimental approaches, sequencing technologies and bioinformatics (this combined approach is called “metagenomics”) help us better understand this complex, symbiotic relationship.
OTHER SCIENCE ACTIVITIES
Here in Oxford, I am running the weekly Chromosome and RNA Biology Group (CRBG) seminar series together with Dr Tatyana Nesterova. In the past, I have acted as a member of the EMBL Science & Society committee and been the main coordinator of the EMBL 12th International PhD Student Symposium in 2010.
The new (dis)order in RNA regulation.
Järvelin AI, Noerenberg M, Davis I, Castello A. Cell Commun Signal. 2016 Apr 6;14(1):9. doi: 10.1186/s12964-016-0132-3. PMID: 2704816
Single-cell polyadenylation site mapping reveals 3′ isoform choice variability. Velten L, Anders S, Pekowska A, Järvelin AI, Huber W, Pelechano V, Steinmetz LM. Mol Syst Biol. 2015 Jun 3;11(6):812. doi: 10.15252/msb.20156198. PMID: 26040288
Alternative polyadenylation diversifies post-transcriptional regulation by selective RNA-protein interactions. Gupta I, Clauder-Münster S, Klaus B, Järvelin AI, Aiyar RS, Benes V, Wilkening S, Huber W, Pelechano V, Steinmetz LM. Mol Syst Biol. 2014 Feb 25;10:719. doi: 10.1002/msb.135068. Print 2014. PMID: 24569168
Polyadenylation site-induced decay of upstream transcripts enforces promoter directionality. Ntini E, Järvelin AI, Bornholdt J, Chen Y, …, Pelechano V, Steinmetz LM, Sandelin A, Jensen TH. Nat Struct Mol Biol. 2013 Aug;20(8):923-8. doi: 10.1038/nsmb.2640. Epub 2013 Jul 14. PMID: 23851456
An efficient method for genome-wide polyadenylation site mapping and RNA quantification. Wilkening S, Pelechano V, Järvelin AI, Tekkedil MM, Anders S, Benes V, Steinmetz LM. Nucleic Acids Res. 2013 Mar 1;41(5):e65. doi: 10.1093/nar/gks1249. Epub 2013 Jan 7. PMID: 23295673
Genome-wide polyadenylation site mapping. Pelechano V, Wilkening S, Järvelin AI, Tekkedil MM, Steinmetz LM. Methods Enzymol. 2012;513:271-96. doi: 10.1016/B978-0-12-391938-0.00012-4. PMID: 22929774
Assessment of metagenomic assembly using simulated next generation sequencing data. Mende DR, Waller AS, Sunagawa S, Järvelin AI, Chan MM, Arumugam M, Raes J, Bork P. PLoS One. 2012;7(2):e31386. doi: 10.1371/journal.pone.0031386. Epub 2012 Feb 23. PMID: 22384016
Functional consequences of bidirectional promoters. Wei W, Pelechano V, Järvelin AI, Steinmetz LM. Trends Genet. 2011 Jul;27(7):267-76. doi: 10.1016/j.tig.2011.04.002. Epub 2011 May 24. Review. PMID: 21601935