Katarzyna Zofia Kędzierska

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Katarzyna Zofia Kędzierska
Research keywords
Position
Affiliation

Wellcome Centre for Human Genetics, University of Oxford
Roosevelt Dr
Oxford
OX37BN
United Kingdom

Biography

My principal research interest lies in understanding the genetic and epienetic influences over phenotypic changes in disease progressions, especially cancer. My solid experimental background allows me to investigate computational problems with thorough understanding of the underlying biology. I’m able to appreciate the complexity of the problems faced in the laboratory because of my degree in biotechnology, as well as my extensive experience in groups focused on genomic research. I was performing experiments followed by next-generation sequencing - RNA-seq, ChIP-seq, and ATAC-seq. My experience, especially with the later, resulted in an invitation to give a workshop at the #NGSchool2017. SInce then, I joined the team and become one of the main organisers of the NGSchool as well as Vice President of the NGSchool Scoiety. In my work, I apply available methods and tools by tailoring them to my needs. I’m keen on developing new methods as well, like recently published SONiCS - a tool for genotyping short tandem repeats of which I was one of the developers. I recently started a DPhil course in Genomic Medicine and Statistics at the Wellcome Centre for Human Genetics, University of Oxford. I'm a member of the Brasenose College.

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Resumé

I am currently undertaking short rotation project in David Wege group where I work on tumor evolution in colorectal cancer.

  • July 2017 - July 2018 Visiting Graduate Student in Ratan group, Center for Public Health Genomics @ UVa

I was  working with somatic mutations in various cancers and SNVs in different populations from 1000 Genomes Project for my thesis entitled 'Analysis of the mutational burden across gene sets in cancer'. I was one of the developer of SONiCS - tool for genotyping STRs from NGS data published in the journal Bioinformatics.

  • July 2016 - June 2017 Visiting Graduate Student in Pemberton group, Microbiology, Immunology, and Cancer Biology Departament @ UVa

I joined the project 'Epigenetic regulation in prostate cancer' in which I was responsible for both, sample processing and preparation for sequencing and analyzing data generated by RNA-seq, ChIP-seq and ATAC-seq experiments. I gained more experience in sample processing techniques which I find advantageous in analyzing the data coming from high throughput sequencing.

  • July 2015 - June 2016 Research Assistant in Laboratory of Zebrafish Developmental Genomics @ IIMCB in Warsaw

I joined the efforts of elucidating the gene regulatory network of zebrafish heart development using genomics. I was involved in both - gathering biological material, sample processing and performing wet lab experiments together with data analysis. We applied RNA-seq and ATAC-seq techniques to understand the heart development in zebrafish embryos. This work was published in Genome Research recently.