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Discovery of Polygenic Adaptation Patterns in Chironomus Riparius.
In cooperation with Prof. Dr. Markus Pfenninger of Senckenberg Biodiversity and Climate Research Center Institute Frankfurt am Main, I am currently researching the genetic effects of rapid adaptation caused by selection.
I am currently involved in an experiment, where a C. Riparius population is set under selection pressure by only using the early emerging midges for continuing the line. In the following sequencing analysis of these adapted individuals, the thesis of polygenic adaptation will be tested. We are aiming at uncovering the pattern of those genes that have changed together under selection pressure.
First of all, it is of great importance to secure a solid method of variant calling, which mostly makes use of machine learning. For this, I am interested in testing and comparing different variant call tools for both individual and pool sequencing data such as GATK, DeepVariant, Population and CRISP.
Secondly, with the help of unsupervised machine learning (also better known as data mining), I am interested in finding the pattern of polygenic adaptation by means of pattern recognition and clustering.
Exploring the influence of mTOR on the synaptosome in the mouse brain.
I am supporting Jennifer Krummreich from the Human Genetics Group of Prof. Dr. Susann Schweiger in evaluating and visualizing mass spectroscopy data of mouse brain tissue. I am particularly interested in the challenge of linking a large amount of information in a meaningful way and presenting it using networks and graphs.
Coordination of Emergent Algorithmics Intelligence Research Project.
Together with Dr. Davi Rodrigues, I am a project coordinator of the Emergent AI Research Project, which deals with the interdisciplinary application of machine learning.
Halina Binde Doria, Cosima Caliendo, Susanne Gerber, Markus Pfenninger, Photoperiod is an important seasonal selection factor in Chironomus riparius (Diptera: Chironomidae), Biological Journal of the Linnean Society, Volume 135, Issue 2, February 2022, Pages 277–290, https://doi.org/10.1093/biolinnean/blab147
Markus Pfenninger, Friederike Reuss, Angelika Kiebler, Philipp Schönnenbeck, Cosima Caliendo, Susanne Gerber, Berardino Cocchiararo, Sabrina Reuter, Nico Blüthgen, Karsten Mody, Bagdevi Mishra, Miklós Bálint, Marco Thines, Barbara Feldmeyer. Genomic basis of drought resistance in Fagus sylvatica. eLife, 10:e65532 (2021)