Fabian Kilpert, PhD

Post-doctoral Researcher

Positions

05/2017 – present: Postdoctoral researcher (bioinformatics), Lübeck Interdisciplinary Platform for Genome Analytics (LIGA), University of Lübeck
01/2014 – 04/2017: Postdoctoral researcher (bioinformatics), Bioinformatics Facility, Max Planck Institute of Immunubiology and Epeigenetics (MPI-IE), Freiburg
01/2011 – 12/2013: Postdoctoral researcher (bioinformatics), Scientific Computing, University of Applied Sciences Bremerhaven and Alfred Wegener Institute (AWI), Bremerhaven

Pre-doctorate

2009 – 2010: Research assistant, Evolutionary Biology and Ecology, University of Bonn,  Germany
2006 – 2007: Research assistant (with teaching), Evolution and Systematics, Free University of Berlin

Certifications

2010       Dr. rer. nat. (PhD), Evolutionary Biology and Ecology, University of Bonn
2005       Diploma (Biology), Evolution and Systematics, Free University of Berlin

Honors and awards

2007       Two year NaFöG grant of the city of Berlin for PhD candidates
2008       Scholarship of the DAAD RISE 2008 summer internship program for undergraduate students from the United States, Canada, and the UK

Mentoring and teaching

2014 – 2017: Bioinformatics and Galaxy seminar for students and postdocs at the University of Freiburg and MPI-IE Freiburg, shared teaching, 2x/year
2008       Internship mentor of the DAAD RISE 2008 summer internship program; Free University of Berlin (FUB), Germany (3 months)
2006       Public relations work as part of the Night of Science 2006 in Berlin, Evolution and Systematics, Free University of Berlin (FUB), Germany

Journal articles

1. Ramirez F, Ryan DP, Gruning B, Bhardwaj V, Kilpert F, Richter AS, Heyne S, Dundar F, Manke T. deeptools2: a next generation web server for deep-sequencing data analysis. Nuc. Acids Res.44:160-165 (2016)

2. Uhlig C, Kilpert F, Frickenhaus S, Kegel JU, Krell A, Mock T, Valentin K, Beszteri B. In situ expression of eukaryotic ice-binding proteins in microbial communities of Arctic and Antarctic sea ice. ISME Journal 9:2537-2540 (2015).

3. Vergin KL, Beszteri B, Monier A, Thrash JC, Treusch AH, Kilpert F, Worden AZ, Giovannoni SJ*. High resolution SAR11 ecotype dynamics at the Bermuda Atlantic Timeseries Study site as determined by phylogenetic placement of pyrosequences. ISME Journal 7:1322-1332 (2013)

4. Kilpert F, Held C, Podsiadlowski L. Multiple rearrangements in mitochondrial genomes of Isopoda and phylogenetic implications. Mol. Phylogenet. Evol. 64: 106–117 (2012)

5. Kilpert F, Podsiadlowski L. The mitochondrial genome of the Japanese skeleton shrimp Caprella mutica (Amphipoda: Caprellidea) reveals a unique gene order and shared apomorphic translocations with Gammaridea. Mitochondrial DNA 21: 77–86 (2010)

6. Kilpert F, Podsiadlowski L. The Australian fresh water isopod (Phreatoicidea: Isopoda) allows insights into the early mitogenomic evolution of isopods. Comp. Biochem. Physiol. Part D Genomics Proteomics 5: 36–44 (2010)

7. Kilpert F, Podsiadlowski L*. The complete mitochondrial genome of the common sea slater, Ligia oceanica (Crustacea, Isopoda) bears a novel gene order and unusual control region features. BMC Genomics 7: 241 (2006)