Paul Theodor Pyl

Paul Theodor Pyl NBIS expert

Genomics and metagenomics, Transcriptomics, Mass-spec Proteomics using DDA and DIA, Proteogenomics and Proteotranscriptomics, Cancer

Paul is a bioinformatician with a broad scope of interests. He studied Bioinformatics at the Free University in Berlin and got his PhD at EMBL in Heidelberg, working on comparative cancer genomics using whole exome and whole genome as well as whole transcriptome sequencing. A PostDoc at CBMR in Copenhagen was focused on metagenomics of the gut microbiome and how it relates to colorectal cancer followed by a second PostDoc at the Medical Faulty in Lund, where he worked on proteogenomic and proteotranscriptomic analyses of breast cancer. Paul has tried to work with a variety of different technologies and biological questions over the years and is always happy to delve into something new and exciting with the opportunity to learn and expand his scientific repertoire.

Selected publications

Landry, J. J. M., Pyl, P. T., Rausch, T., Zichner, T., Tekkedil, M. M., Stütz, A. M., Jauch, A., Aiyar, R. S., Pau, G., Delhomme, N., and others (2013) The genomic and transcriptomic landscape of a HeLa cell line. G3: Genes, Genomes, Genetics, 3, 1213–1224.

Pyl, P. T., Gehring, J., Fischer, B., and Huber, W. (2014) h5vc: scalable nucleotide tallies with HDF5. Bioinformatics, 30, 1464–1466.

Anders, S., Pyl, P. T., and Huber, W. (2015) HTSeq: Python framework to work with high-throughput sequencing data. Bioinformatics, 31, 166–169.

Seckinger, A., Jauch, A., Emde, M., Beck, S., Mohr, M., Granzow, M., Hielscher, T., Rème, T., Schnettler, R., Fard, N., and others (2016) Asymptomatic multiple myeloma-background of progression, evolution, and prognosis.

Palleja, A., Mikkelsen, K. H., Forslund, S. K., Kashani, A., Allin, K. H., Nielsen, T., Hansen, T. H., Liang, S., Feng, Q., Zhang, C., and others (2018) Recovery of gut microbiota of healthy adults following antibiotic exposure. Nature microbiology, 3, 1255–1265.

Engelbrechtsen, L., Hansen, T. H., Mahendran, Y., Pyl, P., Andersson, E., Jonsson, A., Gjesing, A., Linneberg, A., Jørgensen, T., Hansen, T., and others (2017) Homozygous carriers of the TCF7L2 rs7903146 T-allele show altered postprandial response in triglycerides and triglyceride-rich lipoproteins. Scientific reports, 7, 1–8.

Wirbel, J., Pyl, P. T., Kartal, E., Zych, K., Kashani, A., Milanese, A., Fleck, J. S., Voigt, A. Y., Palleja, A., Ponnudurai, R., and others (2019) Meta-analysis of fecal metagenomes reveals global microbial signatures that are specific for colorectal cancer. Nature medicine, 25, 679–689.