Marcin Kierczak NBIS expert
genomics, population genomics, R, GWAS, machine learning, AI, eDNA
| marcin.kierczak@scilifelab.se | |
|---|---|
| phone | +46 18 - 471 66 93 |
| home | www.kierczak.net |
 |
https://orcid.org/0000-0003-2629-5655 |
I am an associate professor in bioinformatics with expertise in genomics and statistical learning/AI. I studied Molecular Biology, Mathematics and Computer Science at the University of Warsaw (BSc) and at the Uppsala University (MSc). In 2009, I received PhD in bioinformatics from Uppsala University. My doctoral studies have focused on the application of machine learning to modeling HIV resistance to drugs and in proteomics. In 2010 I joined the Computational Biology Group led by prof. Orjan Carlborg at the Swedish University of Agricultural Sciences. There, I worked on modelling epistatic interactions and developing methods for genome-wide association studies. Next, I returned to Uppsala University to join the group led by prof. Kerstin Lindblad-Toh where I worked on canine genomics and computational genetics. I am particularly interested in ML/AI models, feature selection, linear mixed models and data visualisation. I joined NBIS Sweden in 2017 where I also became fond of population genomics and analyses of eDNA.
Besides my scientific interests, I am a big enthusiast of R and I teach R programming at both introductory as well as at advanced level. I am a founder and main responsible (along with Sebastian DiLorenzo) of RaukR, Advanced R for Bioinformatics International Summer School held annualy in Visby. I collaborate with RStudio open source team.
Selected publications
Tengvall, K., Kierczak, M., Bergvall, K., Olsson, M., Frankowiack, M., Farias, F. H. G., Pielberg, G., Carlborg, Ö., Leeb, T., Andersson, G., and others (2013) Genome-wide analysis in German shepherd dogs reveals association of a locus on CFA 27 with atopic dermatitis. PLoS genetics , 9 , e1003475.
Richter-Boix, A., Quintela Marı́a, Kierczak, M., Franch, M., and Laurila, A. (2013) Fine-grained adaptive divergence in an amphibian: genetic basis of phenotypic divergence and the role of nonrandom gene flow in restricting effective migration among wetlands. Molecular ecology , 22 , 1322–1340.
Forsberg, S. K. G., Kierczak, M., Ljungvall, I., Merveille, A.-C., Gouni, V., Wiberg, M., Lundgren Willesen, J., Hanås, S., Lequarre, A.-S., Mejer Sørensen, L., and others (2015) The shepherds’ tale: a genome-wide study across 9 dog breeds implicates two loci in the regulation of fructosamine serum concentration in Belgian shepherds. PloS one , 10 , e0123173.
Kierczak, M., Jabłońska, J., Forsberg, S. K. G., Bianchi, M., Tengvall, K., Pettersson, M., Scholz, V., Meadows, J. R. S., Jern, P., Carlborg, Ö., and others (2015) Cgmisc: Enhanced genome-wide association analyses and visualization. Bioinformatics , 31 , 3830–3831.
Montoliu-Nerin, M., Sánchez-Garcı́a Marisol, Bergin, C., Grabherr, M., Ellis, B., Kutschera, V. E., Kierczak, M., Johannesson, H., and Rosling, A. (2020) Building de novo reference genome assemblies of complex eukaryotic microorganisms from single nuclei. Scientific reports , 10 , 1–10.
Lord, E., Dussex, N., Kierczak, M., Dı́ez-del-Molino David, Ryder, O. A., Stanton, D. W. G., Gilbert, M. T. P., Sánchez-Barreiro, F., Zhang, G., Sinding, M.-H. S., and others (2020) Pre-extinction demographic stability and genomic signatures of adaptation in the woolly rhinoceros. Current Biology , 30 , 3871–3879.
Christmas, M. J., Jones, J. C., Olsson, A., Wallerman, O., Bunikis, I., Kierczak, M., Peona, V., Whitley, K. M., Larva, T., Suh, A., and others (2021) Genetic barriers to historical gene flow between cryptic species of alpine bumblebees revealed by comparative population genomics. Molecular Biology and Evolution.
Von Seth, J., Dussex, N., Dı́ez-del-Molino David, Van Der Valk, T., Kutschera, V. E., Kierczak, M., Steiner, C. C., Liu, S., Gilbert, M. T. P., Sinding, M.-H. S., and others (2021) Genomic insights into the conservation status of the world’s last remaining Sumatran rhinoceros populations. Nature communications , 12 , 1–11.
Arendt, M., Ambrosen, A., Fall, T., Kierczak, M., Tengvall, K., Meadows, J. R. S., Karlsson, Å., Lagerstedt, A.-S., Bergström, T., Andersson, G., and others (2021) The ABCC4 gene is associated with pyometra in golden retriever dogs. Scientific reports , 11 , 1–11.
Marcin Kierczak NBIS expert
genomics, population genomics, R, GWAS, machine learning, AI, eDNA
| marcin.kierczak@scilifelab.se | |
|---|---|
| phone | +46 18 - 471 66 93 |
| home | www.kierczak.net |
|
https://orcid.org/0000-0003-2629-5655 |
I am an associate professor in bioinformatics with expertise in genomics and statistical learning/AI. I studied Molecular Biology, Mathematics and Computer Science at the University of Warsaw (BSc) and at the Uppsala University (MSc). In 2009, I received PhD in bioinformatics from Uppsala University. My doctoral studies have focused on the application of machine learning to modeling HIV resistance to drugs and in proteomics. In 2010 I joined the Computational Biology Group led by prof. Orjan Carlborg at the Swedish University of Agricultural Sciences. There, I worked on modelling epistatic interactions and developing methods for genome-wide association studies. Next, I returned to Uppsala University to join the group led by prof. Kerstin Lindblad-Toh where I worked on canine genomics and computational genetics. I am particularly interested in ML/AI models, feature selection, linear mixed models and data visualisation. I joined NBIS Sweden in 2017 where I also became fond of population genomics and analyses of eDNA.
Besides my scientific interests, I am a big enthusiast of R and I teach R programming at both introductory as well as at advanced level. I am a founder and main responsible (along with Sebastian DiLorenzo) of RaukR, Advanced R for Bioinformatics International Summer School held annualy in Visby. I collaborate with RStudio open source team.
Selected publications
Tengvall, K., Kierczak, M., Bergvall, K., Olsson, M., Frankowiack, M., Farias, F. H. G., Pielberg, G., Carlborg, Ö., Leeb, T., Andersson, G., and others (2013) Genome-wide analysis in German shepherd dogs reveals association of a locus on CFA 27 with atopic dermatitis. PLoS genetics , 9 , e1003475.
Richter-Boix, A., Quintela Marı́a, Kierczak, M., Franch, M., and Laurila, A. (2013) Fine-grained adaptive divergence in an amphibian: genetic basis of phenotypic divergence and the role of nonrandom gene flow in restricting effective migration among wetlands. Molecular ecology , 22 , 1322–1340.
Forsberg, S. K. G., Kierczak, M., Ljungvall, I., Merveille, A.-C., Gouni, V., Wiberg, M., Lundgren Willesen, J., Hanås, S., Lequarre, A.-S., Mejer Sørensen, L., and others (2015) The shepherds’ tale: a genome-wide study across 9 dog breeds implicates two loci in the regulation of fructosamine serum concentration in Belgian shepherds. PloS one , 10 , e0123173.
Kierczak, M., Jabłońska, J., Forsberg, S. K. G., Bianchi, M., Tengvall, K., Pettersson, M., Scholz, V., Meadows, J. R. S., Jern, P., Carlborg, Ö., and others (2015) Cgmisc: Enhanced genome-wide association analyses and visualization. Bioinformatics , 31 , 3830–3831.
Montoliu-Nerin, M., Sánchez-Garcı́a Marisol, Bergin, C., Grabherr, M., Ellis, B., Kutschera, V. E., Kierczak, M., Johannesson, H., and Rosling, A. (2020) Building de novo reference genome assemblies of complex eukaryotic microorganisms from single nuclei. Scientific reports , 10 , 1–10.
Lord, E., Dussex, N., Kierczak, M., Dı́ez-del-Molino David, Ryder, O. A., Stanton, D. W. G., Gilbert, M. T. P., Sánchez-Barreiro, F., Zhang, G., Sinding, M.-H. S., and others (2020) Pre-extinction demographic stability and genomic signatures of adaptation in the woolly rhinoceros. Current Biology , 30 , 3871–3879.
Christmas, M. J., Jones, J. C., Olsson, A., Wallerman, O., Bunikis, I., Kierczak, M., Peona, V., Whitley, K. M., Larva, T., Suh, A., and others (2021) Genetic barriers to historical gene flow between cryptic species of alpine bumblebees revealed by comparative population genomics. Molecular Biology and Evolution.
Von Seth, J., Dussex, N., Dı́ez-del-Molino David, Van Der Valk, T., Kutschera, V. E., Kierczak, M., Steiner, C. C., Liu, S., Gilbert, M. T. P., Sinding, M.-H. S., and others (2021) Genomic insights into the conservation status of the world’s last remaining Sumatran rhinoceros populations. Nature communications , 12 , 1–11.
Arendt, M., Ambrosen, A., Fall, T., Kierczak, M., Tengvall, K., Meadows, J. R. S., Karlsson, Å., Lagerstedt, A.-S., Bergström, T., Andersson, G., and others (2021) The ABCC4 gene is associated with pyometra in golden retriever dogs. Scientific reports , 11 , 1–11.