Aleksandra Ola Tarkowska
I work in Cellular Genetics Informatics group as a Solution Architect building a large-scale data infrastructure to provide fast and easy access to petabytes of heterogeneous imaging data sets for Human Cell Atlas. I hold Master degree in Software Engineering obtained from University of Technology in Lodz. My main interest of research and development is in the area of data resources for life science.
Publications
-
A new genomic blueprint of the human gut microbiota.
Nature 2019;568;7753;499-504
PUBMED: 30745586; PMC: 6784870; DOI: 10.1038/s41586-019-0965-1
-
Eleven quick tips to build a usable REST API for life sciences.
PLoS computational biology 2018;14;12;e1006542
PUBMED: 30543619; PMC: 6292566; DOI: 10.1371/journal.pcbi.1006542
-
The Image Data Resource: A Bioimage Data Integration and Publication Platform.
Nature methods 2017;14;8;775-781
PUBMED: 28775673; PMC: 5536224; DOI: 10.1038/nmeth.4326
-
Metadata management for high content screening in OMERO.
Methods (San Diego, Calif.) 2016;96;27-32
PUBMED: 26476368; PMC: 4773399; DOI: 10.1016/j.ymeth.2015.10.006
-
Publishing and sharing multi-dimensional image data with OMERO.
Mammalian genome : official journal of the International Mammalian Genome Society 2015;26;9-10;441-7
PUBMED: 26223880; PMC: 4602067; DOI: 10.1007/s00335-015-9587-6
-
OMERO: flexible, model-driven data management for experimental biology.
Nature methods 2012;9;3;245-53
PUBMED: 22373911; PMC: 3437820; DOI: 10.1038/nmeth.1896
-
Metadata matters: access to image data in the real world.
The Journal of cell biology 2010;189;5;777-82
PUBMED: 20513764; PMC: 2878938; DOI: 10.1083/jcb.201004104
-
Bioimage informatics for experimental biology.
Annual review of biophysics 2009;38;327-46
PUBMED: 19416072; PMC: 3522875; DOI: 10.1146/annurev.biophys.050708.133641
-
Benchmarking taxonomic assignments based on 16S rRNA gene profiling of the microbiota from commonly sampled environments.
GigaScience 2018;7;5
PUBMED: 29762668; PMC: 5967554; DOI: 10.1093/gigascience/giy054
-
EBI Metagenomics in 2017: enriching the analysis of microbial communities, from sequence reads to assemblies.
Nucleic acids research 2018;46;D1;D726-D735
PUBMED: 29069476; PMC: 5753268; DOI: 10.1093/nar/gkx967
-
Eleven quick tips to build a usable REST API for life sciences.
PLoS computational biology 2018;14;12;e1006542
PUBMED: 30543619; PMC: 6292566; DOI: 10.1371/journal.pcbi.1006542
-
Benchmarking taxonomic assignments based on 16S rRNA gene profiling of the microbiota from commonly sampled environments.
GigaScience 2018;7;5
PUBMED: 29762668; PMC: 5967554; DOI: 10.1093/gigascience/giy054
-
EBI Metagenomics in 2017: enriching the analysis of microbial communities, from sequence reads to assemblies.
Nucleic acids research 2018;46;D1;D726-D735
PUBMED: 29069476; PMC: 5753268; DOI: 10.1093/nar/gkx967
-
The Image Data Resource: A Bioimage Data Integration and Publication Platform.
Nature methods 2017;14;8;775-781
PUBMED: 28775673; PMC: 5536224; DOI: 10.1038/nmeth.4326
-
Metadata management for high content screening in OMERO.
Methods (San Diego, Calif.) 2016;96;27-32
PUBMED: 26476368; PMC: 4773399; DOI: 10.1016/j.ymeth.2015.10.006
-
Publishing and sharing multi-dimensional image data with OMERO.
Mammalian genome : official journal of the International Mammalian Genome Society 2015;26;9-10;441-7
PUBMED: 26223880; PMC: 4602067; DOI: 10.1007/s00335-015-9587-6
-
OMERO: flexible, model-driven data management for experimental biology.
Nature methods 2012;9;3;245-53
PUBMED: 22373911; PMC: 3437820; DOI: 10.1038/nmeth.1896
-
Metadata matters: access to image data in the real world.
The Journal of cell biology 2010;189;5;777-82
PUBMED: 20513764; PMC: 2878938; DOI: 10.1083/jcb.201004104
-
Bioimage informatics for experimental biology.
Annual review of biophysics 2009;38;327-46
PUBMED: 19416072; PMC: 3522875; DOI: 10.1146/annurev.biophys.050708.133641