WHO WE ARE
A new core facility is being established at the Medical University of Gdańsk in the form of the Center of Biostatistics and
The idea of this Computing Centre is to facilitate the work of research teams by increasing the scientific excellence of the published results. The core facility’s key area of operation is to support the process of scientific research and clinical research in the field of biostatistics and bioinformatics, especially in the context of the Priority Research Areas, implemented under the “Excellence Initiative – Research University” program. The Centre employs biostatisticians and bioinformatists whose work is aimed at strengthening interdisciplinarity in research conducted at the MUG.
The core facility offers a wide range of services related to the broadly understood biostatistical and bioinformatic analysis as well as big data analysis. The activity profile includes mainly support for projects based on high-throughput DNA and RNA sequencing (including single cell analysis), as well as other scientific initiatives that require processing of large amounts of data. Additionally, the activities of the Centre will include the use of artificial intelligence in the processing of imaging data and the classification of patient samples.
One of the key initiatives of the Computing Centre is the Biostatistics Clinic, offering MUG employees and doctoral students the opportunity to discuss the optimal approach to statistical data analysis. The Computing Centre will provide researchers with professional support at every stage of research, from designing the measurement methodology, through data acquisition and analysis, to the final interpretation.
An important mission of the Computing Centre is to offer scientists support at any level in the field of bioinformatics analysis. The core facility offers services supporting research needs at the interface of biostatistics, bioinformatics and molecular biology, focusing on the analysis of data from high-throughput sequencing: DNA analysis, gene regulation analysis (miRNA, transcription factors, epigenetics), genome stability analysis, genome variability (SNP) as well as the analysis of genes and proteins of prokaryotic and viral origin.
This is made possible by an advanced computer infrastructure, which creates space for ground-breaking scientific research based on sophisticated calculations. On the technical level, high-quality biostatistical analysis allows for the extraction of the maximum amount of objective information, which ultimately translates into high-quality research work. In this spirit, the Centre places particular emphasis on the high quality of computational processes, thus increasing the MUG’s project capacity.
The effective conduct of advanced scientific research is possible thanks to a structure that facilitates the comprehensive collection and processing of biostatistical, bioinformatic and clinical imaging data. This structure provides advanced data processing tools that facilitate the proper design of research projects. Thanks to professional statistical and biostatistical analysis, it enables and significantly accelerates their comprehensive implementation.
RANGE OF SERVICES
Overview of the services provided
The Computing Centre is a scientific unit that provides comprehensive support for researchers in planning, designing, managing and reporting research projects related to clinical, epidemiological and laboratory research.
- grant projects: designing a scientific research and planning biostatistical analyses (analysis of the sample size/ strength of statistical tests, proposal and description of the statistical methodology),
- scientific publications/abstracts: describing the statistical methodology, statistical analysis of the research questions posed, describing and interpreting the results, presenting the results in graphical and tabular form (in accordance with the recommendations of a scientific journal),
- scientific reviews: writing answers to the questions/ suggestions of reviewers related to statistical analysis,
- medical data: database design and management, data cleaning, data quality maintenance,
- biostatistics consultations: educating in designing scientific research, giving advice on collecting and managing data, supporting the selection of statistical methods, helping in the interpretation of results and in the process of evaluating the quality of scientific publications.
Detailed description of the services provided
The Centre provides a wide range of comprehensive services in the field of advanced biostatistical and bioinformatic analysis. The services are offered primarily to scientists conducting clinical, epidemiological, population, molecular and translational research. The computational techniques offered by the Centre are listed on the Extranet.
1. Biostatistical/Bioinformatic Analysis
The biostatistics/bioinformatics analysis order form can be found on the Extranet.
2. Biostatistical consultations
The biostatistical consultations order form can be found on the Extranet.
1. Environmental exposure to persistent organic pollutants measured in breast milk of lactating women from an urban area in central Poland.
Grešner P, Zieliński M, Ligocka D, Polańska K, Wąsowicz W, Gromadzińska J.
Environ Sci Pollut Res Int. 2021 Jan;28(4):4549-4557
2. Clustered microRNAs: The molecular mechanism supporting the maintenance of luteal function during early pregnancy.
Przygrodzka E, Sokołowska G, Myszczynski K, Krawczynski K, Kaczmarek MM.
FASEB J. 2020 May;34(5):6582-6597
3. Rad51 paralogs and the risk of unselected breast cancer: A case-control study.
Grešner P, Jabłońska E, Gromadzińska J.
PLoS One. 2020 Jan 6;15(1):e0226976
4. The Discovery of a LEMD2-Associated Nuclear Envelopathy with Early Progeroid Appearance Suggests Advanced Applications for AI-Driven Facial Phenotyping.
Marbach F, Rustad CF, Riess A, Đukić D, Hsieh TC, Jobani I, Prescott T, Bevot A, Erger F, Houge G, Redfors M, Altmueller J, Stokowy T, Gilissen C, Kubisch C, Scarano E, Mazzanti L, Fiskerstrand T, Krawitz PM, Lessel D, Netzer C.
Am J Hum Genet. 2019 Apr 4;104(4):749-757
5. Spectrum of Epithelial-Mesenchymal Transition Phenotypes in Circulating Tumour Cells from Early Breast Cancer Patients.
Markiewicz A, Topa J, Nagel A, Skokowski J, Seroczynska B, Stokowy T, Welnicka-Jaskiewicz M, Zaczek AJ.
Cancers (Basel). 2019 Jan 9;11(1):59
6. Comparison of three variant callers for human whole genome sequencing.
Supernat A, Vidarsson OV, Steen VM, Stokowy T.
Sci Rep. 2018 Dec 14;8(1):17851
7. Sequencing of organellar genomes of Gymnomitrion concinnatum (Jungermanniales) revealed the first exception in the structure and gene order of evolutionary stable liverworts mitogenomes.
Myszczyński K, Górski P, Ślipiko M, Sawicki J.
BMC Plant Biol. 2018 Dec 3;18(1):321
8. Enhanced detection of circulating tumor DNA by fragment size analysis.
Mouliere F, Chandrananda D, Piskorz AM, Moore EK, Morris J, Ahlborn LB, Mair R, Goranova T, Marass F, Heider K, Wan JCM, Supernat A, Hudecova I, Gounaris I, Ros S, Jimenez-Linan M, Garcia-Corbacho J, Patel K, Østrup O, Murphy S, Eldridge MD, Gale D, Stewart GD, Burge J, Cooper WN, van der Heijden MS, Massie CE, Watts C, Corrie P, Pacey S, Brindle KM, Baird RD, Mau-Sørensen M, Parkinson CA, Smith CG, Brenton JD, Rosenfeld N.
Sci Transl Med. 2018 Nov 7;10(466):eaat4921
9. Copy number signatures and mutational processes in ovarian carcinoma.
Macintyre G, Goranova TE, De Silva D, Ennis D, Piskorz AM, Eldridge M, Sie D, Lewsley LA, Hanif A, Wilson C, Dowson S, Glasspool RM, Lockley M, Brockbank E, Montes A, Walther A, Sundar S, Edmondson R, Hall GD, Clamp A, Gourley C, Hall M, Fotopoulou C, Gabra H, Paul J, Supernat A, Millan D, Hoyle A, Bryson G, Nourse C, Mincarelli L, Sanchez LN, Ylstra B, Jimenez-Linan M, Moore L, Hofmann O, Markowetz F, McNeish IA, Brenton JD.
Nat Genet. 2018 Sep;50(9):1262-1270
10. Plastid super-barcodes as a tool for species discrimination in feather grasses (Poaceae: Stipa).
Krawczyk K, Nobis M, Myszczyński K, Klichowska E, Sawicki J.
Sci Rep. 2018 Jan 31;8(1):1924
11. Duplicated Enhancer Region Increases Expression of CTSB and Segregates with Keratolytic Winter Erythema in South African and Norwegian Families.
Ngcungcu T, Oti M, Sitek JC, Haukanes BI, Linghu B, Bruccoleri R, Stokowy T, Oakeley EJ, Yang F, Zhu J, Sultan M, Schalkwijk J, van Vlijmen-Willems IMJJ, von der Lippe C, Brunner HG, Ersland KM, Grayson W, Buechmann-Moller S, Sundnes O, Nirmala N, Morgan TM, van Bokhoven H, Steen VM, Hull PR, Szustakowski J, Staedtler F, Zhou H, Fiskerstrand T, Ramsay M.
Am J Hum Genet. 2017 May 4;100(5):737-750
12. Lipid peroxidation and glutathione peroxidase activity relationship in breast cancer depends on functional polymorphism of GPX1.
Jablonska E, Gromadzinska J, Peplonska B, Fendler W, Reszka E, Krol MB, Wieczorek E, Bukowska A, Gresner P, Galicki M, Zambrano Quispe O, Morawiec Z, Wasowicz W.
BMC Cancer. 2015 Oct 7;15:657
13. Dysregulation of markers of oxidative stress and DNA damage among nail technicians despite low exposure to volatile organic compounds.
Grešner P, Stepnik M, Król MB, Swiercz R, Smok-Pieniazek A, Twardowska E, Gromadzińska J, Wasowicz W.
Scand J Work Environ Health. 2015 Nov;41(6):579-93
14. Expression of selenoprotein-coding genes SEPP1, SEP15 and hGPX1 in non-small cell lung cancer.
Gresner P, Gromadzinska J, Jablonska E, Kaczmarski J, Wasowicz W.
Lung Cancer. 2009 Jul;65(1):34-40
Anna Supernat, PhD
Coordinator of the Center of Biostatistics and Bioinformatics Analysis
Medical University of Gdańsk
Dębinki 1 Street
Phone: 58 349 14 38