Institutionen för biovetenskap
I am Associate Professor in bioinformatics at the University of Skövde, Sweden, and Head of the Bioinformatics research group consisting of a group of 13 researchers with a dedicated interest in bioinformatics. I have a background in Data Science and received my MSc in Computer Sciences from the University of Skövde in 2003. During my graduate studies I developed my expertise in bioinformatics and large-scale omics data analysis and received my PhD from the University of Gothenburg in 2010.
My research is focused on analysis methods for identification of biomarkers and integration of multiple types of omics data. I am PI for several research projects specialized in stem cell differentiation, toxicity testing and disease modeling using stem cell based in vitro systems. I am also leading projects particularly focused on advanced analysis of big data, biomarker identification, and data integration including machine-learning methods.
Working in close collaboration with the stem cell industry and the pharmaceutical industry we perform global expression studies including transcriptomics, proteomics, epigenomics, and metabolomics of human pluripotent stem cells during their differentiation towards functional cell types. The results from these studies have revealed mechanistic highlights during the early phases of stem cell differentiation and identified biomarkers with potential importance for applications in toxicity testing, drug development, and disease modeling.
Identification of stable reference genes in differentiating human pluripotent stem cellsHolmgren Gustav, Ghosheh Nidal, Zeng Xianmin et al.Physiological Genomics, 2015, 47(6), 232-239.
Clinical Outcome 3 Years After Autologous Chondrocyte Implantation Does Not Correlate With the Expression of a Predefined Gene Marker Set in Chondrocytes Prior to Implantation but Is Associated With Critical Signaling PathwaysStenberg Johan, de Windt Tommy S., Synnergren Jane et al.The Orthopaedic Journal of Sports Medicine, 2014, 2(9), 1-14.
Effects of interleukin-6 and interleukin-1β on expression of growth differentiation factor-5 and Wnt signaling pathway genes in equine chondrocytes
Svala Emilia, Thorfve Anna I., Ley Cecilia et al.American Journal of Veterinary Research, 2014, 75(2), 132-140.
Explore transcription factor profiles in human pluripotent stem cells
Synnergren Jane6th International Conference on Bioinformatics and Computational Biology (BICoB 2014): Las Vegas, Nevada, USA, 24 – 26 March 2014 (197-202). International Society for Computers and Their Applications, 2014.
Long-term chronic toxicity testing using human pluripotent stem cell-derived hepatocytes
Holmgren Gustav, Sjögren Anna-Karin, Barragan Isabel et al.Drug Metabolism And Disposition, 2014, 42(9), 1401-1406.
Hepatic differentiation and maturation of human embryonic stem cells cultured in a perfused three-dimensional bioreactorSivertsson Louise, Synnergren Jane, Jensen Janne et al.Stem Cells and Development, 2013, 22(4), 581-594.
Identification of miRNAs in Control of Aberrant Gene Transcription in Human Pluripotent Stem Cell Derived Hepatocytes
Synnergren JaneComputer Applications in Industry and Engineering (CAINE-2013), 26th International Conference September 25-27, 2013, Los Angeles, California, USA (11-16). International Society for Computers and Their Applications, 2013.
Comparison of human cardiac gene expression profiles in paired samples of right atrium and left ventricle collected in vivoAsp Julia, Synnergren Jane, Jonsson Marianne et al.Physiological Genomics, 2012, 44(1), 89-98.
Global transcriptional profiling reveals similarities and differences between human stem cell-derived cardiomyocyte clusters and heart tissue
Synnergren Jane, Ameen Caroline, Jansson Andreas et al.Physiological Genomics, 2012, 44(4), 245-258.
High expression of arachidonate 15-lipoxygenase and proinflammatory markers in human ischemic heart tissue
Magnusson Lisa U., Lundqvist Annika, Asp Julia et al.Biochemical and Biophysical Research Communications - BBRC, 2012, 424(2), 327-330.