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.
Maintenance of drug metabolism and transport functions in human precision-cut liver slices during prolonged incubation for 5 daysStarokozhko Viktoriia, Vatakuti Suresh, Schievink Bauke H. et al.Archives of Toxicology, 2017, 91(5), 2079-2092.
Visual integration of multiple omics data from human pluripotent stem cell-derived cardiomyocytes
Sartipy Peter, Holmgren Gustav, Synnergren Jane et al.International Society for Stem Cell Research (ISSCR) Annual meeting, Boston 14–17 June 2017 (13). 2017.
Comparative transcriptomic analysis identifies genes differentially expressed in human epicardial progenitors and hiPSC-derived cardiac progenitorsSynnergren Jane, Drowley Lauren, Plowright Alleyn T. et al.Physiological Genomics, 2016, 48(11), 771-784.
Highly Synchronized Expression of Lineage-Specific Genes during In Vitro Hepatic Differentiation of Human Pluripotent Stem Cell Lines
Ghosheh Nidal, Olsson Björn, Edsbagge Josefina et al.Stem Cells International, 2016, 2016.
Interactive visualization of large-scale gene expression data
Riveiro Maria, Lebram Mikael, Andersson Christian X. et al.Information Visualisation: Computer Graphics, Imaging and Visualisation (348-354). IEEE Computer Society, 2016.
MicroRNAs as potential biomarkers for doxorubicin-induced cardiotoxicity
Holmgren Gustav, Synnergren Jane, Andersson Christian X. et al.Toxicology in Vitro, 2016, 34, 26-34.
Towards Creating the Perfect In Vitro Cell Model
Jonsson Malin K. B., van Veen Toon A. B., Synnergren Jane et al.Stem Cells International, 2016, 2016.
Transcriptional profiling of human embryonic stem cells during mesodermal- and cardiac differentiation
Synnergren Jane Marie, Ameén Caroline, Åkesson Karolina et al.International Society for Stem Cell Research (ISSCR) Annual meeting, San Fransisco 22–25 June 2016 (432). International Society for Stem Cell Research, 2016.
Gene networks and transcription factor motifs defining the differentiation of stem cells into hepatocyte-like cellsGodoy Patricio, Schmidt-Heck Wolfgang, Natarajan Karthick et al.Journal of Hepatology, 2015, 63(4), 934-942.
Identification of novel biomarkers for doxorubicin-induced toxicity in human cardiomyocytes derived from pluripotent stem cells
Holmgren Gustav, Synnergren Jane, Bogestål Yalda et al.Toxicology, 2015, 328, 102-111.