A5003756066- Fibroblast Growth Factor Research
- Cancer Genomics and Diagnostics
- Kruppel-like factors research
- Prostate Cancer Treatment and Research
- Cancer, Hypoxia, and Metabolism
- Renal cell carcinoma treatment
- Gene expression and cancer classification
- Peptidase Inhibition and Analysis
- Molecular Biology Techniques and Applications
- RNA Research and Splicing
- Single-cell and spatial transcriptomics
- Histone Deacetylase Inhibitors Research
- Genomics and Chromatin Dynamics
- RNA modifications and cancer
- Genomic variations and chromosomal abnormalities
- Polyomavirus and related diseases
- Cancer-related molecular mechanisms research
- Bioinformatics and Genomic Networks
- Antenna Design and Analysis
- Cancer-related gene regulation
- Epigenetics and DNA Methylation
- Zebrafish Biomedical Research Applications
- Protein Degradation and Inhibitors
- Gene Regulatory Network Analysis
- Protease and Inhibitor Mechanisms
University of Helsinki
2006-2025
Institute for Molecular Medicine Finland
2008-2014
Finland University
2006-2011
Karolinska Institutet
2010
Institute for Molecular Medicine
2010
University of Turku
2005-2009
Turku Centre for Biotechnology
2008-2009
VTT Technical Research Centre of Finland
2004-2008
Tampere University
2001-2006
Radboud University Nijmegen
2006
The special AT-rich sequence-binding protein 2 (SATB2), a nuclear matrix-associated transcription factor and epigenetic regulator, was identified as tissue type-specific when screening expression patterns in human normal cancer tissues using an antibody-based proteomics approach. In this respect, the SATB2 shows selective pattern of and, within cells epithelial lineages, is restricted to glandular lining lower gastrointestinal tract. primarily preserved colorectal origin, indicating that...
Abstract Our knowledge on tissue- and disease-specific functions of human genes is rather limited highly context-specific. Here, we have developed a method for the comparison mRNA expression levels most across 9,783 Affymetrix gene array experiments representing 43 normal tissue types, 68 cancer 64 other diseases. This database patterns in tissues pathological conditions covers 113 million datapoints available from GeneSapiens website.
Abstract Translocations fusing the strong androgen-responsive gene, TMPRSS2, with ERG or other oncogenic ETS factors may facilitate prostate cancer development. Here, we studied 18 advanced cancers for factor alterations, using reverse transcription-PCR and DNA RNA array technologies, identified putative downstream gene targets from microarray data of 410 samples. Out 27 factors, was most frequently overexpressed. Seven cases showed TMPRSS2:ERG fusions, whereas TMPRSS2:ETV4 fusion seen in...
Mesenchymal stromal cells (MSC) are shown to have a great therapeutic potential in many immunological disorders. Currently the effect of MSCs is considered be mediated via paracrine interactions with immune cells. Umbilical cord blood an attractive but still less studied source MSCs. We investigated production extracellular membrane vesicles (MVs) from human umbilical derived (hUCBMSC) presence (MVstim) or absence (MVctrl) inflammatory stimulus.hUCBMSCs were cultured serum free media without...
The facilitates chromatin transcription (FACT) complex is involved in remodeling during transcription, replication, and DNA repair. FACT was previously considered to be ubiquitously expressed not associated with any disease. However, we discovered that the target of a class anticancer compounds normal cells adult mammalian tissues, except for undifferentiated stem-like cells. Here, show expression strongly poorly differentiated aggressive cancers low overall survival. In addition, found...
Gene amplifications and deletions are frequent in head neck squamous cell carcinomas (SCC) but the association of these alterations with gene expression is mostly unknown. Here, we characterized genome-wide copy number changes on microarrays for 18 oral tongue SCC (OTSCC) lines. We identified a altered regions including nine high-level such as 6q12-q14 (CD109, MYO6), 9p24 (JAK2, CD274, SLC1A1, RLN1), 11p12-p13 (TRAF6, COMMD9, TRIM44, FJX1, CD44, PDHX, APIP), 11q13 (FADD, PPFIA1, CTTN), 14q24...
One quadrillion synapses are laid in the first two years of postnatal construction human brain, which then pruned until age 10 to 500 trillion composing final network. Genetic epilepsies most common neurological diseases with onset during pruning, affecting 0.5% 2–10-year-old children, and these often characterized by spontaneous remission. We previously described a remitting epilepsy Lagotto romagnolo canine breed. Here, we identify gene defect affected neurochemical pathway. reconstructed...
DNA microarray technologies are used extensively to profile the expression levels of thousands genes under various conditions, yielding extremely large data-matrices. Thus, analyzing this information and extracting biologically relevant knowledge becomes a considerable challenge. A classical approach for tackling challenge is use clustering (also known as one-way clustering) methods where (or respectively samples) grouped together based on similarity their profiles across set all samples...
Aberrant expression and polymorphism of fibroblast growth factor receptor 4 (FGFR4) has been linked to tumor progression anticancer drug resistance. We describe here a novel mechanism by matrix degradation involving epithelial-to-mesenchymal transition in response membrane-type 1 metalloproteinase (MT1-MMP, MMP-14) induction at the edge tumors expressing FGFR4-R388 risk variant. Both FGFR4 MT1-MMP were upregulated tissue biopsies from several human cancer types including breast...
Kinases play key roles in cell signaling and represent major targets for drug development, but the regulation of their activation associations with health disease have not been systematically analyzed. Here, we carried out a bioinformatic analysis expression levels 459 human kinase genes 5681 samples consisting 44 healthy 55 malignant tissues. Defining tissues where were transcriptionally active led to functional genomic taxonomy kinome classification types based on similarity gene...
Aneuploidy is among the most obvious differences between normal and cancer cells. However, mechanisms contributing to development maintenance of aneuploid cell growth are diverse incompletely understood. Functional genomics analyses have shown that aneuploidy in cells correlated with diffuse gene expression signatures can arise by a variety mechanisms, including cytokinesis failures, DNA endoreplication, possibly through polyploid intermediate states. To identify molecular processes...
Gene expression microarray technologies are widely used across most areas of biological and medical research. Comparing integrating data from different experiments would be very useful, but is currently challenging due to the experimental hybridization conditions, as well preprocessing normalization methods. Furthermore, even in case widely-used, industry-standard Affymetrix oligonucleotide microarrays, various array generations have probe sets representing genes, hindering integration. In...
The Yersinia adhesin YadA mediates the adhesion of human enteropathogen enterocolitica to collagens and other components extracellular matrix. Though has been proposed bind a specific site in collagens, exact binding determinants for native collagen have not previously elucidated. We investigated Toolkits, which are libraries triple-helical peptides spanning sequences type II III collagens. bound many them, particular rich hydroxyproline but with few charged residues. were able block IV...
Merkel cell carcinoma (MCC) is a rare but highly aggressive neuroendocrine of the skin with poor prognosis. Improving prognosis MCC by means targeted therapies requires further understanding mechanisms that drive tumor progression. In this study, we aimed to identify genes, processes, and pathways play most crucial roles in determining outcomes. We investigated transcriptomes generated RNA sequencing formalin-fixed paraffin-embedded tissue samples 102 patients identified genes were...
Selector transcription factors control choices of alternative cellular fates during development. The ventral rhombomere 1 the embryonic brainstem produces neuronal precursors that can differentiate into either inhibitory GABAergic or excitatory glutamatergic neurons important for behaviour. Transcription (TFs) Tal1 , Gata2 and Gata3 are required adopting identity inhibiting identity. Here, we asked how these selector TFs activated they developing neurons. We addressed questions by analysing...
Merkel cell carcinoma (MCC) is an aggressive skin cancer with frequent metastasis; however, effective treatment options for advanced disease are often lacking. In this study, we investigated the clinical significance and functional impact of IGF2 mRNA-binding protein 3 (IGF2BP3) in MCC. Our results revealed elevated IGF2BP3 expression metastases compared to that primary tumors. High levels MCCs were associated shorter disease-specific survival rates. MCC xenograft model, lung exhibited...
Selector transcription factors control choices of alternative cellular fates during development. The ventral rhombomere 1 the embryonic brainstem produces neuronal precursors that can differentiate into either inhibitory GABAergic or excitatory glutamatergic neurons important for behaviour. Transcription (TFs) Tal1 , Gata2 and Gata3 are required adopting identity inhibiting identity. Here, we asked how these selector TFs activated they developing neurons. We addressed questions by analysing...
Selector transcription factors control choices of alternative cellular fates during development. The ventral rhombomere 1 the embryonic brainstem produces neuronal precursors that can differentiate into either inhibitory GABAergic or excitatory glutamatergic neurons important for behaviour. Transcription (TFs) Tal1 , Gata2 and Gata3 are required adopting identity inhibiting identity. Here, we asked how these selector TFs activated they developing neurons. We addressed questions by analysing...
Abstract Merkel cell carcinoma (MCC) is an aggressive skin cancer characterized by high metastatic potential and poor survival rates. Identifying biomarkers for early detection of MCC crucial improving clinical outcomes. In this study, we analyzed bulk RNA-sequencing data from the GEO dataset GSE235092, identifying 481 differentially expressed genes (DEGs) between primary tumors (n=43) metastases (n=28) (fold change >2, adjusted p <0.01). Among these, 66 were upregulated 415...