Publication archives


Rubio Zhong et al. Self‐Assembly of Enzyme‐Like Nanofibrous G‐Molecular Hydrogel for Printed Flexible Electrochemical Sensors. Advanced Materials. 2018 Mar;30(12):e1706887.  Pubmed

Yueqi Zhu et al. Endovascular Metal Devices for the Treatment of Cerebrovascular Diseases. Advanced Materials. 2018 Sept. 28.

Mathieu C et al.Immunological biomarkers for the development and progression of type 1 diabetes. Diabetologia. 2018 Sep 12. Pubmed

Lietzen N et al. Enterovirus-associated changes in blood transcriptomic profiles of children with genetic susceptibility to type 1 diabetes. Diabetologia. 2018 Feb;61(2):381-388. Epub 2017 Nov 8. Pubmed

Mukherjee SP et al. Macrophage sensing of single-walled carbon nanotubes via Toll-like receptors. Scientific Reports. 2018 Jan 18;8(1):1115. Pubmed

Singh A et al. Mapping architectural and transcriptional alterations in non-lesional and lesional epidermis in vitiligo. Scientific Reports. 2017 Aug 29;7(1):9860. Pubmed

Moulder R et al. Analysis of the plasma proteome using iTRAQ and TMT-based Isobaric labeling. Mass Spectrom Rev. 2017 Nov 9. doi: 10.1002/mas.21550. [Epub ahead of print] Review. Pubmed

Westermarck J. Targeted therapies don’t work for a reason; the neglected tumor suppressor phosphatase PP2A strikes back. The FEBS Journal. 2018 Jul 28. [Epub ahead of print]. Pubmed

Shentu YP et al. CIP2A Causes Tau/APP Phosphorylation, Synaptopathy, and Memory Deficits in Alzheimer’s Disease. Cell Reports. 2018 Jul 17;24(3):713-723. Pubmed

Kerosuo L et al. Enhanced expression of MycN/CIP2A drives neural crest toward a neural stem cell-like fate: Implications for priming of neuroblastoma. Proc Natl Acad Sci U S A. 2018 Jul 18. Pubmed

Kauko O et al. PP2A inhibition is a druggable MEK inhibitor resistance mechanism in KRAS-mutant lung cancer cells. Sci Transl Med. 2018 Jul 2018. Pubmed

Mohammad I et al. Quantitative proteomic characterization and comparison of T helper 17 and induced regulatory T cells. PLoS Biol. 2018 May 31;16(5):e2004194. Pubmed

Mohammad I et al. Estrogen receptor α contributes to T cell-mediated autoimmune inflammation by promoting T cell activation and proliferation. Sci Signal. 2018 Apr 17;11(526). Pubmed

Bhosale SD et al. Serum Proteomic Profiling to Identify Biomarkers of Premature Carotid Atherosclerosis. Sci Rep. 8:9209, 2018. Pubmed

Nousiainen K et al. snpEnrichR: Aanalyzing co-localization of SNPs and their proxies in genomic regions. Bioinformatics. 2018 Jun 7. Pubmed

Lund RJ et al. Atopic asthma after rhinovirus-induced wheezing is associated with DNA methylation change in the SMAD3 gene promoter. Allergy. 2018 May 5. Pubmed

Schmidt A et al. Time-resolved transcriptome and proteome landscape of human regulatory T cell (Treg) differentiation reveals novel regulators of FOXP3. BMC Biol. 16:47, 2018. Pubmed

Nicole C. A. van Engeland et al. A biomimetic microfluidic model to study signalling between endothelial and vascular smooth muscle cells under hemodynamic conditions. Lab on a Chip. Accepted 11th April 2018. Pubmed

Lee WH et al. Disruption of nNOS-NOS1AP protein-protein interactions suppresses neuropathic pain in mice. Pain. 2018. Pubmed

Tiemeijer L.A et al. Spatial patterning of the Notch ligand Dll4 controls endothelial sprouting in vitro. Scientific Reports, Volume 8. 2018. Pubmed

Lietzén N et al. Characterization and non-parametric modeling of the developing serum proteome during infancy and early childhood. Sci Rep. 2018. Pubmed

Ubaid U et al. Transcriptional Repressor HIC1 Contributes to Suppressive Function of Human Induced Regulatory T Cells. Cell Rep. 2018. Pubmed

Mukherjee SP et al. Macrophage sensing of single-walled carbon nanotubes via Toll-like receptors. Sci Rep. 2018. Pubmed

Loerakker S et al. Mechanosensitivity of Jagged–Notch signaling can induce a switch-type behavior in vascular homeostasis. Published ahead of print April 2, 2018. Link to text

Jelle J. F. Sleeboom et al. Metastasis in context: modeling the tumor microenvironment with cancer-on-a-chip approaches. Disease Models & Mechanisms 2018. Link to text

Antila CJMet al. Sumoylation of Notch1 represses its target gene expression during cell stress. Cell Death Differ. 2018 Pubmed

Tanaka N et al. Mapping of the three-dimensional lymphatic microvasculature in bladder tumours using light-sheet microscopy. Br J Cancer. 2018 Mar 8. [Epub ahead of print]. Pubmed

Mauretti A et al. Cardiac Progenitor Cells and the Interplay with Their Microenvironment. Stem Cells Int. 2017. Pubmed

Bhosale SD et al. Mass Spectrometry-Based Serum Proteomics for Biomarker Discovery and Validation. Methods Mol Biol. 2017. Pubmed

Singh A et al. Mapping architectural and transcriptional alterations in non-lesional and lesional epidermis in vitiligo. Sci Rep. 2017. Pubmed

Birkman EM et al. Protein phosphatase 2A (PP2A) inhibitor CIP2A indicates resistance to radiotherapy in rectal cancer. Cancer Med. 2018. Pubmed

Balasubramanian V et al. Cell Membranes based Nanoreactor to Mimic the Bio-Compartmentalization Strategy of a Cell. ACS Biomater. Sci. Eng. 2018. Link to text

Lund RJ et al. RNA Polymerase III Subunit POLR3G Regulates Specific Subsets of PolyA+ and SmallRNA Transcriptomes and Splicing in Human Pluripotent Stem Cells. Stem Cell Reports. 2017. Pubmed

Tripathi SK et al. Genome-wide Analysis of STAT3-Mediated Transcription during Early Human Th17 Cell Differentiation. Cell Rep. 2017. Link to text

Zhang H et al. Gold Nanorods Conjugated Porous Silicon Nanoparticles Encapsulated in Calcium Alginate Nano Hydrogels Using Microemulsion Templates. Nano Lett. 2018 Link to text

Zhang Y et al. Programmable and Multifunctional DNA-Based Materials for Biomedical Applications. Advanced Materials. 2018 Jun;30(24):e1703658. Pub

Liu Z et al. Multifunctional Nanohybrid Based on Porous Silicon Nanoparticles, Gold Nanoparticles and Acetalated Dextran for Liver Regeneration and Acute Liver Failure Theranostics. Advanced Materials. 2018 Jun;30(24):e1703393. Pubmed

Kauko O and Westermarck J. Non-genomic mechanisms of Protein Phosphatase 2A (PP2A) regulation in cancer. The International Journal of Biochemistry & Cell Biology. 2018. Pubmed

Westermarck J. Phosphatases catching up with the level of knowledge; finally druggable? The International Journal of Biochemistry & Cell Biology. 2018 Mar;96:96-97. Pubmed


Lund RJ et al. DNA methylation and Transcriptome Changes Associated with Cisplatin Resistance in Ovarian Cancer. Sci Rep. 2017. Pubmed

Nguyen EV et al. Hyper-phosphorylation of Sequestosome-1 Distinguishes Resistance to Cisplatin in Patient Derived High Grade Serous Ovarian Cancer Cells. Mol Cell Proteomics 16. 2017. Pubmed

Peuhu E et al. Epithelial vimentin plays a functional role in mammary gland development. Development 144. 2017. Link to text

Peuhu E et al. Integrin beta1 inhibition alleviates the chronic hyperproliferative dermatitis phenotype of SHARPIN-deficient mice. Plos One. 2017. Link to text

Li Z et al. AMIGO2 modulates T cell functions and its deficiency in mice ameliorates experimental autoimmune encephalomyelitis. Brain Behav Immun. 62. 2017. Pubmed

Haataja S et al. Rationally designed chemically modified glycodendrimer inhibits Streptococcus suis adhesin SadP at picomolar concentrations. Chemistry [Epub ahead of print]. 2017. Pubmed

Liu Y et al. PWP1 Mediates Nutrient-Dependent Growth Control through Nucleolar Regulation of Ribosomal Gene Expression. Dev Cell. 2017. Pubmed

Kaukonen R et al. Cell-derived matrices for studying cell proliferation and directional migration in a complex 3D microenvironment. Nature Protocols 12. 2017. Link to text

Sents W et al. PP2A inactivation mediated by PPP2R4 haploinsufficiency promotes cancer development. Cancer Res. 2017. Pubmed

Lindqvist J et al.   Nestin contributes to skeletal muscle homeostasis and regeneration. J. Cell Sci. 2017. Pubmed

Gullmets J et al. Internal epithelia in Drosophila display rudimentary competence to form cytoplasmic networks of transgenic human vimentin. FASEB J. 2017. Pubmed

Cheng F, Eriksson JE. Intermediate Filaments and the Regulation of Cell Motility during Regeneration and Wound Healing. Cold Spring Harb Perspect Biol. 2017. Pubmed

Tanaka T N et al. Whole-tissue biopsy phenotyping of three-dimensional tumours reveals cancer heterogeneity. Nature Biomedical Engineering. 2017. Link to text

Mauretti A et al. Spheroid 3D culture and hypoxia activate Notch signaling in cardiac progenitor cells MRS Communication. 2017.

Sahlgren C et al. Tailored approaches in drug development and diagnostics ? from molecular design to biological model systems. Advanced Health Care Materials. 2017

Seyednasrollah F et al. A DREAM Challenge to build prediction models for short-term discontinuation of docetaxel in metastatic castration-resistant prostate cancer. JCO Clinical Cancer Informatics, no. 1 (September 2017) 1-15.

Posada IMD et al. Opposite feedback from mTORC1 to H-ras and K-ras4B downstream of SREBP1. Sci Rep. 2017.

Pasumarthy KP et al. Methylome Analysis of Human Bone Marrow MSCs Reveals Extensive Age- and Culture-Induced Changes at Distal Regulatory Elements. Stem Cell Rep. 2017. Link to text

Anniina Vihervaara et al. Transcriptional response to stress is pre-wired by promoter and enhancer architecture. Nature Communications, 2017. Pubmed

Ilkka Paatero et al. Analyses in zebrafish embryos reveal that nanotoxicity profiles are dependent on surface-functionalization controlled penetrance of biological membranes. Scientific Reports 2017. Link to Text

Valensisi C et al. Epigenomic Landscapes of hESC-Derived Neural Rosettes: Modeling Neural Tube Formation and Diseases. Cell Rep. 2017.

Rautakorpi LK et al. End-of-life chemotherapy use at a Finnish university hospital: a retrospective cohort study. Acta Oncol. 2017.

Välikangas T et al. A comprehensive evaluation of popular proteomics software workflows for label-free proteome quantification and imputation. Brief Bioinform. 2017.

Suomi T et al. ROTS: An R package for reproducibility-optimized statistical testing. PLOS Computational Biology 2017.Link to text

Rautakorpi LK et al. Assessing the utilization of radiotherapy near end of life at a Finnish University Hospital: a retrospective cohort study. Acta Oncol. 2017.

Fatemeh Seyednasrollah et al. How Reliable are Trial-based Prognostic Models in Real-world Patients with Metastatic Castration-resistant Prostate Cancer? European Urology, Feb 8, 2017.

Seyednasrollah F et al. Prediction of adulthood obesity using genetic and childhood clinical risk factors in the Cardiovascular Risk in Young Finns Study. To appear in Circ Cardiovasc Genet.

Meraj H. Khan et al. The Sharpin interactome reveals a role for Sharpin in lamellipodium formation via the Arp2/3 complex. J Cell Sci 2017. Link to tex

Perveen S et al. Anthranilate phosphoribosyltransferase from the hyperthermophilic archaeon Thermococcus kodakarensis shows maximum activity with zinc and forms a unique dimeric structure. FEBS Open Bio. 2017. Pubmed

Jacquemet G et al. FiloQuant reveals increased filopodia density during breast cancer progression. J Cell Biol. 2017. Link to text

Melero-Fernandez de Mera RM et al. A simple optogenetic MAPK inhibitor design reveals resonance between transcription-regulating circuitry and temporally-encoded inputs. Nat. Commun. 2017  Link to text

Daniel Antfolk, Marika Sjöqvist, Fang Chenga, Kimmo Isoniemi Camille L. Duran, Adolfo Rivero-Muller, Christian Antila, Rasmus Niemi Sebastian Landor, Carlijn V. C. Bouten, Kayla J. Bayless, John E. Eriksson, and Cecilia M. Sahlgren. Selective regulation of Notch ligands during angiogenesis is mediated by vimentin. PNAS      Early Edition, pnas.1703057114. Pubmed

Lund R, Rahkonen N, Malonzo M, Kauko L, Emani MR, Kivinen V, Närvä E, Kemppainen E, Laiho A, Skottman H, Hovatta O, Rasool O, Nykter M, Lähdesmäki H, Lahesmaa R. RNA Polymerase III Subunit POLR3G Regulates Specific Subsets of PolyA+ and SmallRNA Transcriptomes and Splicing in Human Pluripotent Stem Cells. Stem Cell Rep. 09 May, 2017. Link to text

Papageorgiou AC, Chen J, Li D. Crystal structure and biological implications of a glycoside hydrolase family 55 β-1,3-glucanase from Chaetomium thermophilum. Biochim Biophys Acta. 2017 May 4. Epub ahead of print. Pubmed

Li LL, Cisek K, Courtney MJ. Efficient Binding of the NOS1AP C-Terminus to the nNOS PDZ Pocket Requires the Concerted Action of the PDZ Ligand Motif, the Internal ExF Site and Structural Integrity of an Independent Element. Front. Mol. Neurosci. 10:58. Link to full textPMID

von Ossowski L, Li LL, Möykkynen T, Coleman SK, Courtney MJ, Keinänen K. Cysteine 893 is a target of regulatory thiol modifications of GluA1 AMPA receptors. PLoS One. Feb 2;12(2):e0171489. Link to full text,  PMID

Lund RJ, Huhtinen K, Salmi J, Rantala J, Nguyen EV, Moulder R, Goodlett DR, Lahesmaa R, Carpén O. DNA methylation and Transcriptome Changes Associated with Cisplatin Resistance in Ovarian Cancer. Sci Rep. 04 May 2017. Link

Marek A. Budzynski, Tim Crul, Samu Himanen, Noemi Toth, Ferenc Otvos, Lea Sistonen, Laszlo Vigh. Chaperone co-inducer BGP-15 inhibits histone deacetylases and enhances the heat shock response through increased chromatin accessibility. Cell Stress and Chaperones. First Online: 04 May 2017. Link

Marek A. Budzynski and Lea Sistonen. Versatile Functions of Heat Shock Factors: It is Not All About Stress. Current Immunology Reviews. E-pub Ahead of Print. Link

Iris A K Lähdeniemi, Julia O Misiorek, Christian J M Antila, Sebastian K-J Landor, Carl-Gustaf A Stenvall, Lina E Fortelius, Linda K Bergström, Cecilia Sahlgren and Diana M Toivola. Keratins regulate colonic epithelial cell differentiation through the Notch1 signalling pathway. Cell Death & Differentiation, 5 May 2017, Advance online publication. Link

Chatzikonstantinou M, Vlachakis D, Chronopoulou E, Papageorgiou L, Papageorgiou AC, Labrou NE. 2017. The glutathione transferase family of Chlamydomonas reinhardtii : Identification and characterization of novel sigma class-like enzymes. Algal Research 24, 237–250. Link

Kellici TF, Mavromoustakos T, Jendrossek D, Papageorgiou AC. Crystal structure analysis, covalent docking and molecular dynamics calculations reveal a conformational switch in PhaZ7 PHB depolymerase. Proteins. 2017  [Epub ahead of print] Pubmed

Maria Georgiadou, Johanna Lilja, Guillaume Jacquemet, Camilo Guzmán, Maria Rafaeva, Charlotte Alibert, Yan Yan, Pranshu Sahgal, Martina Lerche, Jean‑Baptiste Manneville, Tomi P. Mäkelä and Johanna Ivaska. AMPK negatively regulates tensin-dependent integrin activity. Journal of Cell Biology. Published online 13th March 2017. Pubmed