A5006221161- Cancer, Hypoxia, and Metabolism
- Enzyme Structure and Function
- Photosynthetic Processes and Mechanisms
- Cancer-related gene regulation
- Prostate Cancer Treatment and Research
- Immunotherapy and Immune Responses
- CAR-T cell therapy research
- Molecular Biology Techniques and Applications
- Biomedical Text Mining and Ontologies
- Monoclonal and Polyclonal Antibodies Research
- Photoreceptor and optogenetics research
- Amino Acid Enzymes and Metabolism
- Bioinformatics and Genomic Networks
- Cancer, Lipids, and Metabolism
- Prostate Cancer Diagnosis and Treatment
- Endoplasmic Reticulum Stress and Disease
- Microbial Metabolic Engineering and Bioproduction
- Ubiquitin and proteasome pathways
- ATP Synthase and ATPases Research
- Collagen: Extraction and Characterization
- Protein Hydrolysis and Bioactive Peptides
- Radiopharmaceutical Chemistry and Applications
- Algal biology and biofuel production
- Hemoglobin structure and function
- Protein Structure and Dynamics
Tampere University
2018
Prostate Cancer Research
2017
Cancer Research Center
2017
European Bioinformatics Institute
2016
University of Oulu
2002-2013
SIB Swiss Institute of Bioinformatics
2012
The Gene Ontology (GO) Consortium (GOC, http://www.geneontology.org) is a community-based bioinformatics resource that classifies gene product function through the use of structured, controlled vocabularies. Over past year, GOC has implemented several processes to increase quantity, quality and specificity GO annotations. First, number manual, literature-based annotations grown at an increasing rate. Second, as result new 'phylogenetic annotation' process, manually reviewed, homology-based...
A major bottleneck in our understanding of the molecular underpinnings life is assignment function to proteins. While experiments provide most reliable annotation proteins, their relatively low throughput and restricted purview have led an increasing role for computational prediction. However, assessing methods protein prediction tracking progress field remain challenging.We conducted second critical assessment functional (CAFA), a timed challenge assess that automatically assign function....
A significant subset of prostate cancer (PC) patients with a castration-resistant form the disease (CRPC) show primary resistance to androgen receptor (AR)-targeting drugs developed against CRPC. As one explanation could be expression constitutively active splice variants (AR-Vs), our current objectives were study AR-Vs and other AR aberrations better understand emergence CRPC.We analysed specimens from different stages by next-generation sequencing immunohistochemistry.AR mutations copy...
4-Hydroxyproline is found in collagens and collagen-like proteins animals many glycoproteins plants. Animal prolyl 4-hydroxylases (P4Hs) have been cloned characterized from sources, but no plant P4H has so far. We report here that the genome of Arabidopsis thaliana encodes six P4H-like polypeptides, one which, a 283-residue soluble monomer, was as recombinant protein. Catalytically critical residues identified animal P4Hs are conserved this P4H, their mutagenesis led to complete or almost...
Collagen prolyl 4-hydroxylases (C-P4Hs) catalyze the formation of 4-hydroxyproline by hydroxylation -X-Pro-Gly-triplets. The vertebrate enzymes are α2β2 tetramers, β-subunit being identical to protein-disulfide isomerase (PDI). Two isoforms catalytic α-subunit, which combine with PDI form [α(I)]2β2 and [α(II)]2β2 have been known up now. We report here on cloning characterization a third C-P4H α-subunit isoform, α(III). processed human, rat mouse α(III) polypeptides consist 520–525 residues,...
Abstract Prolyl 4-hydroxylases (P4Hs) catalyze formation of 4-hydroxyproline (4Hyp), which is found in many plant glycoproteins. We cloned and characterized Cr-P4H-1, one 10 P4H-like Chlamydomonas reinhardtii polypeptides. Recombinant Cr-P4H-1 a soluble 29-kD monomer that effectively hydroxylated vitro both poly(l-Pro) synthetic peptides representing Pro-rich motifs the cell wall Hyp-rich glycoprotein (HRGP) GP1. Similar repeats are likely to be substrates also present HRGP GP2 probably GP3....
Plant and algal prolyl 4-hydroxylases (P4Hs) are key enzymes in the synthesis of cell wall components. These monomeric belong to 2-oxoglutarate dependent superfamily characterized by a conserved jelly-roll framework. This P4H has high sequence similarity catalytic domain vertebrate, tetrameric collagen P4Hs, whereas there distinct differences with oxygen-sensing hypoxia-inducible factor subfamily enzymes. We present here 1.98-A crystal structure Chlamydomonas reinhardtii P4H-1 complexed...
Prolyl 4-hydroxylases (P4Hs) are 2-oxoglutarate dioxygenases that catalyze the hydroxylation of peptidyl prolines. They play an important role in collagen synthesis, oxygen homeostasis, and plant cell wall formation. We describe four structures a P4H from green alga Chlamydomonas reinhardtii, two apoenzyme at 1.93 2.90 A resolution, one complexed with competitive inhibitor Zn2+, Zn2+ pyridine 2,4-dicarboxylate (which is analogue 2-oxoglutarate) 1.85 resolution. The reveal double-stranded...
The collagen prolyl 4-hydroxylases (C-P4Hs) catalyze the formation of 4-hydroxyproline by hydroxylation proline residues in -Xaa-Pro-Gly-sequences. vertebrate enzymes are α2β2 tetramers which protein-disulfide isomerase serves as β subunit. Two isoforms catalytic α subunit have been identified and shown to form [α(I)]2β2 [α(II)]2β2 tetramers, type I II C-P4Hs, respectively. peptide-substrate-binding domain C-P4H has be located between 138 244 517-residue α(I) distinct from that is C-terminal...
Advances in prostate cancer biology and diagnostics are dependent upon high-fidelity integration of clinical, histomorphologic, molecular phenotypic findings. In this study, we compared fresh frozen, formalin-fixed paraffin-embedded (FFPE), PAXgene-fixed (PFPE) tissue preparation methods radical prostatectomy from 36 patients performed a preliminary test feasibility using PFPE routine surgical pathology diagnostic assessment. addition to comparing histology, immunohistochemistry, general...
Collagen prolyl 4-hydroxylases catalyze the hydroxylation of -X-Pro-Gly- sequences and play an essential role in synthesis all collagens. They require Fe2+, 2-oxoglutarate, molecular oxygen ascorbate, vertebrate collagen are α2β2 tetramers. The α-subunits contain separate catalytic peptide substrate-binding domains. Here, crystallization domain consisting residues 144–244 517-residue human α(I) subunit is described. crystals well ordered diffract to at least 3 Å. space group P31 or P32...
e20024 Background: CDR404 is an antibody-based bivalent MAGE-A4 targeted T-cell engager (TCE). One key mechanism-of-action of TCEs CD8 redirection which involves intravasation into tumors [Damato et al, 2019]. mediated TiME remodeling will likely be dependent on the inflammatory (INFLAM) and vascular (VASC) phenotype especially since tumor vasculature constitutes functional physical barriers to infiltration [Sahu 2022] [Desbois al 2020] [Duru 2020]. To identify biomarkers for anti-tumor...
Abstract Prostate cancer (PC) is the most commonly diagnosed male both in United States and Europe. Approximately 20-25% of cases will develop metastatic disease, which eventually progresses to lethal castration-resistant form disease (CRPC). Even though exact mechanism by CRPC develops remains be fully understood, several mechanisms castration resistance have been identified. Importantly, androgen signaling active even stage. This has led clinical development second-generation AR-targeting...
Searchable abstracts of presentations at key conferences in endocrinology ISSN 1470-3947 (print) | 1479-6848 (online)
<h3>Background</h3> Squamous non-small cell lung cancer (SQ-NSCLC) is the 2<sup>nd</sup> most common type of cancer. Given paucity actionable oncogene drivers, and lack efficacy from multiple therapies in Lung-MAP trial, there a high unmet need SQ-NSCLC to develop effective 2<sup>nd</sup>-line immunotherapies for patients with disease progression after immune checkpoint inhibitors (ICI). The melanoma antigen gene A4 (MAGE-A4) exclusively expressed absent somatic tissues. MAGE-A4-derived...