Τμήμα Βιολογικών Επιστημών / Department of Biological Sciences: Recent submissions

Now showing items 81-100 of 677

    • Article  

      Pseudomonas aeruginosa core metabolism exerts a widespread growth-independent control on virulence 

      Panayidou, Stavria; Georgiades, Kaliopi; Christofi, Theodoulakis; Tamana, Stella; Promponas, Vasilis J.; Apidianakis, Yiorgos (2020)
      To assess the role of core metabolism genes in bacterial virulence - independently of their effect on growth - we correlated the genome, the transcriptome and the pathogenicity in flies and mice of 30 fully sequenced ...
    • Book Chapter  

      The Hypoxia-Inducible Factor-1α in Angiogenesis and Cancer: Insights from the Drosophila Model 

      Tamamouna, Vasilia; Pitsouli, Chrysoula (IntechOpen, 2018)
      The hypoxia-inducible factor-1α (HIF-1α) is an evolutionarily conserved transcription factor with prominent roles in the hypoxic response, cell survival, angiogenesis and cancer. HIF-1α functions as a sensor of molecular ...
    • Article  

      Disentangling the complexity of low complexity proteins 

      Mier, Pablo; Paladin, Lisanna; Tamana, Stella; Petrosian, Sophia; Hajdu-Soltész, Borbála; Urbanek, Annika; Gruca, Aleksandra; Plewczynski, Dariusz; Grynberg, Marcin; Bernadó, Pau; Gáspári, Zoltán; Ouzounis, Christos A.; Promponas, Vasilis J.; Kajava, Andrey V.; Hancock, John M.; Tosatto, Silvio C. E.; Dosztanyi, Zsuzsanna; Andrade-Navarro, Miguel A. (2020)
      AbstractThere are multiple definitions for low complexity regions (LCRs) in protein sequences, with all of them broadly considering LCRs as regions with fewer a
    • Article  

      Hypothesis, analysis and synthesis, it's all Greek to me 

      Iliopoulos, Ioannis; Ananiadou, Sophia; Danchin, Antoine; Ioannidis, John PA; Katsikis, Peter D; Ouzounis, Christos A; Promponas, Vasilis J. (2019)
      The linguistic foundations of science and technology include many terms that have been borrowed from ancient languages. In the case of terms with origins in the Greek language, the modern meaning can often differ significantly ...
    • Article  

      Tandem repeats lead to sequence assembly errors and impose multi-level challenges for genome and protein databases 

      Tørresen, Ole K.; Star, Bastiaan; Mier, Pablo; Andrade-Navarro, Miguel A.; Bateman, Alex; Jarnot, Patryk; Gruca, Aleksandra; Grynberg, Marcin; Kajava, Andrey V.; Promponas, Vasilis J.; Anisimova, Maria; Jakobsen, Kjetill S.; Linke, Dirk (2019)
      Abstract. The widespread occurrence of repetitive stretches of DNA in genomes of organisms across the tree of life imposes fundamental challenges for sequencin
    • Conference Object  

      Convolutional Neural Networks in Combination with Support Vector Machines for Complex Sequential Data Classification 

      Dionysiou, Antreas; Agathocleous, Michalis; Christodoulou, Chris; Promponas, Vasilis (Springer International Publishing, 2018)
      Trying to extract features from complex sequential data for classification and prediction problems is an extremely difficult task. Deep Machine Learning techniques, such as Convolutional Neural Networks (CNNs), have been ...
    • Article  

      Low complexity regions in the proteins of prokaryotes perform important functional roles and are highly conserved 

      Ntountoumi, Chrysa; Vlastaridis, Panayotis; Mossialos, Dimitris; Stathopoulos, Constantinos; Iliopoulos, Ioannis; Promponas, Vasilios; Oliver, Stephen G.; Amoutzias, Grigoris D. (2019)
      Abstract. We provide the first high-throughput analysis of the properties and functional role of Low Complexity Regions (LCRs) in more than 1500 prokaryotic an
    • Article  

      DisProt: intrinsic protein disorder annotation in 2020 

      Hatos, András; Hajdu-Soltész, Borbála; Monzon, Alexander M.; Palopoli, Nicolas; Álvarez, Lucía; Aykac-Fas, Burcu; Bassot, Claudio; Benítez, Guillermo I.; Bevilacqua, Martina; Chasapi, Anastasia; Chemes, Lucia; Davey, Norman E.; Davidović, Radoslav; Dunker, A. Keith; Elofsson, Arne; Gobeill, Julien; Foutel, Nicolás S. González; Sudha, Govindarajan; Guharoy, Mainak; Horvath, Tamas; Iglesias, Valentin; Kajava, Andrey V.; Kovacs, Orsolya P.; Lamb, John; Lambrughi, Matteo; Lazar, Tamas; Leclercq, Jeremy Y.; Leonardi, Emanuela; Macedo-Ribeiro, Sandra; Macossay-Castillo, Mauricio; Maiani, Emiliano; Manso, José A.; Marino-Buslje, Cristina; Martínez-Pérez, Elizabeth; Mészáros, Bálint; Mičetić, Ivan; Minervini, Giovanni; Murvai, Nikoletta; Necci, Marco; Ouzounis, Christos A.; Pajkos, Mátyás; Paladin, Lisanna; Pancsa, Rita; Papaleo, Elena; Parisi, Gustavo; Pasche, Emilie; Barbosa Pereira, Pedro J.; Promponas, Vasilis J.; Pujols, Jordi; Quaglia, Federica; Ruch, Patrick; Salvatore, Marco; Schad, Eva; Szabo, Beata; Szaniszló, Tamás; Tamana, Stella; Tantos, Agnes; Veljkovic, Nevena; Ventura, Salvador; Vranken, Wim; Dosztányi, Zsuzsanna; Tompa, Peter; Tosatto, Silvio C. E.; Piovesan, Damiano (2020)
      The Database of Protein Disorder (DisProt, URL: https://disprot.org) provides manually curated annotations of intrinsically disordered proteins from the literature. Here we report recent developments with DisProt (version ...
    • Article  

      An intrinsically disordered proteins community for ELIXIR 

      Davey, Norman E.; Babu, M. Madan; Blackledge, Martin; Bridge, Alan; Capella-Gutierrez, Salvador; Dosztanyi, Zsuzsanna; Drysdale, Rachel; Edwards, Richard J.; Elofsson, Arne; Felli, Isabella C.; Gibson, Toby J.; Gutmanas, Aleksandras; Hancock, John M.; Harrow, Jen; Higgins, Desmond; Jeffries, Cy M.; Le Mercier, Philippe; Mészáros, Balint; Necci, Marco; Notredame, Cedric; Orchard, Sandra; Ouzounis, Christos A.; Pancsa, Rita; Papaleo, Elena; Pierattelli, Roberta; Piovesan, Damiano; Promponas, Vasilis J.; Ruch, Patrick; Rustici, Gabriella; Romero, Pedro; Sarntivijai, Sirarat; Saunders, Gary; Schuler, Benjamin; Sharan, Malvika; Shields, Denis C.; Sussman, Joel L.; Tedds, Jonathan A.; Tompa, Peter; Turewicz, Michael; Vondrasek, Jiri; Vranken, Wim F.; Wallace, Bonnie Ann; Wichapong, Kanin; Tosatto, Silvio C. E. (2019)
      Intrinsically disordered proteins (IDPs) and intrinsically disordered regions (IDRs) are now recognised as major determinants in cellular regulation. This white paper presents a roadmap for future e-infrastructure developments ...
    • Article  

      COL4A5 and LAMA5 variants co-inherited in familial hematuria: digenic inheritance or genetic modifier effect? 

      Voskarides, Konstantinos; Papagregoriou, Gregory; Hadjipanagi, Despina; Petrou, Ioanelli; Savva, Isavella; Elia, Avraam; Athanasiou, Yiannis; Pastelli, Androulla; Kkolou, Maria; Hadjigavriel, Michalis; Stavrou, Christoforos; Pierides, Alkis; Deltas, Constantinos (2018)
      About 40–50% of patients with familial microscopic hematuria (FMH) caused by thin basement membrane nephropathy (TBMN) inherit heterozygous mutations in collagen IV genes (COL4A3, COL4A4). On long follow-up, the full ...
    • Article  

      Clinical course and outcome after kidney transplantation in patients with C3 glomerulonephritis due to CFHR5 nephropathy 

      Frangou, Eleni; Varnavidou-Nicolaidou, Agathi; Petousis, Panayiotis; Soloukides, Andreas; Theophanous, Elena; Savva, Isavella; Michael, Nicos; Toumasi, Elpida; Georgiou, Dora; Stylianou, Galatia; Mean, Richard; Anastasiadou, Natasa; Athanasiou, Yiannis; Zavros, Michalis; Kyriacou, Kyriacos; Deltas, Constantinos; Hadjianastassiou, Vassilis (2019)
      AbstractBackground. Complement factor H-related protein 5 (CFHR5) nephropathy is an inherited renal disease characterized by microscopic and synpharyngitic mac
    • Article  

      Evidence for miR-548c-5p regulation of FOXC2 transcription through a distal genomic target site in human podocytes 

      Christofides, Andrea; Papagregoriou, Gregory; Dweep, Harsh; Makrides, Neoklis; Gretz, Norbert; Felekkis, Kyriacos; Deltas, Constantinos (2020)
      Podocytes are highly differentiated epithelial cells outlining the glomerular vessels. FOXC2 is a transcription factor essential for inducing podocyte differentiation, development and maturation, and is considered to be ...
    • Article  

      Functional and phenotypic distinction of the first two trophoblast subdivisions and identification of the border between them during early postimplantation: A prerequisite for understanding early patterning during placentogenesis 

      Nikolaou, Stavros; Hadjikypri, Xenia; Ioannou, Giasemia; Elia, Artemis; Georgiades, Pantelis (2018)
      The early stages of mouse placentogenesis (placenta formation) involve poorly understood patterning events within polar trophectoderm-derived trophoblast, the progenitor of all placental trophoblast cell types. By early ...
    • Article  

      A simple mechanochemical model for calcium signalling in embryonic epithelial cells 

      Kaouri, K.; Maini, P. K.; Skourides, Paris A.; Christodoulou, N.; Chapman, S. J. (2019)
      Calcium signalling is one of the most important mechanisms of information propagation in the body. In embryogenesis the interplay between calcium signalling and mechanical forces is critical to the healthy development of ...
    • Article  

      Small Molecule Targets TMED9 and Promotes Lysosomal Degradation to Reverse Proteinopathy 

      Dvela-Levitt, Moran; Kost-Alimova, Maria; Emani, Maheswarareddy; Kohnert, Eva; Thompson, Rebecca; Sidhom, Eriene-Heidi; Rivadeneira, Ana; Sahakian, Nareh; Roignot, Julie; Papagregoriou, Gregory; Montesinos, Monica S.; Clark, Abbe R.; McKinney, David; Gutierrez, Juan; Roth, Mark; Ronco, Lucienne; Elonga, Esther; Carter, Todd A.; Gnirke, Andreas; Melanson, Michelle; Hartland, Kate; Wieder, Nicolas; Hsu, Jane C.-H.; Deltas, Constantinos; Hughey, Rebecca; Bleyer, Anthony J.; Kmoch, Stanislav; Živná, Martina; Barešova, Veronika; Kota, Savithri; Schlondorff, Johannes; Heiman, Myriam; Alper, Seth L.; Wagner, Florence; Weins, Astrid; Golub, Todd R.; Lander, Eric S.; Greka, Anna (2019)
      Intracellular accumulation of misfolded proteins causes toxic proteinopathies, diseases without targeted therapies. Mucin 1 kidney disease (MKD) results from a frameshift mutation in the MUC1 gene (MUC1-fs). Here, we show ...
    • Book Chapter  

      Determining Temporal and Spatial Expression of Calpains in Amphibians 

      Charalambous, Anna; Antoniades, Ioanna; Christodoulou, Neophytos; Zanardelli, Sara; Skourides, Paris A. (Springer, 2019)
      Calpains are a family of calcium-dependent intracellular cysteine proteases that regulate important physiological processes by substrate cleavage. Despite the fact that Calpains have been identified in the Xenopus genome, ...
    • Book Chapter  

      Methods of Calpain Inhibition to Determine the Role of Calpains in Embryo Development in Amphibians 

      Antoniades, Ioanna; Charalambous, Anna; Christodoulou, Neophytos; Zanardelli, Sara; Skourides, Paris A. (Springer, 2019)
      Calpains are a family of calcium-dependent intracellular cysteine proteases that regulate important physiological processes by substrate cleavage. Despite the fact that the role of calpains in cell migration and other ...
    • Article  

      Omega-3 fatty acids protect retinal neurons in the DBA/2J hereditary glaucoma mouse model 

      Kalogerou, Maria; Kolovos, Panagiotis; Prokopiou, Ekatherine; Papagregoriou, Gregory; Deltas, Constantinos; Malas, Stavros; Georgiou, Tassos (2018)
      The purpose of this study was to evaluate the neuroprotective effects of omega-3 polyunsaturated fatty acid (ω3-PUFA) supplementation, alone or in combination with timolol eye drops, in a mouse model of hereditary glaucoma. ...
    • Article  

      Digenic inheritance and genetic modifiers 

      Deltas, C. (2018)
      Digenic inheritance (DI) concerns pathologies with the simplest form of multigenic etiology, implicating more than 1 gene (and perhaps the environment). True DI is when biallelic or even triallelic mutations in 2 distinct ...
    • Article  

      Noninvasive Immunohistochemical Diagnosis and Novel MUC1 Mutations Causing Autosomal Dominant Tubulointerstitial Kidney Disease 

      Živná, Martina; Kidd, Kendrah; Přistoupilová, Anna; Barešová, Veronika; DeFelice, Mathew; Blumenstiel, Brendan; Harden, Maegan; Conlon, Peter; Lavin, Peter; Connaughton, Dervla M.; Hartmannová, Hana; Hodaňová, Kateřina; Stránecký, Viktor; Vrbacká, Alena; Živný, Jan; Votruba, Miroslav; Sovová, Jana; Hůlková, Helena; Robins, Victoria; Perry, Rebecca; Wenzel, Andrea; Beck, Bodo B.; Seeman, Tomáš; Viklický, Ondřej; Rajnochová-Bloudíčková, Sylvie; Papagregoriou, Gregory; Deltas, Constantinos C.; Alper, Seth L.; Greka, Anna; Bleyer, Anthony J.; Kmoch, Stanislav; Vyleťal, Petr (2018)
      Visual Overview <img class="highwire-fragment fragment-image" alt="Figure1" src="https://jasn.asnjournals.org/content/jnephrol/29/9/2418/F1.medium.gif" width="440" height="320"/>Download figureOpen in new tabDownload ...