Doctoral Network in Informational and Structural Biology

Publications

Research output per year 2012 2015 2016 2017 2018 2019 2020 2021 2022 2023 2023

• 508 Citations
• 12 h-index
• 32 Article
• 3 Review Article or Literature Review
• 3 Doctoral Thesis
• 1 Chapter

Research output per year

Research output per year

Search results

• Attenuated Replication-Competent Herpes Simplex Virus Expressing an ECM-Modifying Transgene Hyaluronan Synthase 2 of Naked Mole Rat in Oncolytic Gene Therapy

  Palomäki, J., Kalke, K., Orpana, J., Lund, L., Frejborg, F., Paavilainen, H., Järveläinen, H. & Hukkanen, V., Nov 2023, In: Microorganisms. 11, 11, 13 p., 2657.

  Research output: Contribution to journal › Article › Scientific › peer-review

  Open Access

  File

  • Hyaluronan Synthase 100%
  • Heterocephalus 100%
  • Transgene 100%
  • Herpes Simplex Virus 100%
  • Hyaluronate Synthetase 100%
  1 Citation (Scopus)

  14 Downloads (Pure)

• Bilayer Interactions among Unsaturated Phospholipids, Sterols, and Ceramide

  Slotte, J. P., Yasuda, T., Engberg, O., Sazzad, M. A., Hautala, V., Nyholm, T. & Murata, M., 2017, In: Biophysical Journal. 112, 8, p. 1673–1681

  Research output: Contribution to journal › Article › Scientific › peer-review
  12 Citations (Scopus)

• Biochemical characterization and homology modeling of polyamine oxidase from cyanobacterium Synechocystis sp. PCC 6803.

  Samasil, K., Fernandes Lopes de Carvalho, L., Mäenpää, P., Salminen, T. & Incharoensakdi, A., 2017, In: Plant Physiology and Biochemistry. 119, p. 159–169

  Research output: Contribution to journal › Article › Scientific › peer-review
  9 Citations (Scopus)

• Biophysical approaches to study actinoporin-lipid interactions

  Palacios Ortega, J., Rivera-de-Torre, E., Gavilanes, J. G., Slotte, J. P., Martínez-del-Pozo, Á. & Garcia-Linares, S., 11 Jan 2021, In: Methods in Enzymology. 649, p. 307-339

  Research output: Contribution to journal › Article › Scientific › peer-review
  4 Citations (Scopus)

• Characterization and Homology Modeling of Catalytically Active Recombinant PhaC Ap Protein from Arthrospira platensis.

  Duangsri, C., Salminen, T. A., Alix, M., Kaewmongkol, S., Akrimajirachoote, N., Khetkorn, W., Jittapalapong, S., Mäenpää, P., Incharoensakdi, A. & Raksajit, W., 20 May 2023, In: Biology. 12, 5, 15 p., 751.

  Research output: Contribution to journal › Article › Scientific › peer-review

  Open Access

  File

  • Arthrospira Platensis 100%
  • Acetoacetyl-CoA Reductase 33%
  • Chromobacterium 33%
  30 Downloads (Pure)

• Comparison of Unsaturated Phospholipids Effect on Phase Separation in Cholesterol Free and Cholesterol Containing Bilayers

  Engberg, O., Hautala, V., Kullberg, A., Nyholm, T. & Slotte, J. P., 2016, In: Biophysical Journal. 110, 3, p. 74A–74A 1 p.

  Research output: Contribution to journal › Article › Scientific › peer-review

• Counteracting bacterial biofilms: the potential of natural product-based anti-infectives

  Fallarero, A., Skogman, M., Manner, S., Hiltunen, A. & Vuorela, P. M., 2015, In: Dosis. 31, 3, p. 40–54

  Research output: Contribution to journal › Article › Scientific › peer-review

• Crystal structure of dimeric Synechococcus spermidine synthase with bound polyamine substrate and product

  Guédez, G., Pothipongsa, A., Sirén, S., Liljeblad, A., Jantaro, S., Incharoensakdi, A. & Salminen, T., 2019, In: Biochemical Journal. 476, 6, p. 1009–1020

  Research output: Contribution to journal › Article › Scientific › peer-review
  4 Citations (Scopus)

• Effective Antibiofilm Polyketides against Staphylococcus aureus from the Pyranonaphthoquinone Biosynthetic Pathways of Streptomyces Species

  Oja, T. M., San Martin Galindo, P., Taguchi, T., Manner, S., Vuorela, P. M., Ichinose, K., Metsä-Ketelä, M. & Fallarero, A., 2015, In: Antimicrobial Agents and Chemotherapy. 59, 10, p. 6046–6052

  Research output: Contribution to journal › Article › Scientific › peer-review
  38 Citations (Scopus)

• Effects of cholesterol and saturated sphingolipids on acyl chain order in 1-palmitoyl-2-oleoyl-sn-glycero-3-phosphocholine bilayers--a comparative study with phase-selective fluorophores

  Engberg, O., Nurmi, H., Nyholm, T. & Slotte, J. P., 2015, In: Langmuir. 31, 14, p. 4255–4263

  Research output: Contribution to journal › Article › Scientific › peer-review
  17 Citations (Scopus)

• Evaluation of different approaches used to study membrane permeabilization by actinoporins on model lipid vesicles

  Palacios-Ortega, J., Rivera-de-Torre, E., Gavilanes, J. G., Slotte, J. P. & Martínez-del-Pozo, Á., Sept 2020, In: Biochimica et Biophysica Acta (BBA) - Biomembranes.

  Research output: Contribution to journal › Article › Scientific › peer-review
  6 Citations (Scopus)

• Flavones as Quorum Sensing Inhibitors Identified by a Newly Optimized Screening Platform Using Chromobacterium violaceum as Reporter Bacteria

  Skogman, M. E., Kanerva, S., Manner, S., Vuorela, P. M. & Fallarero, A., 2016, In: Molecules. 21, 9, p. 1–11

  Research output: Contribution to journal › Article › Scientific › peer-review
  45 Citations (Scopus)

• Human Mitochondrial DNA-Protein Complexes Attach to a Cholesterol-Rich Membrane Structure

  M Gerhold, J., Cansiz-Arda, Ş., Lohmus, M., Engberg, O., Reyes, A., van Rennes, H., Sanz, A., J Holt, I., Cooper, H. & N Spelbrink, J., 2015, In: Scientific Reports. 5, p. 1–13

  Research output: Contribution to journal › Article › Scientific › peer-review
  75 Citations (Scopus)

• Interaction of 3β-Amino-5-cholestene with Phospholipids in Binary and Ternary Bilayer Membranes

  Lönnfors, M., Engberg, O., Peterson, B. R. & Slotte, J. P., 2012, In: Langmuir. 28, 1, p. 648–655

  Research output: Contribution to journal › Article › Scientific › peer-review
  8 Citations (Scopus)

• Lipid Interactions and Organization in Complex Bilayer Membranes

  Engberg, O., Yasuda, T., Hautala, V., Matsumori, N., Nyholm, T., Murata, M. & Slotte, J. P., 2016, In: Biophysical Journal. 110, 7, p. 1563–1573

  Research output: Contribution to journal › Article › Scientific › peer-review
  22 Citations (Scopus)

• Mapping the interaction site and effect of the Siglec-9 inflammatory biomarker on human primary amine oxidase.

  Fernandes Lopes de Carvalho, L., Elovaara, H., Ruyck J, D., Vergoten, G., Jalkanen, S., Guédez, G. & Salminen, T., 2018, In: Scientific Reports. 8, 1, p. –

  Research output: Contribution to journal › Article › Scientific › peer-review
  6 Citations (Scopus)

• Microfluidic-assisted biomineralization of CRISPR/Cas9 in near-infrared responsive metal–organic frameworks for programmable gene-editing

  Xu, X., Liu, C., Wang, S., Mäkilä, E., Wang, J., Koivisto, O., Zhou, J., Rosenholm, J. M., Shu, Y. & Zhang, H., 12 Oct 2022, In: Nanoscale. 14, 42, p. 15832-15844 13 p.

  Research output: Contribution to journal › Article › Scientific › peer-review

  Open Access

  File

  • Microfluidics 100%
  • Biomineralization 60%
  • Time 30%
  • Application 20%
  • Potential 20%
  8 Citations (Scopus)

  25 Downloads (Pure)

• Nafamostat is a Potent Human Diamine Oxidase Inhibitor Possibly Augmenting Hypersensitivity Reactions during Nafamostat Administration

  Boehm, T., Alix, M., Petroczi, K., Vakal, S., Gludovacz, E., Borth, N., Salminen, T. A. & Jilma, B., 1 Aug 2022, In: Journal of Pharmacology and Experimental Therapeutics. 382, 2, p. 113-122 10 p.

  Research output: Contribution to journal › Article › Scientific › peer-review

  • Nafamstat 100%
  • Amine Oxidase (Copper-Containing) 70%
  • Amine Oxidase (Copper Containing) 70%
  • Oxidoreductase Inhibitor 40%
  • IC50 30%
  1 Citation (Scopus)

• New derivatives of dehydroabietic acid target planktonic and biofilm bacteria in Staphylococcus aureus and effectively disrupt bacterial membrane integrity

  Manner, S., Vahermo, M., Skogman, M. E., Krogerus, S., Vuorela, P. M., Yli-Kauhaluoma, J., Fallarero, A. & Moreira, V. M., 2015, In: European Journal of Medicinal Chemistry. 102, p. 68–79

  Research output: Contribution to journal › Article › Scientific › peer-review
  34 Citations (Scopus)

• Oligomannosidic glycans at Asn-110 are essential for secretion of human diamine oxidase.

  Gludovacz, Maresch, Fernandes Lopes de Carvalho, L., Puxbaum, Baier, Sützl, Guédez, G., Grünwald-Gruber, Ulm, Pils, Ristl, Altmann, Jilma, Salminen, T., Borth & Boehm, 2018, In: Journal of Biological Chemistry. 293, 3, p. 1070–1087

  Research output: Contribution to journal › Article › Scientific › peer-review
  10 Citations (Scopus)

• Oligomerization of Sticholysins from Förster Resonance Energy Transfer

  Palacios-Ortega, J., Rivera-de-Torre, E., García-Linares, S., Gavilanes, J. G., Martínez-del-Pozo, Á. & Slotte, J. P., 14 Jan 2021, In: Biochemistry. 60, 4, p. 314-323

  Research output: Contribution to journal › Article › Scientific › peer-review

  Open Access
  8 Citations (Scopus)

• Phylogenetic and mutational analyses of human LEUTX, a homeobox gene implicated in embryogenesis

  Shintaro, K., Ranga, V., Eeva-Mari, J., Airenne, T., Johnson, M. S., Krishanu, M., R., B. T. & Juha, K., 2018, In: Scientific Reports. 8, p. –

  Research output: Contribution to journal › Article › Scientific › peer-review

  File
  13 Citations (Scopus)

  158 Downloads (Pure)

• Pore-Forming Proteins from Cnidarians and Arachnids as Potential Biotechnological Tools

  Rivera-de-Torre, E., Palacios Ortega, J., G Gavilanes, J., Martínez-del-Pozo, Á. & García-Linares, S., 2019, In: Toxins. 11, 6, p. – 21 p.

  Research output: Contribution to journal › Article › Scientific › peer-review
  17 Citations (Scopus)

• Prevention of Staphylococcus aureus biofilm formation by antibiotics in 96-Microtiter Well Plates and Drip Flow Reactors: critical factors influencing outcomes

  Manner, S., Goeres, DM., Skogman, M., Vuorela, P. & Fallarero, A., 2017, In: Scientific Reports. 7, 43854, p. –

  Research output: Contribution to journal › Article › Scientific › peer-review
  40 Citations (Scopus)

• Screening of Natural Product Derivatives Identifies Two Structurally Related Flavonoids as Potent Quorum Sensing Inhibitors against Gram-Negative Bacteria

  Manner, S. & Adyary, F., 2018, In: International Journal of Molecular Sciences. 19, 5, p. –

  Research output: Contribution to journal › Article › Scientific › peer-review
  46 Citations (Scopus)

• Single therapeutic dose of an antiviral UL29 siRNA swarm diminishes symptoms and viral load of mice infected intranasally with HSV‐1

  Lasanen, T., Frejborg, F., Lund, L. M., Nyman, M. C., Orpana, J., Habib, H., Alaollitervo, S., Levanova, A. A., Poranen, M. M., Hukkanen, V. & Kalke, K., 10 May 2023, In: Smart Medicine. 10 p., e20230009.

  Research output: Contribution to journal › Article › Scientific › peer-review

  Open Access

  File
  22 Downloads (Pure)

• Slr0006-like proteins: A TsaC/TsaC2/YciO subfamily exclusive to cyanobacteria

  Fernandes Lopes de Carvalho, L., Salminen, T. & Dahlström, K., 2017, In: Molecular Phylogenetics and Evolution. 109, p. 1–10

  Research output: Contribution to journal › Article › Scientific › peer-review

• Sticholysin, Sphingomyelin, and Cholesterol: A Closer Look at a Tripartite Interaction.

  Palacios Ortega, J., García-Linares, S., Rivera-de-Torre, E., Gavilanes, J., Martínez-Del-Pozo, A. & Slotte, J. P., 2019, In: Biophysical Journal. 116, 12, p. 2253–2265

  Research output: Contribution to journal › Article › Scientific › peer-review
  10 Citations (Scopus)

• Structural and biomolecular analyses of Borrelia burgdorferi BmpD reveal a substrate-binding protein of an ABC-type nucleoside transporter family

  Cuellar, J., Åstrand, M., Elovaaraa, H., Pietikäinen, A., Sirén, S., Liljeblad, A., Guédez, G., Salminen, T. & Hytönen, J., 2020, In: Infection and Immunity. 88, 4, p. –

  Research output: Contribution to journal › Article › Scientific › peer-review

  Open Access

  File

  • Membrane Protein 100%
  • Host 50%
  • Binding Protein 33%
  • Purine 33%
  • Organisms 16%
  6 Citations (Scopus)

  37 Downloads (Pure)

• Structural and functional characterization of sticholysin III: A newly discovered actinoporin within the venom of the sea anemone Stichodactyla helianthus

  Rivera-de-Torre, E., Palacios-Ortega, J., Garb, J. E., Slotte, J. P., Gavilanes, J. G. & Martínez-del-Pozo, Á., Aug 2020, In: Archives of Biochemistry and Biophysics.

  Research output: Contribution to journal › Article › Scientific › peer-review
  5 Citations (Scopus)

• The Affinity of Cholesterol for Different Phospholipids Affects Lateral Segregation in Bilayers

  Engberg, O., Hautala, V., Yasuda, T., Dehio, H., Murata, M., Slotte, J. P. & Nyholm, T., 2016, In: Biophysical Journal. 111, 3, p. 546–556

  Research output: Contribution to journal › Article › Scientific › peer-review
  50 Citations (Scopus)

• Vascular adhesion protein-1-targeted PET imaging in autoimmune myocarditis

  Jahandideh, A., Virta, J., Li, X-G., Liljenbäck, H., Moisio, O., Ponkamo, J., Rajala, N., Alix, M., Lehtonen, J., Mäyränpää, M. I., Salminen, T. A., Knuuti, J., Jalkanen, S., Saraste, A. & Roivainen, A., 27 Sept 2023, (E-pub ahead of print) In: Journal of Nuclear Cardiology. 13 p.

  Research output: Contribution to journal › Article › Scientific › peer-review

  Open Access

  File

  • Sialic Acid Binding Immunoglobulin Like Lectin 100%
  • Positron Emission Tomography 100%
  • Gallium 68 100%
  • Myocarditis 100%
  • Ex Vivo 33%
  9 Downloads (Pure)