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Uredničke knjige
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1.
The 5th Central European Conference - Chemistry towards Biology
/ Abramić, Marija; Maksić, Zvonimir; Salopek-Sondi, Branka; Tomić, Sanja; Robert Vianello (ur.).
Zagreb : Institut Ruđer Bošković, 2010 (zbornik).
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2.
The 3rd Adriatic Meeting on Computational Solutions in Life Sciences : book of abstracts
/ Babić, Darko; Došlić, Nadja; Smith, David; Tomić, Sanja; Vlahoviček, Kristian (ur.).
Zagreb : Institute of Computational Life Sciences (ICLS), 2009 (zbornik).
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3.
The 2nd Opatija Meeting on Computational Solutions in Life Sciences : book of abstracts
/ Babić, Darko; Došlić, Nadja; Smith, David; Tomić, Sanja; Vlahoviček, Kristian (ur.).
Zagreb : Institute of Computational Life Sciences (ICLS), 2007 (zbornik).
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Izvorni znanstveni i pregledni radovi u CC časopisima
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1. Brkić, Hrvoje; Kovačević, Borislav; Tomić, Sanja.
Human 3-hydroxyanthranilate 3, 4-dioxygenase (3HAO) dynamics and reaction, a multilevel computational study. // Molecular biosystems. 11 (2015) , 3; 898-907 (članak, znanstveni).
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2. Gershberg, Jana; Radić Stojković, Marijana; Škugor, Marko; Tomić, Sanja; Rehm, Thomas H.; Rehm, Stephanie; Saha-Möller, Chantu R.; Piantanida, Ivo; Würthner, Frank.
Sensing of Double-Stranded DNA/RNA Secondary Structures by Water Soluble Homochiral Perylene Bisimide Dyes. // Chemistry - A European Journal. 21 (2015) , 21; 7886-7895 (članak, znanstveni).
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3. González-García, Jorge; Tomić, Sanja; Lopera, Alberto; Guijarro, Lluís; Piantanida, Ivo; García-España, Enrique.
Aryl-bis-(scorpiand)-aza receptors differentiate between nucleotide monophosphates by combination of aromatic, hydrogen bond and electrostatic interactions. // Organic & biomolecular chemistry. 13 (2015) ; 1732-1740 (članak, znanstveni).
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4. Aleksić, Maja; Bertoša, Branimir; Nhili, Raja; Depauw, Sabine; Martin-Kleiner, Irena; David-Cordonnier, Marie-Helene; Tomić, Sanja; Kralj, Marijeta; Karminski-Zamola, Grace.
Anilides and quinolones with nitrogen-bearing substituents from benzothiophene- and thienothiophene- series: synthesis, photochemical synthesis, cytostatic evaluation, 3D-derived QSAR analysis and DNA-binding properties. // European journal of medicinal chemistry. 71 (2014) ; 267-281 (članak, znanstveni).
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5. Bertoša, Branimir; Mikleušević, Goran; Wielgus-Kutrowska, Beata; Narczyk, Marta; Hajnić, Matea; Leščić Ašler, Ivana; Tomić, Sanja; Luić, Marija; Bzowska, Agnieszka.
Homooligomerization is needed for stability: a molecular modelling and solution study of E. coli purine nucleoside phosphorylase. // The FEBS journal. 281 (2014) , 7; 1860-1871 (članak, znanstveni).
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6. Grabar Branilović, Marina; Tomić, Sanja.
Computational study of the structural plasticity and the ligand binding affinity of the IRES subdomain IIa. // Molecular biosystems. 10 (2014) , 12; 3272-3279 (članak, znanstveni).
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7. Jajčanin Jozić, Nina; Tomić, Sanja; Abramić, Marija.
Importance of the three basic residues in the vicinity of the zinc-binding motives for the activity of the yeast dipeptidyl peptidase III. // Journal of biochemistry. 155 (2014) , 1; 43-50 (članak, znanstveni).
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8. Marković, Marijana; Ramek, Michael; Sabolović, Jasmina.
Why does the coordination mode of physiological bis(L-histidinato)copper(II) differ in the gas phase, crystal lattice and aqueous solutions? A quantum chemical study. // European journal of inorganic chemistry. 17 (2014) , 1; 198-212 (članak, znanstveni).
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9. Maršavelski, Aleksandra; Lesjak, Sonja; Močibob, Marko; Weygand-Đurašević, Ivana; Tomić, Sanja.
A single amino acid substitution affects the substrate specificity of the seryl-tRNA synthetase homologue. // Molecular biosystems. 10 (2014) , 12; 3207-3216 (članak, znanstveni).
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10. Tomić, Antonija; Tomić, Sanja.
Hunting the human DPP III active conformation : combined thermodynamic and QM/MM calculations. // Dalton transactions. 43 (2014) ; 15503-15514 (članak, znanstveni).
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11. Grabar Branilović, Marina; Tomić, Sanja; Tumir, Lidija-Marija; Piantanida, Ivo.
The bis-phenanthridinium system flexibility and position of covalently bound uracil finely tunes the interaction with polynucleotides. // Molecular biosystems. 9 (2013) , 8; 2051-2062 (članak, znanstveni).
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12. Radić Stojković, Marijana; Škugor, Marko; Tomić, Sanja; Grabar, Marina; Smrečki, Vilko; Dudek, Łukasz; Grolik, Jarosław; Eilmes, Julita; Piantanida, Ivo.
Dibenzotetraaza[14]annulene – adenine conjugate recognizes complementary poly dT among ss-DNA / ss-RNA sequences. // Organic & biomolecular chemistry. 11 (2013) , 24; 4077-4085 (članak, znanstveni).
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13. Šumanovac Ramljak, Tatjana; Despotović, Ines; Bertoša, Branimir; Mlinarić-Majerski, Kata.
Synthesis and alkali metal complexation studies of novel cage-functionalized cryptands. // Tetrahedron. 69 (2013) , 49; 10610-10620 (članak, znanstveni).
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14. Aleksić, Maja; Bertoša, Branimir; Nhili, Raja; Uzelac, Lidija; Jarak, Ivana; Depauw, Sabine; David-Cordonnier, Marie-Hélène; Kralj, Marijeta; Tomić, Sanja; Karminski-Zamola, Grace.
Novel Substituted Benzothiophene- and Thienothiophene-carboxanilides and quinolones : Synthesis, Photochemical Synthesis, DNA–binding Properties, Antitumor evaluation and 3D-derived QSAR analysis. // Journal of medicinal chemistry. 55 (2012) , 11; 5044-5060 (članak, znanstveni).
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15. Bihr, T.; Seifert, Davor; Smith, Ana-Sunčana.
Nucleation of Ligand-Receptor Domains in Membrane Adhesion. // Physical review letters. 109 (2012) , 25; (članak, znanstveni).
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16. Brgles, Marija; Bertoša, Branimir; Winkler, Wolfgang; Kurtović, Tihana; Allmaier, Günter; Marchetti-Deschmann, Martina; Halassy, Beata.
Chromatography, mass spectrometry, and molecular modeling studies on ammodytoxins. // Analytical and bioanalytical chemistry. 402 (2012) , 9; 2737-2748 (članak, znanstveni).
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17. Hrvoje, Brkić; Daniela, Buongiorno; Michael, Ramek; Grit, Straganz; Sanja, Tomić.
Dke1 – Structure, Dynamics and Function, A Theoretical and Experimental Study Elucidated the Role of the Binding Site Shape and the H-Bonding Network in Catalysis. // Journal of biological inorganic chemistry. 17 (2012) , 5; 801-815 (članak, znanstveni).
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18. Marković, Marijana; Milić, Dalibor; Sabolović, Jasmina.
Modeling triple conformational disorder in a new crystal polymorph of cis-aquabis(L-isoleucinato)copper(II). // Crystal growth & design. 12 (2012) , 8; 4116-4129 (članak, znanstveni).
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19. Schmidt, Daniel; Bihr, Timo; Seifert, Udo; Smith, Ana-Sunčana.
Coexistence of dilute and densely packed domains of ligand-receptor bonds in membrane adhesion. // Europhysics Letters. 99 (2012) , 3; 38003-1-38003-6 (pismo, znanstveni).
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20. Šumanovac Ramljak, Tatjana; Mlinarić-Majerski, Kata; Bertoša, Branimir.
Alkali metal ion complexation of adamantane functionalized diaza-bibracchial lariat ethers. // Croatica chemica acta. 85 (2012) , 4; 559-568 (članak, znanstveni).
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21. Tomić, Antonija; Gonzalez, Miguel; Tomić, Sanja.
The large scale conformational change of the human DPP III – substrate prefers the "closed" form. // Journal of chemical information and modeling. 52 (2012) , 6; 1583-1594 (članak, znanstveni).
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22. Tumir, Lidija-Marija; Crnolatac, Ivo; Deligeorgiev, Todor; Vasilev, Aleksey; Kaloyanova, Stefka; Grabar Branilović, Marina; Tomić, Sanja; Piantanida, Ivo.
Kinetic differentiation between homo- and alternating AT-DNA by sterically restricted phosphonium dyes. // Chemistry : a European journal. 18 (2012) , 13; 3859-3864 (članak, znanstveni).
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23. Tus, Alan; Rakipović, Alen; Peretin, Goran; Tomić, Sanja; Šikić, Mile.
BioMe : biologically relevant metals. // Nucleic acids research. 40 (2012) ; W352-W357 (članak, znanstveni).
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24. Vujasinović, Ines; Paravić-Radičević, Andrea; Mlinarić-Majerski, Kata; Brajša, Karmen; Bertoša, Branimir.
Synthesis and biological validation of novel pyrazole derivatives with anticancer activity guided by 3D-QSAR analysis. // Bioorganic & medicinal chemistry. 20 (2012) , 6; 2101-2110 (članak, znanstveni).
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25. Fenz, Susanne Franziska; Smith, Ana-Sunčana; Merkel, Rudolf; Sengupta, Kheya.
Inter-membrane adhesion mediated by mobile linkers : Effect of receptor shortage. // Soft matter. 7 (2011) , 3; 952-962 (članak, znanstveni).
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26. Groger, Kathrin; Baretić, Domagoj; Piantanida, Ivo; Marjanović, Marko; Kralj, Marijeta; Grabar, Marina; Tomić, Sanja; Schmuck, Carsten.
Guanidiniocarbonyl-pyrrole-aryl conjugates as nucleic acid sensors: switch of binding mode and spectroscopic responses by introducing additional binding sites into the linker. // Organic & biomolecular chemistry. 9 (2011) , 1; 198-209 (članak, znanstveni).
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27. Marković, Marijana; Judaš, Nenad; Sabolović, Jasmina.
Combined Experimental and Computational Study of cis-trans Isomerism in Bis(L-valinato)copper(II). // Inorganic chemistry. 50 (2011) , 8; 3632-3644 (članak, znanstveni).
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28. Reister, Ellen; Bihr, Timo; Smith, Ana-Sunčana.
Two intertwined facets of adherent membranes : Membrane roughness and correlations between ligand-receptors bonds. // New journal of physics. 13 (2011) ; 025003-1-025003-15 (članak, znanstveni).
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29. Šimunović, Mijo; Žagrović, Bojan; Tomić, Sanja.
Mechanism and thermodynamics of ligand binding to auxin amidohydrolase. // Journal of molecular recognition. 24 (2011) , 5; 854-861 (članak, znanstveni).
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30. Špoljarić, Jasminka; Tomić, Antonija; Vukelić, Bojana; Salopek-Sondi, Branka; Agić, Dejan; Tomić, Sanja; Abramić, Marija.
Human Dipeptidyl Peptidase III : the Role of Asn406 in Ligand Binding and Hydrolysis. // Croatica chemica acta. 84 (2011) , 2; 259-268 (članak, znanstveni).
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31. Susanne, Fenz; Timo, Bihr; Rudolf, Merkel; Udo, Seifert; Kheya, Sengupta; Ana-Sunčana, Smith.
Switching from Ultraweak to Strong Adhesion. // Advanced materials. 23 (2011) ; 2622-2626 (članak, znanstveni).
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32. Tomić, Antonija; Abramić, Marija; Špoljarić, Jasminka; Agić, Dejan; Smith, David M.; Tomić, Sanja.
Human Dipeptidyl Peptidase III: Insights into Ligand Binding from a Combined Experimental and Computational Approach. // Journal of molecular recognition. 24 (2011) , 5; 804-814 (članak, znanstveni).
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33. Bertoša, Branimir; Aleksić, Maja; Karminski-Zamola, Grace; Tomić, Sanja.
QSAR analysis of antitumor active amides and quinolones from thiophene series. // International journal of pharmaceutics. 394 (2010) , 1-2; 106-114 (članak, znanstveni).
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34. Burja, Bojan; Čimbora-Zovko, Tamara; Tomić, Sanja; Jelušić, Tihana; Kočevar, Marijan; Polanc, Slovenko; Osmak, Maja.
Pyrazolone-fused combretastatins and their precursors : synthesis, cytotoxicity, antitubulin activity and molecular modeling studies. // Bioorganic & medicinal chemistry. 18 (2010) , 7; 2375-2387 (članak, znanstveni).
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35. Musiani, Francesco; Bertoša, Branimir; Magistrato, Alessandra; Zambelli, Barbara; Turano, Paola; Losasso, Valeria; Micheletti, Cristian; Ciurli, Stefano; Carloni, Paolo.
Computational Study of the DNA-Binding Protein Helicobacter pylori NikR: The Role of Ni2+. // Journal of chemical theory and computation. 6 (2010) , 11; 3503-3515 (članak, znanstveni).
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36. Smith, Ana-Sunčana.
Physics challenged by cells. // Nature Physics. 6 (2010) , 10; 726-729 (članak, znanstveni).
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37. Smith, Ana-Sunčana; Fenz, Susanne Franzoska; Sengupta, Kheya.
Inferring spatial organization of bonds within adhesion clusters by exploiting fluctuations of soft interfaces. // Europhysics Letters. 89 (2010) , 2; 28003-1-28003-6 (članak, znanstveni).
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38. Tumir, Lidija-Marija; Grabar, Marina; Tomić, Sanja; Piantanida, Ivo.
The interactions of bis-phenanthridinium – nucleobase conjugates with nucleotides: adenine conjugate recognizes UMP in aqueous medium. // Tetrahedron. 66 (2010) , 13; 2501-2513 (članak, znanstveni).
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39. Ćaleta, Irena; Kralj, Marijeta; Marjanović, Marko; Bertoša, Branimir; Tomić, Sanja; Pavlović, Gordana; Pavelić, Krešimir; Karminski-Zamola, Grace.
Novel Cyano- and Amidino- Benzothiazole Derivatives: Synthesis, Antitumor Evaluation, X-ray and QSAR Analysis. // Journal of medicinal chemistry. 52 (2009) , 6; 1744-1756 (članak, znanstveni).
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40. Sabolović, Jasmina; Gomzi, Vjeran.
Structure Prediction of Bis(amino acidato)copper(II) Complexes with a New Force Field for Molecular Modeling. // Journal of Chemical Theory and Computation. 5 (2009) , 7; 1940-1954 (članak, znanstveni).
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41. Savić, Bojana; Tomić, Sanja; Magnus, Volker; Gruden, Kristina; Barle, Katja; Grenković, Renata; Ludwig-Müller, Jutta; Salopek-Sondi, Branka.
Auxin amidohydrolases from Brassica rapa cleave the alanine conjugate of indolepropionic acid as a preferable substrate: a biochemical and modeling approach. // Plant and cell physiology. 50 (2009) , 9; 1587-1599 (članak, znanstveni).
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42. Smith, Ana-Sunčana; Sackmann, Erich.
Progress in mimetic studies of cell adhesion and the mechanosensing. // ChemPhysChem. 10 (2009) , 1; 66-78 (članak, znanstveni).
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43. Vujasinović, Ines; Mlinarić-Majerski, Kata; Bertoša, Branimir; Tomić, Sanja.
Influence of the Rigid Spacer to Macrocyclization of Poly(thialactones): Synthesis and Computational Analysis. // Journal of physical organic chemistry. 22 (2009) , 5; 431-437 (članak, znanstveni).
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44. Bertoša, Branimir; Kojić-Prodić, Biserka; Wade, Rebecca; Tomić, Sanja.
Mechanism of Auxin Interaction with Auxin Binding Protein (ABP1): A Molecular Dynamics Simulation Study. // Biophysical journal. 94 (2008) , 1; 27-37 (članak, znanstveni).
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45. Hernandez-Folgado, Laura; Schmuck, Carsten; Tomić, Sanja; Piantanida, Ivo.
A novel pyrene-guanidiniocarbonyl-pyrrole cation efficiently differentiates between ds-DNA and ds-RNA by two independent, sensitive spectroscopic methods. // Bioorganic & Medicinal Chemistry Letters. 18 (2008) ; 2977-2981 (članak, znanstveni).
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46. Luić, Marija; Štefanić, Zoran; Ceilinger, Igor; Hodošček, Milan; Janežić, Dušanka; Lenac, Tihana; Leščić Ašler, Ivana; Šepac, Dragan; Tomić, Sanja.
Combined X-Ray Diffraction and QM/MM Study of the Burkholderia cepacia Lipase-Catalyzed Secondary Alcohol Esterification. // The journal of physical chemistry. B, Condensed matter, materials, surfaces, interfaces & biophysical. 112 (2008) , 16; 4876-4883 (članak, znanstveni).
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47. Reister Gottfried, Ellen; Sengupta, Kheya.; Lorz, Barbara; Sackmann, Erich; Seifert, Udo; Smith, Ana-Sunčana.
Dynamics of Specific Vesicle-Substrate Adhesion : From Local Events to Global Dynamics. // Physical Review Letters. 101 (2008) , 20; 208103-1-208103-4 (članak, znanstveni).
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48. Sabolović, Jasmina; Kaitner, Branko.
The effect of hydrogen bonding in two crystal modifications of aquabis(N, N-dimethylglycinato-N, O)copper(II): experimental and theoretical study. // Inorganica Chimica Acta. 361 (2008) , 8; 2424-2436 (članak, znanstveni).
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49. Smith, Ana-Sunčana; Sengupta, Kheya; Goennenwein, Stefanie; Seifert, Udo; Sackmann, Erich.
Force-induced growth of adhesion domains is controlled by receptor mobility. // Proceedings of the National Academy of Sciences of the United States of America. 105 (2008) , 19; 6906-6911 (članak, znanstveni).
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50. Lorz, Barbara G.; Smith, Ana-S.; Gege, Christian; Sackmann, Erich.
Adhesion of Giant Vesicles Mediated by Weak Binding of Sialyl-LewisX to E-Selectin in the Presence of Repelling Poly(ethylene glycol) Molecules. // Langmuir. 23 (2007) , 24; 12293-12300 (članak, znanstveni).
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51. Sabolović, Jasmina; Kaitner, Branko.
The Effects of Steric Aliphatic-Aliphatic Interactions in the Coordination Polymer of Bis(N, N-diethylglycinato)copper(II): Experimental Evidence and Theoretical Modeling. // Polyhedron. 26 (2007) , 5; 1087-1097 (članak, znanstveni).
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52. Smith, Ana-Sunčana; Seifert, Udo.
Vesicles as a model for controlled (de-)adhesion of cells: a thermodynamic approach. // Soft Matter. 3 (2007) , 3; 275-289 (članak, znanstveni).
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53. Tomašić, Ana; Bertoša, Branimir; Tomić, Sanja; Šoškić, Milan; Magnus, Volker.
Binding behavior of amino acid conjugates of indole-3-acetic acid to immobilized human serum albumin. // Journal of Chromatography. A. 1154 (2007) , 1-2; 240-249 (članak, znanstveni).
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54. Tomić, Sanja; Bertoša, Branimir; Wang, Ting; Wade, Rebecca.
COMBINE Analysis of the Specificity of Binding of Ras Proteins to their Effectors. // Proteins Structure, Function, and Bioinformatics. 67 (2007) , 2; 435-447 (članak, znanstveni).
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Znanstveni radovi u drugim časopisima
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1. Šikić, Kresimir; Tomić, Sanja; Carugo, Oliviero.
Systematic comparison of crystal and NMR protein structures deposited in the protein data bank. // The Open biochemistry journal. 4 (2010) ; 83-95 (članak, znanstveni).
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2. Sabolović, Jasmina.
Molecular Mechanics (MM) Force Fields for Modelling of Copper(II) Amino Acid Complexes in Different Environments. // AIP conference proceedings. 1102 (2009) , 1; 193-199 (conference paper, znanstveni).
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3. Šikić, Mile; Tomić, Sanja; Vlahoviček, Kristian.
Prediction of Protein-Protein Interaction Sites in Sequences and 3D Structures by Random Forests. // Plos computational biology. 5 (2009) , 1; e1000278-1-e1000278-9 (članak, znanstveni).
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Ostali radovi u drugim časopisima
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1. Grabar Branilović, Marina; Maršavelski, Aleksandra; Tomić, Antonija; Tomić, Sanja.
Nobelova nagrada za kemiju za 2013. godinu. // Kemija u industriji : časopis kemičara i tehnologa Hrvatske. 62 (2013) , 11-12; 468-471 (osvrt, stručni).
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Kongresno priopćenje (sažeci) u CC časopisu
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1. Tomić, Sanja; Brkić, Hrvoje; Straganz, Grit; Buongiorno, daniela.
Non-heme iron dependent enzymes – understanding transport of iron cation in acetylacetone dioxygenase from Acinetobacter johnsoii // European Biophys. J. Volume 42 Supplement 1, '9th European Biophysics Congress Abstracts' / Watts, A. (ur.).
Heidelberg : Springer, 2013. S184-S184 (poster,međunarodna recenzija,sažetak,znanstveni).
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2. Savić, Bojana; Ludwig-Müller, Jutta; Tomić, Sanja; Magnus, Volker; Salopek-Sondi, Branka.
Characterization of the Brassica rapa auxin amido-hydrolase, BrILL2 // Physiologia Plantarum, Special Issue, 133 (3) / Vaughan, Hurry (ur.).
Oxford : Wiley-Blackwell, 2008. P01-065-P01-065 (poster,međunarodna recenzija,sažetak,znanstveni).
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Kongresno priopćenje (sažeci) u ostalim časopisima
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Objavljena pozvana predavanja na skupovima
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1. Tomić, Sanja.
Život modeliran vodom // Fizikalni aspekti vode / Darko Androić (ur.).
Zagreb : Prirodoslovno-matematički fakultet Sveučilišta u Zagrebu, 2008. 50-57 (pozvano predavanje,domaća recenzija,objavljeni rad,stručni).
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Znanstveni radovi u zbornicima skupova s međunar.rec.
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1. Šikić, Krešimir; Tomić, Sanja; Jeren, Branko.
The protein secondary structure flexibility // Proceedings of the 2008 International Conference on Bioinformatics & Computational Biology / Arabnia, Hamid R. (ur.).
2008. 918-926 (predavanje,međunarodna recenzija,objavljeni rad,znanstveni).
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2. Šikić, Krešimir; Tomić, Sanja, Jeren, Branko.
Identifying protein flexibility by NMA // Proceedings of the 2008 International Conference on Bioinformatics & Computational Biology / Arabnia, Hamid R. (ur.).
2008. 927-933 (predavanje,međunarodna recenzija,objavljeni rad,znanstveni).
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Drugi radovi u zbornicima skupova s recenzijom
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Sažeci u zbornicima skupova
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1. Grabar Branilović, Marina; Tomić, Sanja.
Computational study of the IRES subdomain IIa structural plasticity and the ligand binding affinity // Chemistry towards Biology 7th Central European Conference - Book of Abstracts / Jarzembek, Krystyna (ur.) (ur.).
Katovice, 2014. P10-P10 (poster,međunarodna recenzija,sažetak,znanstveni).
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2. Tomić, Antonija; Tomić, Sanja.
Molecular Mechanics - Poisson Boltzmann Surface Area calculations using AMBER program package - application to the human dipeptidyl petidase III // Computational Electrostatics for Biological Applications - Book of Abstract.
2013. 39-39 (poster,međunarodna recenzija,sažetak,znanstveni).
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3. Tomić, Antonija; Tomić, Sanja.
Najnovija saznanja o koordinaciji cinka i o vezanju liganda u aktivno mjesto humane DPP III – implikacije na mehanizam kemijske reakcije // XXIII. hrvatski skup kemičara i kemijskih inženjera, knjiga sažetaka / Hadžiev, Andrea ; Blažeković, Zdenko (ur.).
Zagreb : Hrvatsko društvo kemijskih inženjera i tehnologa (HDKI), 2013. 177-177 (poster,domaća recenzija,sažetak,znanstveni).
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4. Tomić, Sanja; Tomić, Antonija; Brkić, Hrvoje.
Elucidation of metal ion-binding sites in proteins // 6th Central Europe Conference - Abstracts of scientific contributions / Roberto Rizzo (ur.).
Trst : Universita degli studi di Trieste, 2013. oc15-oc15 (predavanje,međunarodna recenzija,sažetak,znanstveni).
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5. Tomić, Sanja; Tomić, Antonija; Gonzalez, Miguel.
Molecular dynamics based studies on human DPP III revealed determinants for its broad substrate selectivity // .
(predavanje,međunarodna recenzija,sažetak,znanstveni).
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6. Tomić, Antonija; Tomić, Sanja.
QM/MM račun koordinacije cinka u aktivnom mjestu humane DPP III / QM/MM study of the zinc coordination in the active site of the human DPP III // Knjiga sažetaka - IX. Susret mladih kemijskih inženjera / Martinez, Sanja (ur.).
Zagreb : Hrvatsko društvo kemijskih inženjera i tehnologa (HDKI), 2012. 173-173 (poster,domaća recenzija,sažetak,znanstveni).
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7. Tomić, Antonija; Tomić, Sanja.
Further study of the zinc coordination in the active site of the human DPP III - ONIOM calculations // Book of abstracts, 11th Greta Pifat-Mrzljak International School of Biophysics, Biomolecular complexes and assemblies / Hozić A., Vuletić T. (ur.).
Zagreb : Institut Ruđer Bošković i Hrvatsko biofizičko društvo, 2012. 104-104 (poster,međunarodna recenzija,sažetak,znanstveni).
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8. Tomić, Sanja; Grabar, Marina; Piantanida, Ivo.
Molecular modeling of nucleic acid - small molecule interactions // Book of Abstracts Regional Biophysical Conference 2012 / Zakrzewska, Joanna, Živić, Miroslav, Andjus, Pavle (ur.).
Beograd : Društvo biofizičara Srbije, 2012. 13-13 (pozvano predavanje,međunarodna recenzija,sažetak,znanstveni).
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9. Tomić, Sanja; Brkić, Hrvoje; Ramek, Michael; Buongiorno, Daniele; Straganz, Grit.
Influence of The Hydrophobic Residues on The Dke1 Activity // .
1-1 (poster,međunarodna recenzija,sažetak,znanstveni).
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10. Sanja, Tomić; Hrvoje, Brkić; Michael, Ramek; Grit, Straganz.
Step Forward in Understanding Mechanism of Non-heme Fe2+ Dependent Dioxyhenase Dke1 Catalysis // Book of Abstract.
1-1 (predavanje,međunarodna recenzija,sažetak,znanstveni).
|
11. Bertoša, Branimir; Tomić, Sanja; Aleksić, Maja; Karminski-Zamola, Grace.
Investigation of anticancer activity of heterocyclic amides and quinolones using 3D-QSAR analysis // Ninth Triennial Congress of the World Association ot Theoretical and Computational Chemists / Yáñez, Manuel ; Mó, Otilia (ur.).
Santiago de Compostela, 2011. PII 016 (poster,međunarodna recenzija,sažetak,znanstveni).
|
12. Grabar, Marina; Tomić, Sanja; Tumir Marija, Lidija; Piantanida, Ivo.
Molecular modeling of new permanently charged phenanthridinium-nucleobase conjugates in complexes with double stranded polynucleotides // Ninth Triennial Congress of the World Association ot Theoretical and Computational Chemists - Book of Abstracts / Yáñez, Manuel ; Mó, Otilia (ur.).
Santiago de Compostela, 2011. PII 017 (poster,sažetak,znanstveni).
|
13. Tomić, Antonija; Tomić, Sanja.
MD simulations showed large conformational changes of the human free DPP III // Book of Abstracts - The Conference on Molecular Simulations in Biosystems and Material Science.
Konstanz, 2011. 72-72 (poster,međunarodna recenzija,sažetak,znanstveni).
|
14. Bertoša, Branimir; Tomić, Sanja; Aleksić, Maja; Karminski-Zamola, Grace.
QSAR analysis and proposal of new heterocyclic compounds with potential antitumor activity // The 5th Central European Conference - Chemistry towards Biology.
Zagreb : Institut Ruđer Bošković, 2010. 66-66 (poster,međunarodna recenzija,sažetak,znanstveni).
|
15. Grabar, Marina; Tomić, Sanja; Tumir, Lidija-Marija; Piantanida, Ivo; Crnolatac, Ivo.
Molecular modelling of phosphonium cyanine dyes in complex with DNA // Book of Abstracts of the The 5th Central European Conference - Chemistry towards Biology.
Zagreb : Institut Ruđer Bošković, 2010. 85 (poster,sažetak,znanstveni).
|
16. Grabar, Marina; Tomić, Sanja; Tumir, Lidija-Marija; Piantanida, Ivo; Crnolatac, Ivo; Deligeorgiev, Todor; Vasilev, Alexey; Kaloyanova, Stefka.
Interaction of phosphonium cyanine dyes with DNA // Abstracts of the Fourth Humboldt Conference on Computational Chemistry / Petrova, P. Galina ; Vayssilov, N. Georgie (ur.).
Sofija, 2010. 62 (poster,sažetak,znanstveni).
|
17. Marković, Marijana; Sabolović, Jasmina.
Molecular modeling of crystallization processes of trans and cis bis(L-valinato)copper(II) from aqueous solution // Book Of Abstracts, The 5th Central European Conference – Chemistry towards Biology / Abramić, Marija ; Maksić, Zvonimir, Salopek-Sondi, Branka ; Tomić, Sanja ; Vianello, Robert (ur.).
Zagreb : Institut Ruđer Bošković, 2010. 101-101 (poster,međunarodna recenzija,sažetak,znanstveni).
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18. Tomić, Antonija; Špoljarić, Jasminka; Abramić, Marija; Tomić, Sanja.
Ligand binding to human DPP III and its mutant H568N - computational analyses // Abstracts of the 6th International Workshop on New Approaches in Drug Design & Discovery "The Interactions :From Atom-Atom Contacts to Networks in System Biology" / Klebe, Gerhard ; Matter, Hans ; Sotriffer, Hans (ur.).
Marburg : University of Marburg, 2010. 87-87 (poster,međunarodna recenzija,sažetak,znanstveni).
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19. Grabar, Marina; Tumir, Lidija-Marija; Piantanida, Ivo; Tomić, Sanja.
Bisphenanthridinium-nucleobase conjugates – molecular modelling and spectroscopic approach // Book of Abstracts of the EMBO Young Scientists Forum.
Zagreb (poster,sažetak).
|
20. Grabar, Marina; Tumir, Lidija-Marija; Piantanida, Ivo; Tomić, Sanja.
Computational and spectroscopic studies of intercalators and their interaction with nucleotides // Book of Abstracts of The third Adriatic Meeting on computational Solutions in the Life Sciences.
Zagreb : Institut Ruđer Bošković, 2009. 56 (poster,sažetak).
|
21. Grabar, Marina; Tumir, Lidija-Marija; Piantanida, Ivo; Tomić, Sanja.
Computational approach to specificity of intercalators toward nucleotides // Book of Abstracts of the Tenth international summer school on biophysics - supramolecular structure and function.
Rovinj, 2009. 105 (poster,sažetak).
|
22. Marković, Marijana; Gomzi, Vjeran; Sabolović, Jasmina.
Molecular modelling of copper(II) complexes with histidine // Book of Abstracts, Tenth International Summer School on Biophysics Supramolecular structure and function / Pifat-Mrzljak, Greta ; Zahradka, Ksenija (ur.).
Zagreb : Institut Ruđer Bošković, 2009. 132-132 (poster,međunarodna recenzija,sažetak,znanstveni).
|
23. Marković, Marijana; Judaš, Nenad; Sabolović, Jasmina.
MM calculations of unit cell packings of aquabis(L-valinato)copper(II) in simulated crystal lattice // EMBO Young Scientists Forum Book of Abstracts.
2009. 37-37 (poster,međunarodna recenzija,sažetak,znanstveni).
|
24. Marković, Marijana; Sabolović, Jasmina.
Can the MD simulations of solvated trans and cis bis(L-valinato)copper(II) molecules in aqueous solution reveal the reasons for crystallisation of specific conformers? // Book Of Abstracts, The 3rd Adriatic Meeting on Computational Solutions in the Life Sciences / Tomić, Sanja (ur.).
Zagreb : Centre for Computational Solutions in the Life Sciences, Ruđer Bošković Institute, 2009. 66-66 (poster,međunarodna recenzija,sažetak,znanstveni).
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25. Savić, Bojana; Tomić, Sanja; Magnus, Volker; Gruden, Kristina; Barle, Katja; Grenković, Renata; Salopek-Sondi, Branka; Jutta Ludwig-Müller.
Auxin amidohydrolases from Brassica rapa cleave conjugates of indole propionic and indole butyric acid as preferable substrates: A biochemical and modeling approach // ACPD 2009, Auxins and Cytokinins in Plant Development, Book of Abstracts.
Prag, 2009. 22-22 (predavanje,međunarodna recenzija,sažetak,znanstveni).
|
26. Grabar, Marina; Tumir, Lidija-Marija; Piantanida, Ivo; Tomić, Sanja.
Molecular modelling of bisphenanthridinium- nucleobase conjugates // Book of Abstracts of the International Conference and Biophysics Summmer School From Solid State to Biophysics IV / L. Forro, D. Pavuna (ur.).
École polytechnique fédérale de Lausanne (EPFL), 2008. (poster,sažetak).
|
27. Grabar, Marina; Tumir, Lidija-Marija; Piantanida, Ivo; Tomić, Sanja.
Molecular modelling of bisphenanthridinium- nucleobase conjugates // Book of Abstracts of the MATH/CHEM/COMP - The Dubrovnik International Course on the Interfaces among Mathematics, Chemistry and Computer Sciences / A. Graovac, B. Pokrić, V. Smrečki (ur.).
Zagreb : Institut Ruđer Bošković, 2008. 20 (poster,sažetak).
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28. Sabolović, Jasmina.
Modelling Structural Properties of Bis(glycinato)copper(II) in Aqueous Solution // Proceedings of the Eighth Triennial Congress of the World Association of Theoretical and Computational Chemists (WATOC 2008) / Jordan, Meredith (ur.).
Sydney : World Association of Theoretical and Computational Chemists, 2008. PP139-PP139 (poster,međunarodna recenzija,sažetak,znanstveni).
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29. Sabolović, Jasmina.
Development of Molecular Mechanics (MM) Force Fields for Modelling of Copper(II) Amino Acid Complexes in Different Environments // The International Conference on Theory and Applications of Computational Chemistry – TACC 2008, Šangaj, Kina 2008. Book of Programme and Abstract for TACC2008 / Wei, Dongqing (ur.).
Shanghai : Shanghai Jiao Tong University, IASIA, 2008. 156-157 (pozvano predavanje,međunarodna recenzija,sažetak,znanstveni).
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30. Salopek-Sondi, Branka; Savić, Bojana; Tomić, Sanja; Magnus, Volker.
Insight into structure and function of the plant enzyme, auxin amido-hydrolase // Book of abstracts of the HDBMB 2008 / Strelec, Ivica ; Glavaš-Obrovac, Ljubica (ur.).
Osijek : Hrvatsko Društvo za Biotehnologiju, 2008. 130-130 (poster,međunarodna recenzija,sažetak,znanstveni).
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31. Savić, Bojana; Tomić, Sanja; Magnus, Volker; Salopek-Sondi, Branka.
BrILL2, auksin amidohidrolaza iz kineskog kupusa (Brassica rapa L.) // Zbornik sažetaka / Zahradka, Ksenija ; Plohl, Miroslav ; Ambriović-Ristov, Andreja (ur.).
Zagreb : Institut Ruđer Bošković, 2008. 74-74 (poster,domaća recenzija,sažetak,znanstveni).
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32. Tomić, Sanja.
Combined 3D QSAR and QM/MM Study of the Burkholderia cepacia Lipase Enantioselectivity // Protein Design and Evolution for Biocatalysis, Book of Abstracts.
2008. (predavanje,sažetak).
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33. Tomić, Sanja.
Force field based methods for computational study of macromolecules // Hottest Topics in Protein Research : Book of abstracts.
Zagreb, 2008. 7-8 (pozvano predavanje,sažetak,znanstveni).
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34. Tomić, Sanja; Ceilinger, Igor; Hodošček, Milan; Janežić, Dušanka.
QM/MM Study of the Burkholderia cepacia Lipase Catalyzed Secondary Alcohol Esterification // Book of Abstracts - The Conference on Molecular Simulations in Biosystems and Material Science / Nielabla, P. (ur.).
Konstanz : Universitaet Konstanz, 2008. 92-92 (poster,sažetak).
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35. Tomić, Sanja; Ceilinger, Igor; Janežić, Dušanka; Hodošček, Milan.
Towards understanding enentio-selective enzyme catalysed chemical transformation of pro-drugs // Abstracts book / Tsantili-Kakoulidou, Anna (ur.).
Atena : University of Athens, 2008. 35-35 (predavanje,sažetak).
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36. Vujasinović, Ines; Bertoša, Branimir; Tomić, Sanja; Mlinarić-Majerski, Kata.
Influence of the rigid spacer to macrocyclization of poly(thialactones): Synthesis and computational analysis // IUPAC Conference Santiago de Compostela.
Santiago de Compostela, 2008. (predavanje,međunarodna recenzija,sažetak,znanstveni).
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37. Bertoša, Branimir; Tomić, Sanja; Wang, Ting; Wade, Rebecca.
COMBINE Analysis of Interactions Between Ras Proteins and Their Effectors // 6th AFMC INTERNACIONAL MEDICAL CHEMISTRY SYMPOSIUM / Prous, J. R. (ur.).
Barcelona : Prous science, 2007. 79-79 (poster,međunarodna recenzija,sažetak).
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38. Dokmanić, Ivan; Šikić, Mile; Tomić, Sanja.
Koreliranje oblika površine i hidrofobnosti proteina korištenjem razvoja u kugline funkcije // Book of abstracts, The 2nd Opatija Meeting on Computational Solutions in the Life Sciences / Babić, Darko ; Došlić, Nađa ; Smith, David ; Tomić, Sanja ; Vlahoviček, Kristian (ur.).
Zagreb : Institut Ruđer Bošković, 2007. 69-69 (poster,međunarodna recenzija,sažetak,znanstveni).
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39. Marković, Marijana; Judaš, Nenad; Sabolović, Jasmina.
The Modelling of Noncovalent Interactions in the Crystal Structures of bis(L-valinato)copper (II) // Humboldt Conference on Noncovalent Interactions : Book of Abstracts / Zarić, Snežana (ur.).
2007. 58-58-58 (poster,međunarodna recenzija,sažetak,znanstveni).
|
40. Marković, Marijana; Sabolović, Jasmina.
Conformational analysis of bis(L-isoleucinato)copper(II) and bis(L-valinato)copper(II) // Book Of Abstracts, The 2nd Opatija Meeting on Computational Solutions in the Life Sciences / Tomić, Sanja (ur.).
Zagreb : Centre for Computational Solutions in the Life Sciences, Ruđer Bošković Institute, Zagreb, 2007. 77-77 (poster,međunarodna recenzija,sažetak,znanstveni).
|
41. Sabolović, Jasmina.
Modelling Structural Properties of Copper(II) Amino Acid Complexes in Different Environments // Book of Abstracts of the 2nd Opatija Meeting on Computational Solutions inthe Life Sciences / Babić, Darko (ur.).
Zagreb : Institut Ruđer Bošković, 2007. 39-39 (pozvano predavanje,međunarodna recenzija,sažetak,znanstveni).
|
42. Sanja Tomić, Rebecca C. Wade, Ting Wang, Branimir Bertoša, Razif Gabdoulline.
The protein-protein interactions - molecular modelling study // Central European Symposium on Theoretical Chemistry.
2007. (predavanje,sažetak).
|
43. Tomić, Sanja.
Proučavanje međudjelovanja proteina korištenjem računala // Knjiga sažetaka 5. znanstvenog sastanka Hrvatskog fizikalnog društva.
Zagreb, 2007. 56 (poster,sažetak,znanstveni).
|
44. Tomić, Sanja; Bertoša, Branimir; Wade, C. Rebecca.
Non covalent interactions in protein complexes // Humboldt Conference On Noncovalent Interactions / Zarić, Snežana (ur.).
Vršac : AvH, 2007. 12-12 (pozvano predavanje,sažetak,znanstveni).
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45. Tomić, Sanja; Bertoša, Branimir; Wade, Rebecca.
Non Covalent Interactions In Protein Complexes // BOOK OF ABSTRACT: Humboldt Conference On Noncovalent Interactions / Zarić S. (ur.).
Vršac, 2007. 12 (pozvano predavanje,sažetak,znanstveni).
|
46. Tomić, Sanja; Ivan, Dokmanić.
Divalent metal cations in proteins: abundance, coordination, function // Book of Abstracts: 16th CROATIAN-SLOVENIAN CRYSTALLOGRAPHIC MEETING.
Zagreb : Hrvatska akademija znanosti i umjetnosti (HAZU), 2007. 54 (predavanje,sažetak,znanstveni).
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47. Tomić, Sanja; Wade, Rebecca; Wang, Ting; Bertoša, Branimir; Gabdoulline, Razif.
The protein-protein interactions- molecular modelling study // 6th Central European Symposium on Theoretical Chemistry - Book of Abstracts / Anne-Marie Kelterer (ur.).
Graz : TU-Graz, 2007. L12-L12 (predavanje,sažetak).
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Disertacije
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1. Brkić, Hrvoje.
Proučavanje o željezu ovisnih dioksigenaza računalnim metodama / doktorska disertacija.
Zagreb : Prirodoslovno matematički Fakultet, Fizički odsjek, 21.03. 2014.,
117 str. Voditelj: Tomić, Sanja.
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2. Grabar Branilović, Marina.
Eksperimentalno utemeljeno modeliranje interakcija nukleinskih kiselina i malih molekula / doktorska disertacija.
Zagreb : Prirodoslovno-matematički fakultet, 17.06. 2014.,
108 str. Voditelj: Tomić, Sanja.
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3. Šikić, Krešimir.
Algoritmi za utvrđivanje fleksibilnosti proteina na temelju konformacije i fizikalnih svojstava proteina / doktorska disertacija.
Zagreb : Fakultet elektrotehnike i računarstva, 29.09. 2008,
169 str. Voditelj: Jeren, Branko.
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4. Šikić, Mile.
Računalna metoda za predviđanje mjesta proteinskih interakcija / doktorska disertacija.
Zagreb : Fakultet elektrotehnike i računarstva, 29.09. 2008,
123 str. Voditelj: Jeren, Branko.
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Diplomski radovi
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1. Kušević, Katarina.
Računalna metoda za računanje proteinskih interakcija / završni rad - diplomski/integralni studij.
Zagreb : Fakultet elektrotehnike i računarstva, 09.07. 2013,
53 str. Voditelj: Šikić, Mile.
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2. Rakipović, Alen.
BioMe - web sučelje baze biološki važnih metala / završni rad - diplomski/integralni studij.
Zagreb : Fakultet elektrotehnike i računarstva, 29.06. 2012.,
34 str. Voditelj: Šikić, Mile.
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3. Kušević, Katarina.
Implementacija algoritma za računanje proteinskih interakcija / završni rad - preddiplomski studij.
Zagreb : Fakultet elektrotehnike i računarstva, 29.06. 2011,
30 str. Voditelj: Šikić, Mile.
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4. Popović, Irena.
Predviđanje površine dostupne otapalu iz slijeda aminokiselinskih ostataka / diplomski rad.
Zagreb : Fakultet Elektrotehnike i računarstva, 22.04. 2011.,
43 str. Voditelj: Šikić, Mile.
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5. Sović, Ivan.
Alat za prianjanje proteina: modul za vizualizaciju / završni rad - diplomski/integralni studij.
Zagreb : Fakultet elektrotehnike i računarstva, 06.07. 2011.,
89 str. Voditelj: Šikić, Mile.
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6. Antulov-Fantulin, Nino.
Alat za prianjanje proteina: moduli za rotaciju i vrednovanje rezultata / završni rad - diplomski/integralni studij.
Zagreb : Fakultet elektrotehike i računarstva, 06.07. 2010.,
64 str. Voditelj: Šikić, Mile.
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7. Čanadi, Igor.
Alat za prianjanje proteina: modul za pripremu prianjanja / završni rad - preddiplomski studij.
Zagreb : Fakultet Elektrotehnike i računarstva, 11.07. 2010,
27 str. Voditelj: Šikić, Mile.
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8. Čolić, Dragana.
Alat za prianjanje proteina: modul za utvrđivanje interakcija / završni rad - diplomski/integralni studij.
Zagreb : Fakultet Elektrotehnike i računarstva, 06.07. 2010,
52 str. Voditelj: Šikić, Mile.
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9. Janjić, Saša.
Predviđanje mjesta sekundarne strukture protein iz slijeda aminokiselinskih ostataka / diplomski rad.
Zagreb : Fakultet Elektrotehnike i računarstva, 01.03. 2010,
68 str. Voditelj: Šikić, Mile.
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10. Matija Piškorec.
Multiresolution analysis of macromolecular structures / završni rad - diplomski/integralni studij.
Zagreb : Fakultet elektrotehnike i računarstva, 06.07. 2010.,
38 str. Voditelj: Šikić, Mile.
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11. Tus, Alan.
Baza podataka metala u proteinima / završni rad - preddiplomski studij.
Zagreb : Fakultet elektrotehnike i računarstva, 07.07. 2010,
33 str. Voditelj: Šikić, Mile.
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12. Sović, Ivan.
Vizualizacija makromolekula / završni rad - preddiplomski studij.
Zagreb : Fakultet elektrotehnike i računarstva, 11.07. 2008.,
49 str. Voditelj: Jeren, Branko.
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