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Poglavlja u knjizi
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1. Supek, Fran; Škunca, Nives.
Visualizing GO Annotations // The Gene Ontology Handbook / Dessimoz, Christophe ; Škunca, Nives (ur.).
New York (NY) : Humana Press, 2016.
Str. 207-220.  
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2. Supek, Fran; Šmuc, Tomislav.
Distance Measures and Machine Learning Approaches for Codon Usage Analyses // Codon Evolution - Mechanisms and Models / Cannarozzi, Gina ; Schneider, Adrian (ur.).
Oxford : Oxford University Press, 2011.
Str. 229-244.
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Izvorni znanstveni i pregledni radovi u CC časopisima
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1. Supek, Fran; Lenher, Ben.
Clustered Mutation Signatures Reveal that Error-Prone DNA Repair Targets Mutations to Active Genes. // Cell. 170 (2017) , 3; 534-547 (članak, znanstveni). 
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2. Brbić, Maria; Piškorec, Matija; Vidulin, Vedrana; Kriško, Anita; Šmuc, Tomislav; Supek, Fran.
The landscape of microbial phenotypic traits and associated genes. // Nucleic acids research. 44 (2016) , 21; 10074-10090 (članak, znanstveni).
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3. Cho, Ara; Shim, Jung Eun; Kim, Eiru; Supek, Fran; Lehner, Ben; Lee, Insuk.
MUFFINN: cancer gene discovery via network analysis of somatic mutation data. // Genome biology. 17 (2016) ; (članak, znanstveni).
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4. Brbić, Maria; Warnecke, Tobias; Kriško, Anita; Supek, Fran.
Global Shifts in Genome and Proteome Composition Are Very Tightly Coupled. // Genome Biology and Evolution. 7 (2015) , 6; 1519-1532 (članak, znanstveni).
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5. Supek, Fran; Lehner, Ben; Hajkova, Petra; Warnecke, Tobias.
Hydroxymethylated Cytosines Are Associated with Elevated C to G Transversion Rates. // Plos genetics. 10 (2014) , 9; (članak, znanstveni).
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6. Vidović, Anita; Supek, Fran; Nikolić, Andrea; Kriško, Anita.
Signatures of conformational stability and oxidation resistance in proteomes of pathogenic bacteria. // Cell Reports. 7 (2014) , 5; 1393-1400 (članak, znanstveni).
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7. Gamberger, Dragan; Šmuc, Tomislav.
Good Governance Problems and Recent Financial Crises in Some EU Countries. // Economics-The Open Access Open-Assessment E-Journal. 7 (2013) ; (članak, znanstveni).
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8. Levatić, Jurica; Ćurak, Jasna; Kralj, Marijeta; Šmuc, Tomislav; Osmak, Maja; Supek, Fran.
Accurate Models for P-gp Drug Recognition Induced from a Cancer Cell Line Cytotoxicity Screen. // Journal of medicinal chemistry. 56 (2013) , 14; 5691-5708 (članak, znanstveni).
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9. Radivojac, Predrag; ...; Škunca, Nives; Supek, Fran; Bošnjak, Matko; ...; Šmuc, Tomislav; ...; Friedberg, Iddo.
A large-scale evaluation of computational protein function prediction. // Nature methods. 10 (2013) , 3; 221-227 (članak, znanstveni).
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10. Ester, Katja; Supek, Fran; Majsec, Kristina; Marjanović, Marko; Lembo, David; Donalisio, Manuela; Šmuc, Tomislav; Jarak, Ivana; Karminski-Zamola, Grace; Kralj, Marijeta.
Putative mechanisms of antitumor activity of cyano-substituted heteroaryles in HeLa cells. // Investigational new drugs. 30 (2012) , 2; 450-467 (članak, znanstveni).
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11. Čož-Rakovac, Rozelinda; Lisičić, Duje; Šmuc, Tomislav; Topić Popović, Natalija; Strunjak-Perović, Ivančica; Jadan, Margita; Tadić, Zoran; Jug Dujaković, Jurica.
Classification Modelling of Physiological Stages in Captive Balkan Whip Snakes Using Blood Biochemistry Parameters. // Journal of herpetology. 45 (2011) , 4; 525-529 (članak, znanstveni).
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12. Smole, Zlatko; Nikolić, Nela; Supek, Fran; Šmuc, Tomislav; Sbalzarini, Ivo; Kriško, Anita.
Proteome sequence features carry signatures of the environmental niche of prokaryotes. // Bmc evolutionary biology. 11 (2011) ; (članak, znanstveni).
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13. Supek, Fran; Šumanovac Ramljak, Tatjana; Marjanović, Marko; Buljubašić, Maja; Kragol, Goran; Ilić, Nataša; Šmuc, Tomislav; Zahradka, Davor; Mlinarić-Majerski, Kata; Kralj, Marijeta.
Could LogP be a principal determinant of biological activity in 18-crown-6 ethers? Synthesis of biologically active adamantane-substituted diaza-crowns. // European Journal of Medicinal Chemistry. 46 (2011) , 8; 3444-3454 (članak, znanstveni).
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14. Gredičak, Matija; Supek, Fran; Kralj, Marijeta, Majer, Zsuzsa; Hollosi, Miklos; Šmuc, Tomislav; Mlinarić-Majerski, Kata; Horvat, Štefica.
Computational structure-activity study directs synthesis of novel antitumor enkephalin analogs. // Amino acids (Wien). 38 (2010) , 4; 1185-1191 (članak, znanstveni).
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15. Supek, Fran; Škunca, Nives; Repar, Jelena; Vlahoviček, Kristian; Šmuc, Tomislav.
Translational Selection Is Ubiquitous in Prokaryotes. // Plos genetics. 6 (2010) , 6; (članak, znanstveni).
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16. Supek, Fran; Šmuc, Tomislav.
On Relevance of Codon Usage to Expression of Synthetic and Natural Genes in Escherichia coli. // Genetics. 185 (2010) ; 1129-1134 (članak, znanstveni).
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17. Čož-Rakovac, Rozelinda; Topić Popović, Natalija; Šmuc, Tomislav; Strunjak-Perović, Ivančica; Jadan, Margita.
Classification accuracy of algorithms for blood chemistry data of three aquaculture-influenced marine fish species. // Fish Physiology and Biochemistry. 35 (2009) , 4; 641-647 (članak, znanstveni).
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18. Čož-Rakovac, Rozelinda; Šmuc, Tomislav; Topić Popović, Natalija; Strunjak-Perović, Ivančica; Hacmanjek, Mato; Jadan, Margita.
Novel methods for assesing fish blood biochemical data. // Journal of Applied Ichthyology. 24 (2008) , 1; 77-80 (članak, znanstveni).
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19. Kralj, Marijeta; Tušek-Božić, Ljerka; Frkanec, Leo.
Biomedical Potentials of Crown Ethers: Prospective Antitumor Agents. // ChemMedChem. 3 (2008) , 10; 1478-1492 (pregledni rad, znanstveni).
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20. Supek, Fran; Kralj, Marijeta; Marjanović, Marko; Šuman, Lidija; Šmuc, Tomislav; Krizmanić, Irena; Žinić, Biserka.
Atypical cytostatic mechanism of N -1-sulfonylcytosine derivatives determined by in vitro screening and computational analysis. // Investigational new drugs. 26 (2008) , 2; 97-110 (članak, znanstveni).
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21. Supek, Fran; Peharec, Petra; Krsnik-Rasol, Marijana; Šmuc, Tomislav.
Enhanced analytical power of SDS-PAGE using machine learning algorithms. // Proteomics. 8 (2008) , 1; 28-31 (članak, znanstveni).
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Znanstveni radovi u drugim časopisima
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1. Škunca, Nives; Bošnjak, Matko; Kriško, Anita; Panov, Panče; Džeroski, Sašo; Šmuc, Tomislav; Supek, Fran.
Phyletic Profiling With Cliques of Orthologs is Enhanced by Signatures of Paralogy Relationships. // Plos computational biology. 9 (2012) , 1; (članak, znanstveni).
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2. Supek, Fran; Bošnjak, Matko; Škunca, Nives; Šmuc, Tomislav.
REVIGO summarizes and visualizes long lists of Gene Ontology terms. // PLoS One. 6 (2011) , 7; e21800-e21800 (članak, znanstveni).
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3. Kralj, Marijeta; Tušek-Božić, Ljerka; Frkanec, Leo.
ChemInform Abstract: Biomedical Potentials of Crown Ethers: Prospective Antitumor Agents. // Cheminform. 40 (2009) , 1; i (prikaz, znanstveni).
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Drugi radovi u zbornicima skupova s recenzijom
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1. Bošnjak, Matko; Antulov-Fantulin, Nino; Šmuc, Tomislav; Gamberger, Dragan.
Constructing recommender systems workflow templates in RapidMiner // Proceedings of the 2nd RapidMiner Community Meeting and Conference (RCOMM 2011) / Ficher, Simon ; Mierswa, Ingo (ur.).
Aachen : Shaker, 2011. 101-112 (predavanje,međunarodna recenzija,objavljeni rad,stručni).
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Sažeci u zbornicima skupova
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1. Skunca, Nives; Supek, Fran; Smuc, Tomislav; Panov, Pance; Dzeroski, Saso.
Functional annotation of orthologous groups by using hierarchical multi label classification // ISMB & ECCB 2009.
(poster,međunarodna recenzija,sažetak,znanstveni).
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2. Supek, Fran; Škunca, Nives; Šmuc, Tomislav.
Redundancy Elimination and Visualization of Gene Ontology Term Lists // ISMB & ECCB 2009.
(poster,međunarodna recenzija,sažetak,znanstveni).
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3. Čož-Rakovac, Rozelinda; Strunjak-Perović, Ivančica; Topić Popović, Natalija; Šmuc, Tomislav; Jadan, Margita; Galetović, Sonja; Čolak, Slavica; Lovrinov, Mario; Milina, Ana.
Seasonal blood chemistry patterns of shade fish Argyrosomus regius // Diseases of Fish and Shellfish ; 14th EAFP International Conference ; Prague, September 14-19, 2009 / EAFP Committee (ur.).
Prag : HALAMA Publishing House, 2009. 287-287 (poster,sažetak,znanstveni).
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4. Škunca, Nives; Šmuc, Tomislav; Supek, Fran.
REViGO: Redundancy Elimination and Visualization of Gene Ontology Term Lists // The 3rd Adriatic Meeting on Computational Solutions in the Life Sciences - Book of Abstracts / Babić, Darko ; Došlić, Nađa ; Smith, David ; Tomić, Sanja ; Vlahoviček, Kristian (ur.).
Zagreb : Institute of Computational Life Sciences (ICLS), 2009. 75-75 (poster,međunarodna recenzija,sažetak,znanstveni).
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5. Supek, Fran; Šmuc, Tomislav; Repar, Jelena; Škunca, Nives.
GORBI: Web application for the prediction of a protein's functional context // The 3rd Adriatic Meeting on Computational Solutions in the Life Sciences - Book of Abstracts / Babić, Darko ; Došlić, Nađa ; Smith, David ; Tomić, Sanja ; Vlahoviček, Kristian (ur.).
Zagreb : Institute of Computational Life Sciences (ICLS), 2009. 76-76 (poster,međunarodna recenzija,sažetak,znanstveni).
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6. Repar, Jelena; Škunca, Nives; Supek, Fran; Šmuc, Tomislav.
An XML format for peptide datasets // ECCB'08 European Conference on Computational Biology.
(poster,međunarodna recenzija,sažetak,znanstveni).
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7. Škunca, Nives; Supek, Fran; Repar, Jelena; Šmuc, Tomislav.
Evaluation of intergene distances across bacterial species // ECCB 2008 Proceedings.
(poster,međunarodna recenzija,sažetak,znanstveni).
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8. Supek, Fran; Kralj, Marijeta; Žinić, Biserka; Šmuc, Tomislav.
Computational analysis of in vitro screening data highlights an atypical cytostatic mechanism of a cytosine derivative // ECCB 2008 Proceedings.
(poster,međunarodna recenzija,sažetak,znanstveni).
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Disertacije
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Sadržaj objavljen na bib.irb.hr (osim ako je drugačaije navedeno) podložan je pravilima Creative Commons licence
