Papers in Scientific Journals

  1. David K. Halladin, Fabian E. Ortega, Katharine M. Ng, Matthew J. Footer, Nenad S. Mitić, Saša N. Malkov, Ajay Gopinathan, Kerwyn Casey Huang, Julie A. Theriot
    Entropy-driven translocation of disordered proteins through the Gram-positive bacterial cell wall Nature Microbiology, 2021, 6, 1055-1065
    DOI: 10.1038/s41564-021-00942-8
  2. Jelica Milošević, Lidija Vrhovac, Filip Đurković, Brankica Janković, Saša Malkov, Jurij Lah and Natalija Đ. Polović
    Isolation, identification, and stability of Ficin 1c isoform from fig latex New J. Chem., 2020, 44, 15716-15723
    DOI: 10.1039/D0NJ02938F
  3. M.Banković, V.Filipović, J.Graovac, J.Hadži-Purić, A.R.Hurson, A.Kartelj, J.Kovačević, N.Korolija, M.Kotlar, N.B.Krdžavac, F.Marić, S.Malkov, V.Milutinović, N.Mitić, S.Mišković, M.Nikolić, G.Pavlović-Lažetić, D.Simić, S.Stojanović Djurdjević, S.Vujičić Stanković, M.Vujošević Janičić, M.Živković
    Teaching graduate students how to review research articles and respond to reviewer comments,
    Advances in Computers, 2020, vol.116/1, pp.1-63
    DOI: 10.1016/bs.adcom.2019.07.001
  4. N.Mitić, S.Malkov, J.Kovačević, G.Pavlović-Lažetić, M.Beljanski
    Structural disorder of plasmid-encoded proteins in Bacteria and Archaea,
    BMC Bioinformatics 2018, 19:158
    DOI: 10.1186/s12859-018-2158-6
  5. T.Naumović, V.Lakić, A.Jovićević, D.Ilić, P.Milošević, V.Stević-Gajić, A.Antonijević, N.Milovanović, I.Magdić, R.Korićanac, S.Malkov, I.Grkavac, M.Mihajlović, S.Đuričić, B.Živković, U.Stegić, Z.Milovanović, D.Oprić, M.Knezević, V.Jovanović, Z.Todorović, D.Todorović:
    New software for collecting data from the organized cervical cancer screening program in Serbia. Are we on the threshold of a new screening registry? - A multicentric study.,
    Journal of BUON, 2017, vol.22/1, pp.58-63
    ISSN: 11070625
  6. B.Šandrih, V.Filipović, A.Kartelj, S.Malkov:
    Distributed Computing Among Independent Web Browsers Applied to Text and Image Processing,
    Review of NCD, Vol.31, 30-39, Belgrade, 2017.
  7. N.Pejović, S.Malkov, N.Mitić, Ž.Mijajlović:
    Serbian and International Honors Awarded to Milutin Milanković,
    Review of NCD, 2016, No.28, 79-86, ISSN 1820-0109
  8. A.D.Simonović, B.K.Filipović, M.M.Trifunović, S.N.Malkov, V.P.Milinković, S.B.Jevremović, A.R.Subotić:
    Plant regeneration in leaf culture of Centaurium erythraea Rafn. Part 2: the role of arabinogalactan proteins,
    Plant Cell, Tissue and Organ Culture, 2015
    DOI: 10.1007/s11240-015-0741-3
  9. N.Pejović, S.Malkov, N.Mitić, Ž.Mijajlović:
    Scientific papers of Milutin Milanković in his Digital Legacy,
    Review of NCD, 2015, No.26, 69-76, ISSN 1820-0109
  10. G. Janjić, S. Malkov, M. Živković, S. Zarić:
    What are preferred water/aromatic interactions in proteins and crystal structures of small molecules?,
    Physical Chemistry Chemical Physics, 2014, 16, 23549-23553
    DOI: 10.1039/C4CP00929K
  11. D.B.Ninković, J.M.Andrić, S.Malkov, S.Zarić:
    What are the preferred horizontal displacements of aromatic–aromatic interactions in proteins? Comparison with the calculated benzene–benzene potential energy surface,
    Physical Chemistry Chemical Physics, 2014, 16, 11173-11177
    DOI: 10.1039/C3CP54474E
  12. N.Vukša Popović, Ž.Mijajlović, N.Mitić, S.Malkov:
    Digital Archive Repository for Digital Legacies,
    Review of NCD, 2014, No.24, 24-28, ISSN 1820-0109
  13. Ž.Mijajlović, N.Mitić, S.Malkov:
    Digital Legacies,
    Review of NCD, 2013, No.22, 148-152, ISSN 1820-0109
  14. G.Pavlović-Lažetić, N.Mitić, J.Kovačević, Z.Obradović, S.Malkov, M.Beljanski
    Bioinformatics analysis of disordered proteins in prokaryotes,
    BMC Bioinformatics 2011, 12:66
    DOI: 10.1186/1471-2105-12-66
  15. S.Životić, S.Malkov, N.Mitić, Ž.Mijajlović:
    A Cultural Heritage Register Prototype,
    Review of NCD, 2010, No.17, 1:8, ISSN 1820-0109
  16. S.Malkov
    Customizing a Functional Programming Language for Web Development,
    Computer Languages, Systems & Structures, 2010, 36(4):345-351
    DOI: 10.1016/j.cl.2010.04.001
  17. S.Malkov, M.Živkovic, M.Beljanski, S.Stojanović, S.Zarić:
    Reexamination of Correlations of Amino Acids with Particular Secondary Structures,
    The Protein Journal, 2009, 28(2):74-86
    DOI: 10.1007/s10930-009-9166-3
  18. S.Malkov
    Povezivanje strogo tipiziranih funkcionalnih programskih jezika i relacionih baza podataka,
    Doctoral thesis, University of Belgrade - Faculty of Mathematics, 2009.
  19. S.Malkov
    On Photograph Library Design – Groman Library,
    Review of NCD, 2008, No.13, ISSN 1820-0109
  20. S.Malkov, N.Mitić, Ž.Mijajlović:
    Nikola Tesla Online Clipping Library Prototype,
    Review of NCD, 2008, No.12, ISSN 1820-0109
  21. S.Malkov, M.Živkovic, M.Beljanski, M.Hall, S.Zarić:
    A reexamination of the propensities of amino acids towards a particular secondary structure: classification of amino acids based on their chemical structure,
    Journal of Molecular Modeling, 2008, 14(8):769-775
    DOI: 10.1007/s00894-008-0313-0
  22. M.Živkovic, S.Malkov, S.Zaric, M.Vujoševic-Janicic, J.Tomaševic, G.Predovic, N.Blažic, M.V.Beljanski:
    Statistical Dependence of Protein Secondary Structure on Amino Acid Bigrams,
    Chemical Industry & Chemical Engineering Quarterly, 2006, 12(1), 82
    DOI: 10.2298/CICEQ0601082Z
  23. M.Vujoševic, S.Malkov, A.Jovanović:
    Computerized chromosome comparison - How much difference in homology of two chromosomes is acceptable,
    Genetika, 1998, 29(3):231-239
  24. S.Malkov, A.Jovanović, M.Vujošević:
    A method for automatic comparison of G-banded chromosomes,
    1st European Cytogenetics Conference, Athens, June 22-25 1997,
    Cytogenetics and Cell Genetics, 77(1-2):61.
  25. G.Obradović, S.Malkov, A.Jovanović:
    One application of FFT algorithm in image analysis,
    Mitrinović Memorial, Niš, 1996,
    Scientific Review, 1996, 21-22
  26. S.Malkov, A.Jovanović, L.Č.Popović, A.Kubičela, I.Vince, J.Arsenijević:
    A software for photometric analyses of CCD images,
    Conference of International Amateur-Professional Photoelectric Photometry, Baja, Hungary, 1996,
    I.A.P.P.P. Communications Vol.67, pp.62-65.

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Papers in Proceedings

  1. A.Veljković, M.Maljković, N.Mitić, S.Malkov, M.Lyu, X.Lin, M.Michalewitz, G.Zhang, V.Brusić:
    Classification of Single Cell Types using Small Sets of Expressed Genes: Comparative Analysis of Supervised Machine Learning Methods,
    Proceedings - 2021 IEEE International Conference on Bioinformatics and Biomedicine, BIBM 2021 DOI: 10.1109/BIBM52615.2021.9669844
  2. A.Uzelac, T.Štajner, M.Busarčević, A.Munjiza, M.Kostić, Č.Miljević, D.Lečić-Toševski, N.Mitić, S.Malkov, O.Đurković-Đaković:
    Gene expression in schizophrenia patients and non-schizophrenic individuals infected with Toxoplasma gondii,
    Proceedings of BELBI 2016, Beograd 20-24 June 2016, pp.142-150.
  3. N.Pejović, S.Malkov, N.Mitić, Ž.Mijajlović:
    Milutin Milankovic Digital Legacy,
    Proceedings of the IX Bulgarian-Serbian Astronomical Conference: Astroinformatics, Sofia, Bulgaria, July 2-4, 2014.
  4. N.Pejović, S.Malkov, N.Mitić, Ž.Mijajlović:
    Digital legacies,
    Review of the National Center for Digitization (Proceedings of the VII International SEEDI Conference, Ljubljana, Slovenia, 17-18th May 2012.), vol 22, 148-152, 2013. ISSN: 1820-0109
  5. S.Malkov, A.Jovanović, M.Vujošević:
    A method for automatic comparison of G-banded chromosomes,
    1st European Cytogenetics Conference, Athens, June 22-25 1997,
    Cytogenetics and Cell Genetics, 77(1-2):61.
  6. S.Malkov, N.Mitić, G.Lazić, A.Gačević:
    SK implementation of some data types,
    LIRA'97 - VIII Conference on Logic and Computer Science, Novi Sad, 1997.
    LIRA'97 - Proceedings of VIII Conference on Logic and Computer Science, Novi Sad, 1997, pp. 139-146.
  7. S.Malkov, G.Obradović, A.Jovanović:
    Algorithms for Use in Molecular Genetics,
    I Sym. on Molecular Genetics and I Sym. on Mutagene and Genotoxicologie, Zlatibor, September 1997, Book of abstracts, C7.
  8. S.Malkov, G.Lazić, A.Gačević, N.Mitić:
    Implementation of optimized SK reduction machine,
    LIRA '95 - Proceedings of VII Conference on Logic and Computer Science, Novi Sad, September 26-30, 1995, pp. 91-98.
  9. A.Jovanović, S.Malkov, G.Obradović, S.Kordić:
    CCD mikroskopija, astronomija i problemi akvizicije i obrade EEG signala,
    Zbornik radova: XI naučno stručni skup "XI INFO-TEH '96", Donji Milanovac, Jun 17-21, 1996, pages 215-217
  10. S.Malkov, M.Vujošević, A.Jovanović:
    One Method For Automatic Chromosome Analysis And Comparison,
    12th Panhelenic Congress in Mathematics Education (Mathematics and Other Sciences),
    November 10-12, 1995, Heraclion, Crete, Greece. Proocedings 371-378.
  11. L.Č.Popović, A.Kubičela, J.Arsenijević, D.Jevremović, I.Vince, S.Malkov:
    The impact of SL-9 fragments with Jupiter: the development of the G-spot,
    Proceedings of 2nd Hellenic Astronomical Conference, Thessaloniki, June 29-Jule 1, 1995 (Dec.1996), pp. 121-126.

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Books and Scripts

  1. S.Malkov
    Objektno orijentisano programiranje - C++ kroz primere,
    (book on object oriented programming in programming language C++)
    Faculty of Mathematics, 2006.
  2. N.Mitić, S.Malkov, V.Nikić:
    Osnovi programiranja - Zbirka zadataka,
    (book on algorithms and basic programming skills in Pascal)
    Matematički fakultet u Beogradu, 2000.
  3. S.Malkov:
    Databases Exercises,
    Scripts, 1999.
  4. S.Malkov:
    Basics of Computer Systems, Exercises,
    Scripts, 1998.
  5. S.Malkov:
    Basics of Programming,
    Scripts, 1998.

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Software

The most significant designed or/and developed software include:

  1. Sequnomia, Software for deNovo assembly of genomic sequences, developed during the cooperation of the Group for bioinformatics with the Institute for biological research "Siniša Stanković" (dr Ana Simonović) with goal of assembling the transcriptomes of Centaurium erythraea. It is later used in other bioinformatics researches, also.
    Beograd, 2011-2014
    (C++,...)
  2. VivoSight, A software platform for medical diagnostics device for skin scanning
    , as consultant for database design and usage
    Beograd, 2011-2015
    (MS SQL Server,...)
  3. STUDINFO - Faculty Information System, IS and database design, database implementation and application development management
    Beograd, 2006-
    (Java, DB2, Apache Tomcat, Eclipse, Windows, Linux)
  4. Wafl, Design and implementation of functional programming language Wafl, including
    • Wafl virtual machine
    • Wafl interpreter module
    • ODBC and native DB2 database drivers for Wafl
    • Wafl command line interpreter
    • Wafl Apache Web server module, for Windows and Linux
    • Wafl MS IIS module, for Windows
    • Standalone Wafl server
    Beograd, 2001-
    (Windows, Linux, Apache, C++, ODBC, DB2, SQL, Wafl)
  5. Many Web applications using Wafl, including:
    • Online interactive textbook Analytical Geometry, Member of management and consulting team (http://codd.matf.bg.ac.rs/angeom)
      Beograd, 2002-
      (DB2, Wafl, HTML)
    • Groman DB, Experimental online digital photograph library, Beograd, 2003.
      (DB2, Wafl, HTML)
    • Nicola Tesla Newspaper Clippings Library, Library prototype design and implementation (http://virlib.matf.bg.ac.rs/tesla)
      Beograd, 2005.
      (DB2, Wafl, HTML)
    • Milutin Milanković - Digitalni legat, (http://codd.matf.bg.ac.rs/milankovic)
      Beograd, 2012-
      (Wafl, HTML)
  6. Paragraf Net distributed law forms collection. Designed general concepts, database and replication algorithms and implemented main parts of client side application. Designed and developed the local network distribution subsystem. Participated from the beginning of the project, in versions 1.0 to 3.0.
    Beograd, 2001-2003.
    (Windows, C++)
    The Paragraf Net software won:
    • Gold medal for quality, 15-th International Fair of Informatics, Electronics, Telecommunications and Energetics
      Novi Sad, 2003.
    • Diskobolos, award for the best e-publishing project of the year
      JISA - Yougoslav informations Science Associaton, 2003.
    • Reward for exelence in informatics
      Serbian Informatics Society, 2002.
    • Nominated for Diskobolos, for e-publishing project
      JISA - Yougoslav informations Science Associaton, 2001.
  7. Plato Online, online book store information system Plato Online, Design and implementation, in cooperationu with Extreme d.o.o. and Darko Popović
    Beograd, 2000.
    (Windows, C++)
  8. G-Band Analyst, Image analyzing software for automatic chromosome analysis. Used in several biological/medical research laboratories in Yugoslavia and Greece.
    Beograd, 1994-1998.
    (Windows, C++)
  9. Analyst, Image analyzing software for photometric analyses of astronomical CCD photographies.
    Beograd 1994-1997.
    (Windows, C++)
  10. Multimedia Editor, Multimedia editions visual development tool. Used in Portfolio multimedia editions.
    Beograd, 1996.
    (Windows, C++)
  11. Car Tracker, a GIS component of GPS car tracking system ARGUS.
    Beograd, 1995-1996.
    (Windows, C++)

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