BioMath: Bioinformatics Research Group

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The Bioinformatics Research Group at the Faculty of Mathematics is active in different fields of bioinformatics, including research of advanced data processing techniques and their application to biomedical data.

Members

The group consists of members of the Department of Computer Science at the University of Belgrade - Faculty of Mathematics, and the (*) Institute of General and Physical Chemistry.

A number of graduate students take part in current research activities.

Selected Publications

Maljkovic Mirjana M, Mitic Nenad S, and De Brevern Alexandre G:
Prediction of structural alphabet protein blocks using data mining,
BIOCHIMIE, 2022, 197, 74-85
DOI: 10.1016/j.biochi.2022.01.019
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
Goran Vinterhalter, Jovana J. Kovačević, Vladimir N. Uversky, Gordana M. Pavlović-Lažetić:
Bioinformatics analysis of correlation between protein function and intrinsic disorder,
International journal of biological macromolecules, 2021, 167, 446-456
DOI: 10.1016/j.ijbiomac.2020.11.211
Akhila Melarkode Vattekatte, Tarun Jairaj Narwani, Aline Floch, Mirjana Maljković, Soubika Bisoo, Nicolas K. Shinada, Agata Kranjc, Jean-Christophe Gelly, Narayanaswamy Srinivasan, Nenad Mitić, Alexandre G. de Brevern:
Data set of intrinsically disordered proteins analysed at a local protein conformation level,
Data in Brief, 2020, 29
DOI: 10.1016/j.dib.2020.105383
Akhila, M., Narwani, T., Floch, A., Maljković M., Bisoo, S., Shinada, N.K., Kranjc, A., Gelly, JC., Srinivasan, N., Mitić, N., de Brevern, A.G.:
A structural entropy index to analyse local conformations in intrinsically disordered proteins,
Journal of Structural Biology, 2020
DOI: 10.1016/j.jsb.2020.107464
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
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
Mirjana D Pavlović, Davorka R Jandrlić, Nenad S Mitić:
Epitope distribution in ordered and disordered protein regions. Part B - Ordered regions and disordered binding sites are targets of T- and B-cell immunity,
J. Immunol. Methods, 2014. 407:90-107
Nenad S Mitić, Mirjana D Pavlović, Davorka R Jandrlić:
Epitope distribution in ordered and disordered protein regions - part A. T-cell epitope frequency, affinity and hydropathy,
J. Immunol. Methods, 2014. 406:83-103
Vesna Pajic, Gordana Pavlovic Lazetic, Dragana Dudic, Dragica Radovanovic and Jelena Kozoderovic:
Integration of data in biosciences, International work-conference on bioinformatics and biomedical engineering,
International work-conference on bioinformatics and biomedical engineering, IWBBIO 2014, April 7-9, Granada, Spain
Gordana Pavlovic Lazetic, Vesna Pajic, Nenad Mitic, Jovana Kovacevic and Milos Beljanski:
Mining Associations for Organism Characteristics in Prokaryotes: an Integrative Approach,
International work-conference on bioinformatics and biomedical engineering, IWBBIO 2014, April 7-9, Granada, Spain
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, 16, 23549-23553, 2014.
DOI: 10.1039/C4CP00929K
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, 16, 11173-11177, 2014.
DOI: 10.1039/C3CP54474E
Pajić, V., Pavlović-Lažetić, G., Beljanski, M., Brandt, B. and Pajić, M.:
Towards a Database for Genotype-Phenotype Association Research: Mining Data from Encyclopedia,
Int. J. Data Mining and Bioinformatics, Vol. 7, No. 2, 2013, pp. 196-213
Jovana J. Kovacevic:
Computational Analysis of Position-dependent Disorder Content in DisProt Database,
Genomics, Proteomics & Bioinformatics, 2012. Vol. 10 No. 3 Pg. 158-165
DOI: 10.1016/j.gpb.2012.01.002
Pavlović-Lažetić Gordana, Mitić Nenad S., Kovačević Jovana J., Obradović Zoran, Malkov Saša N., Beljanski Miloš V.:
Bioinformatics analysis of disordered proteins in prokaryotes,
BMC Bioinformatics, 12:66, 2011.
DOI: 10.1186/1471-2105-12-66
Pavlović-Lažetić Gordana, Mitić Nenad S., Beljanski Miloš V.:
N-gram characterization of genomic islands in bacterial genomes,
Computer Methods and Programs in Biomedicine, Volume 93, Issue 3, pp.241-256, March 2009.
DOI: 10.1016/j.cmpb.2008.10.014
Malkov Saša, Živković Miodrag, Beljanski Miloš, Stojanović Srđan, Zarić Snežana:
A reexamination of correlations of amino acids with particular secondary structures,
Protein Journal, 28 (2), pp. 74-86, 2009.
DOI: 10.1007/s10930-009-9166-3
Mitić Nenad, Pavlović-Lažetić Gordana, Beljanski Miloš:
Could N-gram analysis contribute to genomic island determination?,
Journal of Biomedical Informatics, 41 (2008), pp. 936-943
DOI: 10.1016/j.jbi.2008.03.007
Malkov Saša, Živković Miodrag, Beljanski Miloš, Hall Michael, Zarić Snežana:
A Reexamination of the Propensities of Amino Acids towards a Particular Secondary Structure: Connection with their Chemical Structure,
Journal of Molecular Modeling, Volume 14, Number 8, August 2008, pp769-775(7)
DOI: 10.1007/s00894-008-0313-0
Ranisavljević, S., Tadić, S., Tošić, N., Pavlović-Lažetić, G.,Mitić. N., Pavlović, M. and Gorjanović, S. Ž.:
Bioinformatics Analysis of SARS-CoV S Protein,
Physical Chemistry, 2008, Proceedings of the 9th International Conference of Fundamental and Applied Aspects of Physical Chemistry, September 24-26 2008., Belgrade, Serbia, Proceedings, Volume 1, pp: 427-429, ISBN 978-86-82475-16-3
Živković Miodrag, Malkov Saša, Zarić Snežana, Vujošević-Janičić Milena, Tomašević Jelena, Predović Goran, Blažić Novica, Beljanski Miloš V.:
Statistical Dependence of Protein Secondary Structure on Amino Acid Bigrams,
Chemical Industry & Chemical Engineering Quarterly, 2006, 12(1), 82
(link)
Pavlović-Lažetić Gordana, Tomović Andrija, Pavlović Mirjana, Manola Ana, Božić Ivana, Beljanski Miloš V.:
SARS CoV Spike Protein Polymorphyism: Bioinformatics Study,
1st South East European Congress of Chemical Engineering, Belgrade, Serbia and Montenegro, 25-28 September 2005, Belgrade, SCG, COBISS.SR-ID 125 25543, ISBN 86-905111-0-5, pp.204.
(book of abstracts)
Vujošević-Janičić Milena, Tomašević Jelena, Živković Miodrag, Malkov Saša, Predović Goran, Blažić Novica, Beljanski Miloš V., Zarić Snežana:
Distribution of Distances of Connected Amino Acid Pairs in Proteins,
1st South East European Congress of Chemical Engineering, Belgrade, Serbia and Montenegro, 25-28 September 2005, Belgrade, SCG, COBISS.SR-ID 125 25543, ISBN 86-905111-0-5, pp.194
(book of abstracts)
Pavlović-Lažetić Gordana M., Mitić Nenad S., Tomović Andrija M., Pavlović Mirjana D., Beljanski Miloš V.:
SARS-CoV Genome Polymorphism: a Bioinformatics Study,
Genomics, Proteomics, Bioinformatics, Vol.3 No.1 February 2005, Elsevier, ISSN 1672-0229, pp18-35.
(PUBMED, BioMedSearch)
Pavlović-Lažetić Gordana, Mitić Nenad S., Beljanski Miloš V., Tomović Andrija:
Mutational analysis of SARS CoV genome,
Moscow Conference on Computational Molecular Biology - MCCMB'05, Moscow, Russia, July 2005, Book of abstracts, 289-290
Pavlović-Lažetić Gordana, Mitić Nenad S., Beljanski Miloš V.:
Bioinformatics analysis of SARS coronavirus genome polymorphism,
BMC Bioinformatics, 5: 65 (2004)
(BioMed Central)

Site

This Web site is developed by the group members.

Prokaryote Disorder Database is based on the content of the Entrez Genome database and application of the VSL2B disordered regions predictor. The utilized technologies include IBM DB2, Wafl and Highcharts.

Contact

Please contact us at:

Address:

University of Belgrade - Faculty of Mathematics
Bioinformatics Research Group
Studentski trg 16
11000 Belgrade
Serbia

EMail:

bioinfo @ matf . bg . ac . rs

Phone:

+381.11.2027.801

Fax:

+381.11.2630.151