Publications

Journal publications:

Balázs Szalkai, Bálint Varga, Vince Grolmusz: Brain Size Bias Compensated Graph-Theoretical Parameters are Also Better in Women’s Structural Connectomes,  Brain Imaging and Behavior (2017)  http://dx.doi.org/10.1007/s11682-017-9720-0 [impact factor: 3.667]

Csaba Kerepesi, Vince Grolmusz: The “Giant Virus Finder” Discovers an Abundance of Giant Viruses in the Antarctic Dry Valleys,  Archives of Virology (2017)  http://dx.doi.org/10.1007/s00705-017-3286-4  [impact factor: 2.255]

Csaba Kerepesi, Judit E Szabó, Veronika Papp-Kádár, Orsolya Dobay, Dóra Szabó, Vince Grolmusz, Beata G Vertessy: Life without dUTPase, Frontiers in Microbiology, DOI: http://dx.doi.org/10.3389/fmicb.2016.01768 (2016) [impact factor: 4.165]

Balázs Szalkai, Csaba Kerepesi, Bálint Varga, Vince Grolmusz: Parameterizable Consensus Connectomes from the Human Connectome Project: The Budapest Reference Connectome Server v3.0,  Cognitive Neurodynamics, 11(1), pp. 113-116, (2017) http://dx.doi.org/10.1007/s11571-016-9407-z [impact factor: 2.159]

Csaba Kerepesi,  Balázs Szalkai, Bálint Varga, Vince Grolmusz: How to Direct the Edges of the Connectomes: Dynamics of the Consensus Connectomes and the Development of the Connections in the Human Brain,  PLoS One 11(6): e0158680. http://dx.doi.org/10.1371/journal.pone.0158680, June 30, 2016 [impact factor: 3.057]

Balázs Szalkai, Vince Grolmusz: Significant Differences Found in Short Nucleotide Sequences of Human Intestinal Metagenomes of Northern-European and Chinese Origin, Biochimica et Biophysica Acta (BBA) – General Subjects, Vol. 1861 (2017), Issue 1, Part B, January 2017, pp. 3627–3631. [impact factor: 5.083]

Balázs Szalkai, Vince Grolmusz: Nucleotide 9-mers Characterize the Type II Diabetic Gut Metagenome; Genomics, Vol. 107 (2016) pp. 120-123, http://dx.doi.org/10.1016/j.ygeno.2016.02.007 [impact factor: 2.284]

Gábor Iván, Dániel Bánky, Vince Grolmusz: Fast and Exact Sequence Alignment with the Smith-Waterman Algorithm: The SwissAlign Webserver; Gene Reports, Vol. 4, September 2016, pages 26-28. http://dx.doi.org/10.1016/j.genrep.2016.02.004

Csaba Kerepesi, Vince Grolmusz: Evaluating the Quantitative Capabilities of Metagenomic Analysis Software, Current Microbiology, Vol. 72. No. 5. pp. 612-616 (2016),  http://dx.doi.org/10.1007/s00284-016-0991-2 [impact factor: 1.423]

Csaba Kerepesi, Vince Grolmusz: Giant Viruses of the Kutch Desert, Archives of Virology,  Vol. 161 (2016), No.3 pp.721-724,  doi:   http://dx.doi.org/10.1007/s00705-015-2720-8 [impact factor: 2.390].

Balázs Szalkai, Bálint Varga, Vince Grolmusz:  Graph Theoretical Analysis Reveals: Women’s Brains Are Better Connected than Men’s. PLoS ONE 10(7): e0130045 (2015) doi: http://dx.doi.org/10.1371/journal.pone.0130045 [impact factor: 3.234]

Vince Grolmusz: Identifying Diabetes-Related Important Protein Targets with few Interacting Partners with the PageRank Algorithm,  Royal Society Open Science, 2:140252, (2015) doi: http://dx.doi.org/10.1098/rsos.140252.

Balázs Szalkai, Csaba Kerepesi, Bálint Varga, Vince Grolmusz: The Budapest Reference Connectome Server v2.0, Neuroscience Letters, Vol. 595  (2015), Pages 60-62, doi: http://dx.doi.org/10.1016/j.neulet.2015.03.071, [impact factor: 2.055]

Vince Grolmusz.:  A Note on the PageRank of Undirected Graphs, Information Processing Letters 115 (2015), pp. 633-634.  http://dx.doi.org/10.1016/j.ipl.2015.02.015,   [impact factor: 0.479]

Kata Horváti, Bernadett Bacsa, Nóra Szabó, Kinga Fodor, Gyula Balka, Miklós Rusvai, Éva Kiss, Gábor Mező, Vince Grolmusz, Beáta Vértessy, Ferenc Hudecz, Szilvia Bősze: Antimycobacterial activity of peptide conjugate of pyridopyrimidine derivative against Mycobacterium tuberculosis in a series of in vitro and in vivo models, Tuberculosis, Vol. 95, Suppl. 1, June 2015, pp. S207-S211,  DOI: http://dx.doi.org/10.1016/j.tube.2015.02.026 [impact factor: 3.5]

Csaba Kerepesi, Balázs Szalkai, Vince Grolmusz. Visual Analysis of the Quantitative Composition of Metagenomic Communities: the AmphoraVizu Webserver, Microbial Ecology.  Vol. 69 (2015) pp. 695-697, DOI 10.1007/s00248-014-0502-6 [impact factor: 3.118].

Gábor Iván, Vince Grolmusz.  On Dimension reduction of clustering results in structural bioinformatics,  Biochimica et Biophysica Acta (BBA)- Proteins and Proteomics 1844 (2014), pp. 2277-2283,  [impact factor: 3.733].

Balázs Szalkai, Ildikó Scheer, Kinga Nagy, Beáta G Vértessy, Vince Grolmusz, The Metagenomic Telescope, PLoS One, Vol. 9, No. 7, e101605 (2014). http://dx.doi.org/10.1371/journal.pone.0101605 [impact factor: 3.53]

Dániel Bánky, Balázs Szalkai, Vince Grolmusz: An Intuitive Graphical Webserver for Multiple-Choice Protein Sequence Search; Gene, 2014, Vol. 539 No. 1. pp. 152-3. http://dx.doi.org/10.1016/j.gene.2014.02.007 [impact factor: 2.19].

Rafael Ördög, Dániel Bánky, Balázs Szerencsi, Péter Juhász, Vince Grolmusz, The Erdős webgraph server, Discrete Applied Mathematics, Vol. 167 No. 20. April 2014, pp. 315-317, http://dx.doi.org/10.1016/j.dam.2013.10.032. (http://www.sciencedirect.com/science/article/pii/S0166218X13004757) [impact factor: 0.718]

Csaba Kerepesi, Dániel Bánky, Vince Grolmusz: AmphoraNet: The Webserver Implementation of the AMPHORA2 Metagenomic Workflow Suite, Gene,  Vol. 539, No. 1, pp. 152-153, April 2014, http://dx.doi.org/10.1016/j.gene.2013.10.015 [impact factor: 2.19]

Orsolya Barabás, Veronika Németh, Andrea Bodor, András Perczel, Edina Rosta, Zoltán Kele, Imre Zagyva, Zoltán Szabadka, Vince I Grolmusz, Matthias Wilmanns, Beáta G Vértessy:Catalytic mechanism of α-phosphate attack in dUTPase is revealed by X-ray crystallographic snapshots of distinct intermediates, 31P-NMR spectroscopy and reaction path modelling, Nucleic Acids Research, Vol. 41, No. 22, pp. 10542–10555, December 2013, doi: 10.1093/nar/gkt756 [impact factor: 8.27]

Dániel Bánky, Gábor Iván, Vince Grolmusz: Equal Opportunity for Low-Degree Network Nodes: A PageRank-Based Method for Protein Target Identification in Metabolic Graphs, PLoS ONE 8(1): e54204. doi:10.1371/journal.pone.0054204, published 29 Jan 2013 [impact factor: 4.01]

Lilla Tóthmérész, Vince Grolmusz: Characterizing the Functional Similarity of Enzymes with high Co-Citation in Interaction Networks, Protein and Peptide Letters, Vol. 20, 2013, pp.  1181-1187 [impact factor:1.9]

Kata Horváti, Bernadett Bacsa, Nóra Szabó, Sándor Dávid, Gábor Mező, Vince Grolmusz, Beáta Vértessy, Ferenc Hudecz, and Szilvia Bősze: Enhanced Cellular Uptake of a New, in Silico Identified Antitubercular Candidate by Peptide Conjugation, Bioconjugate Chem.,2012, 23 (5), pp 900–907 DOI: 10.1021/bc200221t [impact factor: 5.002]

Christoph Scheich, Zoltán Szabadka, Beáta Vértessy, Vera Pütter, Vince Grolmusz, Markus Schade: Discovery of Novel MDR-Mycobacterium tuberculosis Inhibitor by New FRIGATE Computational Screen. PLoS ONE 6(12): e28428. doi:10.1371/journal.pone.0028428 (2011).
[impact factor: 4.3]

Árpád Tóth, Dániel Bánky, and Vince Grolmusz: Mathematical modeling and computer simulation of Brownian motion and hybridization of nanoparticle-bioprobe-polymer complexes in the low concentration limit,  Molecular Simulation, Vol. 38, No. 1. pp. 66-71,DOI: 10.1080/08927022.2011.602217. [impact factor: 1.2]

Árpád Tóth, Dániel Bánky, and Vince Grolmusz: 3D Brownian Motion Simulator for High-Sensitivity Nano-Biotechnological Applications,  IEEE Transactions on Nanobioscience, Vol. 10, No. 4. pp. 248-249,  doi: 10.1109/TNB.2011.2169331. p. 2 [impact factor 1.7]

Gábor Iván,  Vince Grolmusz: When the Web Meets the Cell: Using Personalized PageRank for Analyzing Protein Interaction Networks, Bioinformatics, Vol. 27, No. 3. pp. 405-407 (2011) [impact factor: 4.9]

Gábor Iván, Zoltán Szabadka, Vince Grolmusz: Cysteine and Tryptophan Anomalies Found when Scanning all the Binding Sites in the Protein Data Bank,  International Journal of Bioinformatics Research and Applications, Vol. 6, No. 6, 2010, pp. 594-608.

Gábor Iván, Zoltán Szabadka, Vince Grolmusz: A Hybrid Clustering of Protein Binding Sites  FEBS Journal Vol. 277, No. 6. pp. 1494-1502  (2010). DOI: 10.1111/j.1742-4658.2010.07578.x [impact factor: 3.0]

Gábor Iván, Zoltán Szabadka, Vince Grolmusz: On the asymmetry of the residue compositions of the binding sites on protein surfaces;  Journal of Bioinformatics and Computational Biology, Vol. 7. No. 6. (2009) pp. 931-938.

Rafael Ördög, Zoltán Szabadka, Vince Grolmusz: DECOMP: A PDB decomposition tool on the web, Bioinformation Vol. 3 No. 10. pp. 413-414 (2009)

Dániel Bánky, Rafael Ördög, Vince Grolmusz: NASCENT: An automatic protein interaction network generation tool for non-model organisms. Bioinformation Vol. 3 No. 8. pp. 361-363 (2009)

Gábor Iván, Zoltán Szabadka, Rafael Ördög, Vince Grolmusz, Gábor Náray-Szabó: Four Spatial Points That Define Enzyme Families, Biochemical and Biophysical Research Communications, Vol. 383, No. 4, pp. 417-420, (2009)  doi:10.1016/j.bbrc.2009.04.022 [impact factor: 2.5]

K. Hill, C.B. Pénzes, B.G. Vértessy, Z. Szabadka, V. Grolmusz, É. Kiss: Amphiphilic Nature of New Antitubercular Drug Candidates and Their Interaction with Lipid Monolayer, Progr Colloid Polym Sci (2008) 135: 87–92, DOI 10.1007/2882_2008_117

Grolmusz, V.: Modular Representations of Polynomials: Hyperdense Coding and Fast Matrix Multiplication.  IEEE Transactions on Information Theory, Volume 54, Issue 8, Aug. 2008 pp.:3687 – 3692; Digital Object Identifier   10.1109/TIT.2008.926346 [impact factor: 2.4]

Szabadka, Z., Ördög, R., Grolmusz, V.: : The Ramachandran Map of More Than 6,500 Perfect Polypeptide Chains,
Biophysical Reviews and Letters, Vol 2, No. 3/4 (2007), pp. 267-271, DOI:10.1142/S1793048007000519

Ordog, R., Szabadka, Z., Grolmusz, V.: Analyzing the Simplicial Decomposition of Spatial Protein Structures;  BMC Bioinformatics,  2008, 9 (Suppl 1):S11(doi:10.1186/1471-2105-9-S1-S11), http://www.biomedcentral.com/1471-2105/9/S1/S11 [impact factor: 3.4]

Szabadka, Z., Iván, G., Grolmusz, V.: Being a Binding-Site: Characterizing Residue-Composition of Binding Sites on Proteins,  Bioinformation 2(5), 216-221 (2007), http://www.bioinformation.net/002/004800022007.htm

Szabadka, Z., Grolmusz, V.: High Throughput Processing of the Structural Information of the Protein Data Bank,  Journal of Molecular Graphics and Modeling 25 (2007) pp. 831-836. [impact factor:2.2]

Grolmusz, V.: Pairs of Codes with Prescribed Hamming Distances and Coincidences,  Designs, Codes and Cryptography,  Vol 41 (2006) , No. 1., pp. 87-99.

Conference Proceedings:

Gábor Iván, Vince Grolmusz: Designing universal oligonucleotides for DNA/nanoparticle conjugates, Proc. Nanotech 2010 (Nanotechnology 2010: Electronics, Devices, Fabrication, MEMS, Fluidics and Computational), June 21-24, 2010, Anaheim, California; NSTI 2010, pages 573-576.

Rafael Ördög, Vince Grolmusz: On the bond graphs in the Delaunay-tetrahedra of the simplicial decomposition of spatial protein structures; Proceedings of the International Workshop on Practical Applications of Computational Biology & Bioinformatics (IWPACBB’09) LNCS 5518, University of Salamanca, June 10-12, 2009.

Rafael Ördög, Vince Grolmusz: Evaluating Genetic Algorithms in Protein-Ligand Docking, Proc. Bioinformatics Research and Applications, Atlanta, GA, 2008, LNCS Vol. 4983/2008, pp. 402-413, DOI: 10.1007/978-3-540-79450-9

Szabadka, Z., Grolmusz, V.: Building a Structured PDB: The RS-PDB Database. Proceedings of the 28th IEEE EMBS Annual International Conference, New York City, Aug. 30-Sept 3, 2006., pp. 5755-5758.

Technical Reports:

Balázs Szalkai, Bálint Varga, Vince Grolmusz: Graph Theoretical Analysis Reveals: Women’s Brains are Better Connected than Men’s, arXiv preprint arXiv:1501.00727,  January 4, 2015

Balázs Szalkai, Csaba Kerepesi, Vince Grolmusz: The Budapest Reference Connectome Server v2.0, arXiv preprint arXiv:1412.3151, December 9, 2014

Csaba Kerepesi, Vince Grolmusz: Giant viruses of the Kutch desert; arXiv preprint, arXiv 1410:1278, October 7, 2014.

Ivan, G., Bánky, D., Grolmusz, V.:Fast and Exact Sequence Alignment with the Smith-Waterman Algorithm: The SwissAlign Webserver, arXiv:1309.1895 September 7, 2013

Ivan, G., Grolmusz, V.: Dimension reduction of clustering results in bioinformatics, arXiv:1309.1892, September 7, 2013

18, Grolmusz, V.:  A Note on the PageRank of Undirected Graphs, arXiv 1205.1960, May 10, 2012