Biological and clinical datamining

Webservers:

AmphoraVizu webserver for the quantitative visual analysis of metagenomes

Multiple-choice protein search webserver

The SCARF datamining webserver

DECOMP: A PDB structure decomposition tool

ProtDict: Protein cross-reference tool

 

Publications:

 

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

Csaba Kerepesi, Dániel Bánky, Vince Grolmusz: AmphoraNet: The Webserver Implementation of the AMPHORA2 Metagenomic Workflow Suite, Gene, 2014, Vol. 533 No. 2. pp. 538-540; http://dx.doi.org/10.1016/j.gene.2013.10.015

Csaba Kerepesi, Vince Grolmusz: Giant viruses of the Kutch desert; Archives of Virology,  Vol. 161 (2016), No.3 pp.721-724,      Preprint version: arXiv 1410:1278, October 2014.

Gábor Iván, Vince Grolmusz: Dimension reduction of clustering results in bioinformatics; Biochimica et Biophysica Acta (BBA)- Proteins and Proteomics; 1844 (2014), pp. 2277-2283; DOI: 10.1016/j.bbapap.20

Dániel Bánky, Balázs Szalkai, Vince Grolmusz: An Intuitive Graphical Webserver for Multiple-Choice Protein Sequence Search; arXiv preprint arXiv:1312.4660; also in Gene, Vol. 539, No. 1, pp. 152-153, April 2014,

Balázs Szalkai, Vince K Grolmusz, Vince I Grolmusz, CAM Diseases: Identifying Combinatorial Biomarkers by Association Rule Mining in the CAMD Alzheimer’s Database; arXiv preprint arXiv:1312.1876 (2013)

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).

Gábor Iván, Zoltán Szabadka, Vince Grolmusz: Cysteine and Tryptophan Anomalies Found when Scanning all the Binding Sites in the Protein Data Bank,  (available also as a preliminary version). 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 (also as a preliminary version).  FEBS Journal Vol. 277, No. 6. pp. 1494-1502  (2010).

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)

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. Also available as a personal preprint version.

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; also available as a personal preprint version.

Rafael Ordog, Zoltán Szabadka, Vince Grolmusz: Analyzing the Simplicial Decomposition of Spatial Protein Structures; 6th International Conference on Bioinformatics (InCoB 2007), Hong Kong University of Science and Technology, Hong Kong, 27th-30th August, 2007; Journal version: BMC Bioinformatics,  2008, 9(Suppl 1):S11(doi:10.1186/1471-2105-9-S1-S11), http://www.biomedcentral.com/1471-2105/9/S1/S11

Zoltán Szabadka, Gábor Iván, Vince Grolmusz: Being a Binding-Site: Characterizing Residue-Composition of Binding Sites on Proteins, 6th International Conference on Bioinformatics (InCoB 2007), Hong Kong University of Science and Technology, Hong Kong, 27th-30th August, 2007. Journal version: Bioinformation 2(5), 216-221 (2007), http://www.bioinformation.net/002/004800022007.htm

Zoltán Szabadka, Vince Grolmusz: 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.

Zoltán Szabadka, Vince Grolmusz: High Throughput Processing of the Structural Information of the Protein Data Bank , DIMACS Workshop on Information Processing by Protein Structures in Molecular Recognition, June 13 – 14, 2005, DIMACS Center,  Rutgers University. Preprint version. Journal version  Journal of Molecular Graphics and Modeling.25 (2007) pp. 831-836 http://dx.doi.org/10.1016/j.jmgm.2006.08.004