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Vlad Bajic

• Name: Vladimir (Vlad) Bajic

• Role: Professor of Bioinformatics, Acting & Deputy Director
• DST/NRF Research Chair in Bioinformatics and Human Health

• Contact Details
  • Telephone: +27 21 959 2360
  • Mobile: +27 (0) 76 0388 488
  • Email: vlad@sanbi.ac.za, vlad@orioncell.org

• Research Area:
  • Data integration
  • Analysis of high-throughput and new generation sequencing data
  • Biological networks
  • Biomedical text-mining and data-mining
  • Disease genes and biomarkers discovery
  • Regulation of molecular processes in cell
  • Biochemoinformatics, toxicogenomics, chemogenomics, pharmacogenomics
  • Pharmacognosy

• Group Members:
  • Staff:
  • Dr Ekow Oppon, PhD (SANBI, UWC), Researcher
  • Mr Aleksandar Radovanovic, Grad.EE (University of Belgrade), MSc Computer Science, Senior System Developer
  • Mr Ulf Schaefer, MSc Computer Science (Oxford University), System Developer
  • Ms Beverly Pratt-Christoffels, BHons, DST/NRF Research Chair Grant Administrator
  • Postdoctoral Fellows:
  • Dr Mandeep Kaur, BSc (Human Genetics), MSc (Human Genetics), PhD (Biotechnology), Postdoctoral Fellow
  • Dr Stuart Meier, MSc (Biotechnology), PhD (Biotechnology), Postdoctoral Fellow
  • Dr Sunil Sagar, PhD (Chemistry), Postdoctoral Fellow
  • Dr Sundararajan (Sundar) Seshadri Vijayaraghava, PhD (Bioinformatics), Postdoctoral Fellow
  • Dr Adam Dawe, Postdoctoral Fellow
  • Dr Ashley Pretorius, Postdoctoral Fellow
  • PhD students:
  • Ms Monique Maqungo, MSc (Biotechnology), PhD student
  • Mr Pierre Mulamba Mutumbo, BSc (Math), MSc (Computer Science, University of Stellenbosch), PhD student
  • Mr Aleksandar Radovanovic, Grad.EE (University of Belgrade), MSc Computer Science, PhD student
  • Mr Sebastian Schmeier, MSc Bioinformatics (Freie Universitaet Berlin), PhD student
  • Mr Ulf Schaefer, MSc Computer Science (Oxford University), PhD student
  • Ms Hong Pan, MS EE, PhD student
  • Ms Vidhu Chowdhary, MA, PhD student
  • Ms Magbubah Essack, MS (Biotechnology), PhD student
  • Mr Cameron MacPherson, MSc (Bioinformatics, University of the Western Cape), PhD student
  • Mr Musa Nur Gabere, PhD student
  • Mr Timothy Kamanu, PhD student
  • MS students:
  • Ms Tracey Kibler, BSc Hons. (Biotechnology, University of the Western Cape, MS student
  • Mr Eugene Duvenhage, BSc Hons. (Electr. Engineering, University of Natal), MS student
  • Ms Alecia Naidu, BSc Hons. (University of KZ Natal), MS student
  • Shared stidents
  • Dr Gordon Harkins, Postdoctoral Fellow (supervised jointly with Dr Tulio de-Oliveira)
  • Mr Sean McLaughlin, PhD student (supervised jointly with Dr Tulio de-Oliveira)
  • Mr Kojo Kwofie Samuel, PhD student (supervised jointly with Dr Tulio de-Oliveira)
  • Ms Kavisha Ramdayal, BSc Hons. (University of KZ Natal), MS student (supervised jointly with Dr Heikki Lehvaslaiho)
  • Mr Frederick Kamanu Kinyua, BSc Hons., MS student (supervised jointly with Dr Heikki Lehvaslaiho)

• Recently graduated (supervised/co-supervised by VB Bajic):

• Cameron R MacPherson, Transcriptional Regulatory Networks in the Mouse Hippocampus, MSc, SANBI, University of the Western Cape, 2008
• Addmore Machanja, Towards a Chereme Based Dynamic South African Sign Language Gesture Recognition System, PhD, Department of Computer Science, University of the Western Cape, 2008
• Mary Lynne Hallot, Digital Watermarking Methods for Data Security and Authentication, PhD, Department of Computer Science, University of the Western Cape, 2008

Other Information

For many years I worked on various aspects of modeling, control, software engineering and application of artificial intelligence to different engineering problems, until I discovered a fascinating field of what we call today bioinformatics. This completely occupied my interests and since 1998 I have focussed exclusively on the problems in this domain. To my pleasant surprise I found that most of my previously acquired experience and knowledge can be constructively and efficiently applied to many of the key problems of bioinformatics.

Today, my main interest is how to facilitate biological discoveries by the use of sophisticated bioinformatic systems combined with methods of data modeling. This goal requires development of tools for accurate identification of biologically relevant signals and features contained in biomedical data, tools for large-scale analysis of such data, as well as integration of data across various resources. My focus is on discovery of disease biomarkers for early diagnosis, screening and risk assessment, as well as likely drug targets, based on combined gene regulation and proteomic analyzes. For this task I partly use technologies I developed for identifying co-regulated gene groups implicated in various diseases and cellular responses, but also new modeling technologies for recognition of relevant sequence signals. This crucially complements the existing expertise in South Africa. My particular interest is in applying these techniques to various cancers and other diseases.

My work on development of bioinformatic tools and databases can roughly be split into three domains: a/ transcription regulation, b/ hormone research, and c/ biomedical text-mining. Due to the character of research I do, I have a large network of collaborators that can perform experimental validation of the results of computational analyzes.

My group constitutes Laboratory for Biomarkers Discovery within SANBI and UWC. It is currently the only group in Africa with the expertise and know-how to generate regulatory networks out of high-throughput expression experiments and to pinpoint dominant transcriptional regulators likely to cause of the observed expression profiles. Such analyzes are a necessary step toward identification of various biomarkers and include integration of available and generated information from various sources. Currently, I am establishing the South African Center for Biomarkers Discovery that will provide targeted indexing of high-probability targets for screening and characterization of various diseases and risk stratification, and can contribute to prevention of various diseases. These efforts additionally tightly integrate biochemoinformatics, toxicogenomics, chemogenomics and pharmacogenomics. I hope this will help in opening new avenues for early diagnostics of diseases and fostering links with biotechnology, pharmaceutical and health industries.

In 2007 I have been honored by receiving the award of Tier 1 South African DST/NRF Research Chair in Bioinformatics and Human Health. This award has enabled SANBI to issue an open-ended invitation to prospective postdoctoral fellows, PhD, MS and Honors students for graduate research in the Bioinformatics field.

From November 2007 we have been further strengthened by Dr Alan Christoffels who joined us as Associate Professor and the Chair successor. Alan’s expertise is a welcome complement to the currently existing expertise of SANBI.

I am partner in two biotechnology companies in South Africa, BioSequences (Pty) Ltd and OrionCell.

Summary: In different fields spanning engineering, applied mathematics, computer science, artificial intelligence and bioinformatics I contributed over 360 publications, edited volumes, reviews, invention disclosures and edited software products.

Current grants for research in my group:

• Centers for Disease Control (CDC), HIV/TB diagnosis support system
• South African DST/NRF Research Chair in Bioinformatics and Human Health
• National Research Foundation (NRF), Focus Area Grant
• National Research Foundation (NRF), Niche Area Grant
• National Bioinformatics Network (NBN)
• Claude Leon Foundation

Selected recent publications (since 2002)

2008

Sagar S, Kaur M, Dawe A, Seshadri SV, Christoffels A, Schaefer U,  Radovanovic A, Bajic VB. DDESC: Dragon Database for Exploration of Sodium Channels in Human, BMC Genomics, 9:622, 2008 (IF=4.18)

Thompson CL, Pathak S, Jeromin A, Ng L, MacPherson C, Mortrud M, Cusick A, Riley Z, Sunkin SM, Bernard A, Puchalski R, Gage FH, Jones AR, Bajic VB, Hawrylycz MJ, Lein ES. Genomic Anatomy of the Hippocampus, Neuron, 60(6):1010-1021, 2008 (IF=13.4)

Meier S, Gehring C, MacPherson CR, Kaur M, Maqungo M, Reuben S, Muyanga S, Shih MD, Wei FJ, Wanchana S, Mauleon R, Radovanovic A, Bruskiewich R, Tanaka T, Mohanty B, Itoh T, Wing R, Gojobori T, Sasaki T, Swarup S, Hsing YI, Bajic VB, The promoter signatures in rice LEA genes can be used to build a co-expressing LEA gene network. RICE, 2008, 1(2): 177

Kaur M, Schmeier S, MacPherson CR, Hofmann O, Hide WA, Taylor S, Willcox N, Bajic VB. Prioritizing genes of potential relevance to diseases affected by sex hormones: An example of Myasthenia Gravis, BMC Genomics, 2008, 13;9(1):481. [Epub ahead of print] (IF=4.18)

Kaur M, Radovanovic A, Essack M, Schaefer U, Maqungo M, Kibler T, Schmeier S, Christoffels A, Narasimhan K, Choolani M, Bajic VB, Database for exploration of functional context of genes implicated in ovarian cancer, Nucleic Acids Research, 2008 Sep 12. [Epub ahead of print] (IF=6.954)

Meier S, Bastian R, Donaldson L, Murray S, Bajic V, Gehring C, Co-expression and Promoter Content Analyses Assign a Role in Biotic and Abiotic Stress Responses to Plant Natriuretic Peptides, BMC Plant Biology, 2008 Feb 29;8:24 (IF=3.44)

Hannah MF, Bajic VB, Klein SL, Sex differences in the recognition of and innate antiviral responses to Seoul virus in Norway rats, Brain, Behavior, and Immunity, 2008 May;22(4):503-16. Epub 2007 Nov 28. (IF=3.757)

2007

Lombard Z, Tiffin N, Hoffman O, Bajic VB, Hide W, Ramsay M, Selection and prioritization of candidate disease genes for Fetal Alcohol Syndrome - A computational approach, BMC Genomics, 2007 Oct 25, 8(1):389 (IF=4.092)

Carninci P, Sandelin A, Lenhard B, Katayama S, Shimokawa K, Ponjavic J, Semple CA, Taylor MS, Engstrom G PG, Frith MC, Forrest AR, Alkema WB, Tan SL, Plessy C, Kodzius R, Ravasi T, Kasukawa T, Fukuda S, Kanamori-Katayama M, Kitazume Y, Kawaji H, Kai C, Nakamura M, Konno H, Nakano K, Mottagui-Tabar S, Arner P, Chesi A, Gustincich S, Persichetti F, Suzuki H, Grimmond SM, Wells CA, Orlando V, Wahlestedt C, Liu ET, Harbers M, Kawai J, Bajic VB, Hume DA, Hayashizaki Y. Corrigendum: Genome-wide analysis of mammalian promoter architecture and evolution. Nature Genetics 2007 Sep;39(9):1174.

Cheng C, Yun K-Y, Ressom H, Mohanty B, Bajic VB, Jia Y, Yun SJ, de los Reyes BG.An early response regulatory cluster induced by low temperature and hydrogen peroxide in chillng tolerant japonica rice, BMC Genomics, 2007 Jun 18;8(1):175 [Epub ahead of print] (IF=4.092)

Tegnér J, Nilsson R, Bajic VB, Björkegren J, Ravasi T, Systems biology of innate immunity, Cellular Immunology, 2006 Dec;244(2):105-9. Epub 2007 Apr 11 (IF=1.558)

Chong A, Zhang Z, Choi KP, Choudhary V, Djamgoz MBA, Zhang G, Bajic VB, Promoter profiling and coexpression data analysis identifies 24 novel genes that are coregulated with AMPA receptor genes, GRIAs. Genomics, 2007 Mar;89(3):378-84. Epub 2007 Jan 5 (IF=3.181)

Tang S, Zhang Z, Tan SL, Tang M-H, Kumar AP, Ramadoss SK, Bajic VB, KBERG: KnowledgeBase for Estrogen Responsive Genes, Nucleic Acids Research, 2007 Jan;35(Database issue):D732-6. Epub 2006 Nov 7 (IF=7.552)

2006

Brahmachary M, Schönbach C, Yang L, Huang E, Tan SL, Chowdhary R, Krishnan SPT, Lin CY, Hume DA, Kai C, Kawai J, Carninci P, Hayashizaki Y, Bajic VB, Computational Promoter Analysis of Mouse, Rat and Human Antimicrobial Peptide-coding Genes, BMC Bioinformatics, 2006 Dec 18;7 Suppl 5:S8 (IF=4.96)

Bajic VB, Brent MR, Brown RH, Frankish A, Harrow J, Ohler U, Solovyev VV, Tan SL, Performance Assessment of Promoter Predictions on ENCODE Regions in the EGASP Experiment, Genome Biology, 2006, 7(Suppl 1):S3 doi:10.1186/gb-2006-7-s1-s3 (IF=9.71)

Guigó R, Flicek P, Abril JF, Reymond A, Lagarde J, Denoeud F, Antonarakis S, Ashburner M, Bajic VB, Birney E, Castelo R, Eyras E, Gingeras TR, Harrow J, Hubbard T, Lewis S, Ucla C, Reese MG, EGASP: The human ENCODE Genome Annotation Assessment Project, Genome Biology, 2006, 7(Suppl 1):S2 doi:10.1186/gb-2006-7-s1-s2 (IF=9.71)

Chowdhary R, Tan SL, Ali RA, Boerlage B, Wong L, Bajic VB, Dragon Promoter Mapper (DPM): a Bayesian framework for modeling promoter structures. Bioinformatics. 22(18): 2310-2312, 2006 (IF = 6.019)

Carninci P, Sandelin A, Lenhard B, Katayama S, Shimokawa K, Ponjavic J, Semple CA, Taylor MS, Engstrom PG, Frith MC, Forrest AR, Alkema WB, Tan SL, Plessy C, Kodzius R, Ravasi T, Kasukawa T, Fukuda S, Kanamori-Katayama M, Kitazume Y, Kawaji H, Kai C, Nakamura M, Konno H, Nakano K, Mottagui-Tabar S, Arner P, Chesi A, Gustincich S, Persichetti F, Suzuki H, Grimmond SM, Wells CA, Orlando V, Wahlestedt C, Liu ET, Harbers M, Kawai J, Bajic VB, Hume DA, Hayashizaki Y, Genome-wide analysis of mammalian promoter architecture and evolution. Nature Genetics. 38:626-635, 2006 (IF= 24.695)

(* in top 25 highly accessed articles in Genomic from August 2006 - June 2007) Nilsson R, Bajic VB, Suzuki H, di Bernardo D, Bjorkegren J, Katayama S, Reid JF, Sweet MJ, Gariboldi M, Carninci P, Hayashizaki Y, Hume DA, Tegner J, Ravasi T, Transcriptional Network Dynamics in Macrophage Activation, Genomics, 2006 Aug; 88(2):133-42 (IF= 3.840)

Bajic VB, Tan SL, Christoffels A, Schönbach C, Lipovich L, Yang L, Hofmann O, Kruger A, Hide W, Kai C, Kawai J, Hume DA, Carninci P, Hayashizaki Y, Mice and men: Their promoter properties, PLoS Genetics, 2(4): e54, DOI: 10.1371/journal.pgen.0020054, 2006

Engström PG, Suzuki H, Ninomiya N, Akalin A, Sessa L, Lavorgna G, Brozzi A, Luzi L, Tan SL, Yang L, Kunarso G, Ng EL-C, Batalov S, Kai C, Kawai J, Carninci P, Hayashizaki Y, Wells C, Bajic VB, Orlando V, Reid JF, Lenhard B, Lipovich L, Complex Loci in Human and Mouse Genomes, PLoS Genetics, 2(4): e47, DOI: 10.1371/journal.pgen.0020047, 2006

Frith MC, Wilming LG, Kawaji H, Forrest A, RIKEN-GERG members, Wahlestedt C, Bajic VB, Huminiecki LB. Pseudo-Messenger RNA: Phantoms of the Transcriptome, PLoS Genetics, 2(4): e23, DOI: 10.1371/journal.pgen.0020023, 2006

Chowdhary R, Wong L, Bajic VB, Finding Functional Promoter Motifs by Computational Methods: a Word of Caution, International Journal of Bioinformatics Research and Applications (IJBRA), 2(3):282-288, 2006.

2005

Carninci P, Kasukawa T, Katayama S, Gough J, Frith MC, Maeda N, Oyama R, Ravasi T, Lenhard B, Wells C, Kodzius R, Shimokawa K, Bajic VB, Brenner SE, Batalov S, Forrest AR, Zavolan M, Davis MJ, Wilming LG, Aidinis V, Allen JE, Ambesi-Impiombato A, Apweiler R, Aturaliya RN, Bailey TL, Bansal M, Baxter L, Beisel KW, Bersano T, Bono H, Chalk AM, Chiu KP, Choudhary V, Christoffels A, Clutterbuck DR, Crowe ML, Dalla E, Dalrymple BP, de Bono B, Della Gatta G, di Bernardo D, Down T, Engstrom P, Fagiolini M, Faulkner G, Fletcher CF, Fukushima T, Furuno M, Futaki S, Gariboldi M, Georgii-Hemming P, Gingeras TR, Gojobori T, Green RE, Gustincich S, Harbers M, Hayashi Y, Hensch TK, Hirokawa N, Hill D, Huminiecki L, Iacono M, Ikeo K, Iwama A, Ishikawa T, Jakt M, Kanapin A, Katoh M, Kawasawa Y, Kelso J, Kitamura H, Kitano H, Kollias G, Krishnan SP, Kruger A, Kummerfeld SK, Kurochkin IV, Lareau LF, Lazarevic D, Lipovich L, Liu J, Liuni S, McWilliam S, Madan Babu M, Madera M, Marchionni L, Matsuda H, Matsuzawa S, Miki H, Mignone F, Miyake S, Morris K, Mottagui-Tabar S, Mulder N, Nakano N, Nakauchi H, Ng P, Nilsson R, Nishiguchi S, Nishikawa S, Nori F, Ohara O, Okazaki Y, Orlando V, Pang KC, Pavan WJ, Pavesi G, Pesole G, Petrovsky N, Piazza S, Reed J, Reid JF, Ring BZ, Ringwald M, Rost B, Ruan Y, Salzberg SL, Sandelin A, Schneider C, Schönbach C, Sekiguchi K, Semple CA, Seno S, Sessa L, Sheng Y, Shibata Y, Shimada H, Shimada K, Silva D, Sinclair B, Sperling S, Stupka E, Sugiura K, Sultana R, Takenaka Y, Taki K, Tammoja K, Tan SL, Tang S, Taylor MS, Tegner J, Teichmann SA, Ueda HR, van Nimwegen E, Verardo R, Wei CL, Yagi K, Yamanishi H, Zabarovsky E, Zhu S, Zimmer A, Hide W, Bult C, Grimmond SM, Teasdale RD, Liu ET, Brusic V, Quackenbush J, Wahlestedt C, Mattick JS, Hume DA, Kai C, Sasaki D, Tomaru Y, Fukuda S, Kanamori-Katayama M, Suzuki M, Aoki J, Arakawa T, Iida J, Imamura K, Itoh M, Kato T, Kawaji H, Kawagashira N, Kawashima T, Kojima M, Kondo S, Konno H, Nakano K, Ninomiya N, Nishio T, Okada M, Plessy C, Shibata K, Shiraki T, Suzuki S, Tagami M, Waki K, Watahiki A, Okamura-Oho Y, Suzuki H, Kawai J, Hayashizaki Y; FANTOM Consortium; RIKEN Genome Exploration Research Group and Genome Science Group (Genome Network Project Core Group). (core authorship: Carninci P, Mattick J, Hume D, Wahlestedt C, Suzuki H, Liu ET, Ravasi T, Wells C, Lenhard B, Frith M, Gough J, Bajic VB, Bult C, Quackenbush J, Hayashizaki Y), The Transcriptional Landscape of the Mammalian Genome, Science, 309:1559-1563, 02 Sept. 2005 (IF = 31.853)

Bajic VB, Veronika M, Veladandi PS, Meka A, Heng MW, Rajaraman K, Pan H, Swarup S, DPBE: A Text-mining Tool for Integrating Associations between Genetic and Biochemical Entities with Genome Annotation and Biochemical Terms Lists, Plant Physiology, 138 (4):1914-1925, 2005 (IF = 5.881)

Chowdhary R, Ali RA, Albig W, Doenecke D, Bajic VB, Promoter modeling: The case study of mammalian histone promoters, Bioinformatics, 21(11):2623-2628, 2005 (IF = 5.742)

Tiffin N, Kelso JF, Powell AR, Pan H, Bajic VB, Hide WA, Integration of Text- and Data-Mining Using Ontologies Successfully Selects Disease Gene Candidates, Nucleic Acids Research, 33(5):1544-1552, 2005 (IF=7.26)

Mohanty B, Krishnan SP, Swarup S, Bajic VB, Detection and Preliminary Analysis of Motifs in Promoters of Anaerobically Induced Genes of Different Plant Species, Ann Bot-London, Jul 18; [Epub ahead of print], 96(4):669-81, 2005 (IF=2.262)

Yang L, Huang E, Bajic VB, Some implementation issues of heuristic methods for motif extraction from DNA sequences, Int.J.Comp.Syst.Signals, 6(2):3-12, 2005

2004

 

Tang S, Tan SL, Ramadoss SK, Kumar AP, Tang MH, Bajic VB, Computational method for discovery of estrogen responsive genes, Nucleic Acids Research, 32(21):6212-6217, 2004 (IF=6.575)

Kothandaraman N, Bajic VB, Loganath A, Koh S, Ng J, Choolani M, Razvi K, Early detection of epithelial ovarian cancer using a proteomics-based protein-profiling approach combined with a novel selection strategy, Ann. Acad. Med. Singap. 33(5):S59-S60, 2004 (IF=0.375)

Bajic VB, Tan SL, Suzuki Y, Sugano S, Promoter prediction analysis on the whole human genome, Nature Biotechnology,22(11):1467-73, 2004 (IF=17.721)

(* highly accessed) Lin CY, Strom A, Vega VB, Kong SL, Yeo AL, Thomsen JS, Chan WC, Doray B, Bangarusamy DK, Ramasamy A, Vergara LA, Tang S, Chong A, Bajic VB, Miller LD, Gustafsson JA, Liu ET, Estrogen receptor a target gene and response element discovery in breast tumor cells, Genome Biology, 5:R66 doi:10.1186/gb-2004-5-9-r66 (2004)

Chong A, Zhang G, Bajic VB, Information for the Coordinates of Exons (ICE): A Human Splice Sites Database, Genomics, 84(4): 762-766, 2004 (IF=3.488)

Brusic V, Bajic VB, Petrovsky N, Computational methods for prediction of T-cell epitopes. Methods 34(4):436-43, 2004 (IF=3.622)

Pan H, Zuo L, Choudhary V, Zhang Z, Leow SH, Chong FT, Huang Y, Ong VW, Mohanty B, Tan SL, Krishnan SP, Bajic VB. Dragon TF Association Miner: a system for exploring transcription factor associations through text-mining. Nucleic Acids Research, Jul 1;32: W230-W234, 2004 (IF=6.575)

Tang S, Han H, Bajic VB, ERGDB: Estrogen Responsive Genes Database, Nucleic Acids Research, 32: D533-D536, 2004 (IF=7.05)

Brahmachary M, Krishnan SP, Koh JL, Khan AM, Seah SH, Tan TW, Brusic V, Bajic VB, ANTIMIC: A database of antimicrobial sequences, Nucleic Acids Research, 32: D586-D589, 2004 (IF=7.05)

Bajic VB, Choudhary V, Hock CK, Content analysis of the core promoter region of human genes, In Silico Biology, 4:109-125, 2004

2003

Bajic VB, Brusic V, Computational detection of vertebrate polymerase II promoters, Methods in Enzymology, 370: 237-50, 2003 (IF=1.692)

Kun Y, How LC, Hoon TP, Bajic VB, Lam TS, Aggarwal A, Sze HG, Bok WS, Yin WC, Tan P, Classifying the Estrogen Receptor Status of Breast Cancers by Expression Profiles Reveals a Poor Prognosis Subpopulation Exhibiting High Expression of the ERBB2 Receptor, Human Molecular Genetics, 12(24): 3245-3258, 2003 (IF=8.726)

Bajic VB, Seah SH, Dragon Gene Start Finder: An Advanced System for Finding Approximate Locations of the Start of Gene Transcriptional Units, Genome Research, 13:1923-1929, 2003 (IF=9.863)

Chong A, Zhang G, Bajic VB, FIE2: A program for the extraction of genomic DNA sequences around the start and translation initiation site of human genes, Nucleic Acids Research, 31(13): 3546-3553, 2003 (IF=7.05)

Bajic VB, Seah SH, Dragon Gene Start Finder identifies approximate locations of the 5′ ends of genes, Nucleic Acids Research, 31(13):3560-3563, 2003 (IF=7.05)

Bajic VB, Tan SL, Chong A, Tang S, Ström A, Gustafsson J-Å, Lin C-Y, Liu E, Dragon ERE Finder ver.2: A Tool for Accurate Detection and Analysis of Estrogen Response Elements in Vertebrate Genomes, Nucleic Acids Research, 31(13):3605-3607, 2003 (IF=7.05)

Narasimhan K, Basheer C, Bajic VB, Swarup S, Enhancement of plant-microbe interactions using a rhizosphere metabolomics-driven approach and its application in the removal of polychlorinated biphenyls, Plant Physiology, 2003 May;132(1):146-53 (IF=5.8)

Bezuidenhout CN, O’Leary GJ, Singels A, Bajic VB, A process-based model to simulate changes in tiller density and light interception of sugarcane crops, Agricultural Systems, 76(2):589-599, 2003 (IF=0.824)

Bajic VB, Seah SH, Chong A, Krishnan SPT, Koh JLY, Brusic V, Computer model for recognition of functional transcription start sites in polymerase II promoters of vertebrates, Journal of Molecular Graphics & Modeling, 21(5):323-332, 2003 (IF=2.293)

2002

Bajic VB, Tang S, Han H, Brusic V, Hatzigeorgiou AG, Artificial neural networks based systems for recognition of genomic signals and regions: A review, Informatica: An International Journal of Computing and Informatics, 26:389-400, 2002.

Human S, Bajic VB, Contribution to skin cancer prevention in South Africa: Modeling the UV index utilizing imprecise data, Austrian J. Statistics, 31(2&3):169-175, 2002

Bajic VB, Chong A, Seah SH, Brusic V, Intelligent System for Vertebrate Promoter Recognition, IEEE Intelligent Systems Magazine, July/August, 17(4):64-70, 2002 (IF=1.905)

Chong A, Zhang G, Bajic VB, Information and sequence extraction around the 5’-end and translation initiation site of human genes, In Silico Biology, 2(4):461-465, 2002

Brusic V, Petrovsky N, Zhang G, Bajic VB, Prediction of promiscuous peptides that bind HLA class I molecules, Immunology and Cell Biology, Jun; 80(3):280-285, June 2002 (IF=2.494)

Sha D, Bajic VB, On-line Hybrid Learning Algorithm for MLP in Identification Problems, Computers & Electrical Engineering, An International Journal (Elsevier), 28(6):587-598, 2002

Sha DH, Bajic VB, Yang HY, New model and sliding mode control of hydraulic elevator velocity tracking system, Simulation Modeling Practice & Theory (Elsevier), 9(6-8):365-385, May 15 2002 (IF=0.182)

Bajic VB, Seah SH, Chong A, Zhang G, Koh JLY, Brusic V, Dragon Promoter Finder: recognition of vertebrate RNA polymerase II promoters, Bioinformatics, 18(1):198-199, 2002 (IF=4.615)

Petrovsky N, Tam SK, Brusic V, Bajic VB, Use of artificial neural networks in improving renal transplantation outcomes, Graft, 4:6-13, 2002