Proteomics: Sequence, Structure, Function

During my doctorate studies, I performed the bioinformatics share of a large scale project on the identification of the repertoire of protein complexes in the yeast /Saccharomyces cerevisiae./ My research as a computational biologists is focused on protein complexes to obtain new insights and hypotheses of properties of the functional units of the cell.

I am interested in the protein networks including protein-protein interaction, protein domain, and gene expression to predict protein function.

My research background is molecular biology, specifically study of transposable elements. The fact that a large portion of many genomes is transposable elements draw my interest into the field of genomics. After I realized that the genome is a dynamic entity rather than a static one, I started putting my major effort to figure out dynamic organization of a genome, such as protein interactome. My current research focuses on analysis and integration of various functional genomics data to reconstruct a functional interactome of yeast and other organisms.

My background is primarily in computer science, statistics and statistical genetics.  In the past two years, I mainly worked on computational methods for haplotype inference and haplotype based gene mapping methods.  I'm participating in this program at IPAM since I'm also interested in computational problems in Proteomics, such as peptide sequencing, structure prediction etc.

My background is molecular biology, computational biology and bioinformatics. My research interest is on mass spectrometry and proteomics. More specific, I am interested in: de novo peptide sequencing and de novo protein sequencing using mass spectrometry; identification of post-translational modifications using mass spectrometry; improvements of existing database search engines for mass spectrometry; disease diagnosis using mass spectrometry data.

My background is Biochemistry and currently I am working on Proteomics dealing with protein protein interactions, protein domains and motifs.

My background is Pharmacy and Biochemistry (Msc), I am currently using pharmacological and proteomics tools to elucidate the pharmacological and biochemical properties of a plant reported to be effective against snake venoms and at the same time I am also studying certain venom proteins to understand bullet-target relationship.

My current research is a search for factors leading to neurodegeneration in MPSIIIB mouse model. (Dr.E.F. Neufeld lab, Dep.of Biol. Chem.) My background is biochemistry, pharmacology, cellular-molecular biology and brain histology. Sanfilippo syndrome type B (Mucopolysaccharidosis IIIB, MPSIIIB) is characterized by severe mental retardation, behavior problems and eventual dementia. The disease is caused by mutations in NAGLU, the gene encoding the lysosomal enzyme alpha-N-acetylglucosaminidase, and the resulting accumulation of heparan sulfate. Though the enzyme is lacking in all cells of patients, the central nervous system is particularly affected.

My interests range from protein structure prediction and folding to genomic-based methods for inferring gene and protein function. My primary involvement in approaching these problems has been in the formulation and testing of probabilistic models (particularly Bayesian).

My background is statistics and mathematics. My research includes: 1. Clustering and classification in machine learning 2. Statistical issues in microarray analysis 3. Bayesian methods 4. Functional regulatory networks via expression profile and genomic database.

Mass spectrometry database searching problem. Design a scoring function for peptide sequencing and protein sequencing.

Research focus: Pathways leading to neurodegeneration with focus on mutant proteins tau and superoxide dismutase linked to inherited forms of frontotemporal dementia (FTD) and amyotrophic lateral sclerosis (ALS) respectively. Protein-protein interactions and complex formation are of special interest. Clinical interest: ALS