Browsing by Advisor "Pal, Debnath"
Now showing items 1-15 of 15
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Accelerated and Accurate Alignment of Short Reads in High Throughput Next Generation Sequencing [NGS] Platforms
The genome of an organism encompasses the unique set of genetic instructions for every individual in a species. The genome, in totality, guides the course of evolution, development, genetic and epigenetic growth factors ... -
Algorithmic Approaches For Protein-Protein Docking And quarternary Structure Inference
(2011-02-14)Molecular interaction among proteins drives the cellular processes through the formation of complexes that perform the requisite biochemical function. While some of the complexes are obligate (i.e., they fold together while ... -
Analysis of Molecular Dynamics Trajectories of Proteins Performed using Different Forcefields and Identifiction of Mobile Segments
(2018-04-03)The selection of the forcefield is a crucial issue in any MD related work and there is no clear indication as to which of the many available forcefields is the best for protein analysis. Many recent literature surveys ... -
Assessing protein contribution to phenotypic change using short, coarse grained molecular dynamics simulations
Understanding the functional mapping between genotype and phenotype is an important problem that has ramifications for various diseases. Various existing computational methods can infer these disease-related functional ... -
Coarse-grained dynamics derived structural ensemble for prediction of metal binding sites of protein and phenotypic effects of variants
Structures of proteins play a key role in determining their functions. Knowledge of structure, especially the details of specific sites of a protein can help us understand their contribution to the overall activity. ... -
Deterministic Two Stage Clonal Expansion Model of Breast Cancer Epidemiology and its Utility for Optimal Screening Policies in India
Breast cancer (BC) has emerged as public health issue in India in last two decades sur-passing cervix cancer. Mortality from breast cancer is 30-40% higher than maternal causes. Breast cancer 5 year survival rates are ... -
Development Of NMR Methods For Metabolomics And Protein Resonance Assignments
(2017-05-25)Nuclear Magnetic Resonance (NMR) spectroscopy is a quantitative, non-invasive and non-destructive technique useful in biological studies. By manipulating the magnetization of nuclei with non-zero spin, NMR gives insights ... -
A divide-and-conquer distance geometry method to model protein structures from NMR spectroscopy
Nuclear Magnetic Resonance (NMR) spectroscopy provides insights into the dynamic behavior of proteins in solution, eliminating the need for crystallization. NMR experiments can spatially probe nuclei within 6 Angstroms of ... -
Effect of Single Residue Change on Conformational Dynamics of Proteins and Their Function: A Molecular Dynamics Study
Proteins undergo conformational transitions and exhibit specific motion while performing their function. A single residue change (addition, deletion, or substitution) can sometimes influence the protein dynamics and disrupt ... -
Epistasis Detection and Phenotype Prediction in GWAS Using Machine Learning Methods
Genome-wide association studies (GWAS) are used to find the association between genetic variants, Single Nucleotide Polymorphisms (SNPs), and phenotypic traits or diseases in a population. The number of GWAS has increased ... -
INTERPIN: identifying INtrinsic transcription TERminators, hairPINs in bacteria
The conversion of DNA to RNA through transcription is an important step in the life cycle of every organism. It ensures that the genetic information in DNA is converted through RNA into instructions/blueprints for the ... -
Modeling physiological transport at scales: connecting cells to organs
The physiological system is a complex network in which each organ forms a subsystem, and the functional networks in different subsystems communicate to maintain the body’s overall homeostasis. The ability to simultaneously ... -
Ranking And Classification of Chemical Structures for Drug Discovery : Development of Fragment Descriptors And Interpolation Scheme
(2017-12-01)Deciphering the activity of chemical molecules against a pathogenic organism is an essential task in drug discovery process. Virtual screening, in which few plausible molecules are selected from a large set for further ... -
Study of Proteome and Transcriptome of Escherichia Coli Bacteria to Probe its Regulatory Aspects
(2018-08-09)The information flow through the regulatory networks in biological systems has been a rapidly growing field of research. Translation, being a very important regulatory check point, presents itself as a legitimate process ... -
Variance of Difference as Distance Like Measure in Time Series Microarray Data Clustering
(2018-01-09)Our intention is to find similarity among the time series expressions of the genes in microarray experiments. It is hypothesized that at a given time point the concentration of one gene’s mRNA is directly affected by the ...