Binod Kumar – författare

Doctoral Thesis / Dissertation from the year 2010 in the subject Computer Science - Miscellaneous, Saurashtra University (Computer Science Dept.), course: PhD, language: English, abstract: This research work aims to analyze experimental data about biochemical properties and their corresponding kinetics. In this research the attempt has been made to analyze protein and DNA structure using tools such as DAMBE and Jemboss. Some Molecular Visualization or Analysis tools are already developed that reads, analyses, and crosscorrelates experimental information which is useful for chemist, Organist Chemist, Biochemist and Druggist. In this research using ACD/ChemSketch compounds are stored in databases and SMILE code (Simplified Molecular Input Line Specification) is generated. A SMILE defines the molecules in the form of alphanumeric chains. In this research work chemical shift of every carbon atom of the molecule have been displayed by using NMR Prediction. Under this research CML codes of molecules have been developed and that codes have been used for molecular information like symmetry, and atom and bond attributes. Here multiple observations of the same molecule like conformational analysis and NMR prediction have been performed. Using Pubchem/NCBI additional miscellaneous information such as bioactivity analysis by structure & activity similarity and revised compound selection after addition of similar compounds have been analyzed. Under the research work geometric optimization of molecules, chemical structure visualization and calculation of electronic absorption spectra of chemical structure have been performed using ArgusLab tool. In this research Single Entry Point Calculation, Molecular Orbital calculation on grids for plotting HOMO and LUMO and ESP Mapped Density calculations have been also performed. Under the research work of different types of analysis like prediction of protein secondary structure, isoelectric point calculation etc. have been performed on nucleotide and protein sequence using DAMBE and Jemboss tools. The objective of this research work is to assist the organic and biochemist in each step of the synthesis planning process for prediction of molecular structure. This research work provides a series of methods and tools for chemical or biochemical applications. Built-in catalogs of fine chemicals or biochemical provide suitable starting materials for a synthesis or molecular structure prediction target. Using similarity searches or substructure searches the connection between the target compound and available starting materials has been achieved.

Master's Thesis from the year 2006 in the subject Computer Science - Bioinformatics, , language: English, abstract: Data mining, the extraction of hidden predictive information from large databases, is a powerful new technology with great potential to help companies focus on the most important information in their data warehouses. Data mining tools predict future trends and behaviors allowing businesses to make proactive, knowledge-driven decisions. Data mining tools can answer business questions that traditionally were too time-consuming to resolve. They scour databases for hidden patterns, finding predictive information that experts may miss because it lies outside their expectation. Automated pattern matching- the ability of a program to compare known patterns and determine the degree of similarity forms the basis for automated sequence analysis, modeling of protein structures, locating homologous genes, data mining, Internet search engines etc. in bioinformatics. Data mining relies on algorithm pattern matching to locate patterns in online and local databases, using a variety of technologies, from simple keyword matching to rule based expert system and artificial neural networks. In this dissertation, the basic problems related to pattern reorganization and pattern matching for nucleotide and protein sequence alignment are discussed. The main techniques used to solve these problems and a comprehensive survey of most influential algorithms that were proposed during the last decay is described.

This book serves as a hands-on guide to foundational laboratory techniques in veterinary parasitology and molecular biology, specifically tailored for students, interns, and early-career researchers entering lab-based veterinary diagnostics. Divided into three focused chapters, the book begins with essential laboratory practices, including correct lab conduct, familiarization with basic lab equipment, and the preparation of core reagents and solutions necessary for routine experiments.The second chapter introduces key techniques in veterinary parasitology, such as proper sample collection and preservation, blood and fecal parasite detection, and the basics of serum biochemistry and immunodiagnostic assays. The third chapter provides a sequential understanding of molecular biology procedures relevant to parasitology researchranging from DNA extraction and primer design to PCR amplification and sequence analysis.In addition to theoretical instruction, the manual includes a practical appendix for equipment care, troubleshooting, and routine maintenanceensuring efficiency and accuracy in day-to-day laboratory operations. This concise and structured resource supports skill development and diagnostic competence in modern parasitological and molecular veterinary laboratories.