Please enable JavaScript.
Coggle requires JavaScript to display documents.
20BT3015-Computational Biology - Coggle Diagram
20BT3015-Computational Biology
Biomolecular Computing
Application of RNA fold.
Design of covariance models,
Energy
minimisation and the Zuker folding algorithm
Base pair maximisation and the Nussinov folding algorithm
RNA
secondary structure prediction
Beginnings of Molecular ComputingAdelman Experiment
Bio-soft
Computing Based on DNA Length
Computational operations and Step involve in DNA computing
DNA Structure, and Processing
: MolecularMechanics
Two atoms connected by a bond, Poly atomic Molecules
Energy due to Stretch
Comparison of Morse
and Harmonic Potential
Bend, Stretch-Bend, Torsional strain
The Harmonic Oscillator Model for Molecules,
van der Waals and Dipole-Diploe interactions.
Introduction, The Morse Potential
Types of Potentials:
Lennard-Jones, Truncated Lennard-jones
Types of Force Fields: AMBER, CHARMM
Merck Molecular
Force Field
Consistent Force Field, MM2, MM3 and MM4 force fields.
Molecular Dynamics Simulation
IntegratorsLeapfrog and Verlet algorithm
Potential truncation and shifted-force potentials
Newtonian dynamics
Implicit and explicit
Solvation models
Newtonian dynamics
Periodic boundary conditions,
Pair Correlation function
Temperature and pressure control in molecular
dynamics simulations.
Introduction, Radial distribution functions
Next generation sequencing
Pacific Biosciences/single molecule real time (SMRT)
sequencing
Biological applications of NGS
Applied
Biosystems SOLiD system, HelicosHeliscope
Illumina/Solexa Genome Analyzer
Whole-genome sequencing
NGS Platforms: Introduction to NGS, Roche/454 FLX,
Transcriptome sequencing
, Epigenome sequencing
Exome sequencing
Interactome sequencing
methylome sequencing
Data Mining and Data warehousing
Need for data warehouse
definition, goals of data warehouse
Data Mart, Data warehouse architecture
extract and load process, clean and transform data
Designing fact tables, partitioning, Data warehouse
and OLAP technology
Importance of Data Mining
Relational Databases
Data Warehouses
Transactional Databases
Advance Database Systems and Applications
Data Mining Functionalities
Classification of Data Mining Systems, Major issues in Data Mining.
Systems Biology and protein network analysis
Degree, average degree and degree distribution
Adjacency matrix
Basic
properties of Network
weighted and
unweighted networks
Biological uses and Integration
Bipartite network, Paths and distances
Systems Biology Networks- basics of computer networks
Metabolic reconstruction, Application.