CS9258 BIO INFORMATICS

CS9258 BIO INFORMATICS

UNIT I INTRODUCTORY CONCEPTS

The Central Dogma – The Killer Application – Parallel Universes – Watson’s Definition – Top
Down Versus Bottom up – Information Flow – Convergence – Databases – Data Management
– Data Life Cycle – Database Technology – Interfaces – Implementation – Networks –
Geographical Scope – Communication Models – Transmissions Technology – Protocols –
Bandwidth – Topology – Hardware – Contents – Security – Ownership – Implementation –
Management.

UNIT II SEARCH ENGINES AND DATA VISUALIZATION

The search process – Search Engine Technology – Searching and Information Theory –
Computational methods – Search Engines and Knowledge Management – Data Visualization –
sequence visualization – structure visualization – user Interface – Animation Versus simulation
– General Purpose Technologies.

UNIT III STATISTICS AND DATA MINING

Statistical concepts – Microarrays – Imperfect Data – Randomness – Variability – Approximation
– Interface Noise – Assumptions – Sampling and Distributions – Hypothesis Testing –
Quantifying Randomness – Data Analysis – Tool selection statistics of Alignment – Clustering
and Classification – Data Mining – Methods – Selection and Sampling – Preprocessing and
Cleaning – Transformation and Reduction – Data Mining Methods – Evaluation – Visualization –
Designing new queries – Pattern Recognition and Discovery – Machine Learning – Text Mining
– Tools.

UNIT IV PATTERN MATCHING

Pairwise sequence alignment – Local versus global alignment – Multiple sequence alignment –
Computational methods – Dot Matrix analysis – Substitution matrices – Dynamic Programming
– Word methods – Bayesian methods – Multiple sequence alignment – Dynamic Programming
– Progressive strategies – Iterative strategies – Tools – Nucleotide Pattern Matching –
Polypeptide pattern matching – Utilities – Sequence Databases.

UNIT V MODELING AND SIMULATION

Drug Discovery – components – process – Perspectives – Numeric considerations – Algorithms
– Hardware – Issues – Protein structure – AbInitio Methods – Heuristic methods – Systems
Biology – Tools – Collaboration and Communications – standards - Issues – Security –
Intellectual property.

REFERENCES

1. Bryan Bergeron, “Bio Informatics Computing”, Second Edition, Pearson Education,
2003.
2. T.K.Attwood and D.J. Perry Smith, “Introduction to Bio Informatics, Longman Essen,
1999.