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Introduction to NCBI
Senior Research Fellow
Unit of Simulation and Informatics
Indian Agricultural Research Institute
National Centre for Biotechnology Information
as the government's response to the
need for more and better information processing
methods to deal with vast amount of data.
Developed by National Library of Medicine (NLM)
at the National Institutes of Health (NIH)
A comprehensive website for biologists including:
tools for viewing and analyzing
automated systems for storing and retrieval
NCBI along with EBI and CIB together
form International Sequence Database
Collaboration which act as the chief
working unit and Information Centre. NCBI
has 3 collaborative databases:
European Molecular Biology Laboratory
DNA Database of Japan (DDBJ)
International Sequence Database Collaboration
NCBI - Home Page
A Science Primer" yields access to general
Databases and Tools" from the yields a
definitions and introductory information
regarding the branches of science
included in bioinformatics.
Many bioinformatics terms are defined in
this section in a clear-cut and basic
manner, making this Primer an excellent
complete and well-ordered listing of
Entrez : A retrieval system
Capable of accessing integrated
information by searching many of the
NCBI databases with just one query
NOTE: instead of searching only one
database per query, then repeating
the same query to find information on
the same topic from another NCBI
Basic Local Alignment Search Tool
A predominant sequence alignment tool
for performing rapid searches of
nucleotide and protein sequence
Detecting local, as well as
global, sequence alignments between
the query and database sequences.
Exercise 1: To search nucleotide sequence
data of Oryza sativa and download the data
into a separate text file in
(i) GenBank format
(ii) FASTA format.
Step 3: Go to home page of Entrez -> click on the 2nd link
Click to download the PDB file and view the structure using Cn3D software.
To view the PubMed i.e. to open the research articles and abstracts.
To view the protein files associated with Starch Branching Enzyme I (Bei) from Oryza Sativa L.
To view the conserved domain associated with the link.
To view the chemical structure of the protein along with the molecular weight and chemical formula for t