2. Introduction.
History of Genome Sequencing.
Rationale behind genome sequencing.
How genomes are sequenced.
What happens next.
◦ Assembly and Annotation.
◦ Sequence Submissions.
Microbial Genome Sequencing.
Human Genome Project.
◦ Encode Project.
◦ 1000 genomes project.
3. Write a paragraph (less than 1000 characters)
on “why you think more genomes need to be
sequenced OR not sequenced”.
tsucheta@iicb.res.in/tsucheta@gmail.com
4. Literature search databases.
NA and protein databases.
Animal and plant databases
Ensembl Genome project
TIGR Database.
Biotechnological databases
Database for species identification and
classification
Structural databases
Database retrieval and deposition schemes
5. What are databases?
Components.
Types of Databases.
Applications and Limitations.
Journals Publishing databases.
6. Database management Systems
◦ Mysql
◦ Oracle
◦ Postgress
◦ Sqlserver
◦ MS Access ….
7. A DBMS in the backend.
◦ SQL scripting
◦ PL/SQLs
◦ Other scripting interfaces(C/C++/API)
A front end UI.
◦ PHP
◦ Perl/CGI
◦ VB
8. Files are not enough
Searching.
Sorting.
Combining data types.
Organizing.
Managing.
9. Sequence data in genbank.
HTML files.
Excel files.
Regular list.
Indexes.
Flat files.
10. Biological databases
◦ MetaBase ( A database of Biological databases)
◦ http://metadatabase.org/
Bibliographic databases
Chemical databases
Numerous other databases.
11. Sequence databases.
◦ Nucleotide
◦ Protein
Structure Databases.
Genome databases.
Transcriptome databases
Model organism databases.
◦ PlasmoDB, TAIR, FlyBase etc.
