Python

Miss. Rupali Salunkhe
Presented by
Walchand Center For Biotechnology, Solapur

Contents
 History
 What is Python?
 Features
 Advantages
 Who Uses Python?
 Applications
 What is Biopython ?
 Program Introduction to Biopython
 What can Biopython do?
 References

History
 Created by Guido van Rossum in 1991
 Guido Van Rossum is fan of ‘Monty Python’s Flying
Circus’, this is a famous TV show in Netherlands
 Named after Monty Python.

What is Python?
Python is a general purpose, dynamic, high level and
interpreted programming language.
It is object oriented as well as scripting language.
It is relatively simple and easy to learn.

Features
 Object-Oriented Language
 Interpreted Language
 Interactive Programming Language
 Easy language
 Easy to read
 Portable
 Extendable
 Scalable

Advantages
 Dynamic Type Checking makes it inherently generic
 Open Source
 Powerful language constructs
 Powerful library
 Mixable with other languages
 Easy to use & learn

Applications
 Software Development
 Web Development
 GUI Development

Applications in Bioinformatics
 Pymol

What is Biopython ?
 Biopython Project is an international association of
developers.
 Freely available Python tools for computational molecular
biology.
 Biopython is a Python library for reading and writing
biological data formats.
 Goal of Biopython is to make it as easy as possible to use
Python for bioinformatics.

Program Introduction to Biopython
 Sequence objects
 Sequence Record objects
 Protein structures (PDB module)
 Working with DNA and protein sequences
 Transcription and Translation
 Extracting information from biological resources
 Parsing Swiss-Prot files
 Parsing BLAST output

 Accessing NCBI’s Entrez databases
 Parsing Medline records
 Running external applications (e.g. BLAST) locally and
from a script
 Working with motifs
 Parsing PROSITE documentation records

File formats created by using Biopython
 Blast
 Clustalw
 FASTA
 PubMed
 ExPASy files
 SCOP
 SwissProt
 PDB

What can Biopython do?
 Manipulate DNA and protein sequences
 Run BLAST
 Access public databases
 Manipulate protein structures

References
 http://biopython.org
 https://www.tutorialspoint.com
 http://www.python-course.eu/python

Python

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