Protein bioinformatics for beginners

Malvika Sharan   2016-11-08   Comments Off on Protein bioinformatics for beginners

Date/Time
Date(s) - 2016-11-08 - 2016-11-09
09:30 CET - 17:30 CET

Location
EMBL Heidelberg - ATC Computer Training Lab

Categories


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Information:
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This course will introduce online and open-source resources such as databases and tools to explore and analyse protein sequences and structures.

The schedule and materials for the course will be updated here: https://git.embl.de/sharan/protein-bioinformatics-nov-2016/blob/master/README.md

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Preliminary content of course:
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Day-1: Protein databases and sequence analysis

– Protein databases: NCBI and UniProt
– Human protein atlas
– Antibodypedia
– EMBOSS toolkits
– Gene Ontology
– BLAST software package
– HMMER
– Multiple sequence alignments
– Jalview for motif visualization

Day-2: Protein structure analysis

– Secondary vs tertiary structure vs protein complexes
– PDB structure database
– Structure visualization by Chimera version-2
– Secondary and tertiary structure prediction
– Domain databases: InterPro, Pfam, SCOP etc.
– Intrinsically disordered region
– Eukaryotic Linear Motif (ELM)
– IUPRED
– Protein-protein interaction: STRING, BioGrid etc.
– Prediction of transmembrane helices in proteins

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Prerequisites:
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– Basic knowledge of protein sequences and structures
– Interest in basic bioinformatics based analysis

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The course is free for all EMBL members.

Bookings

This event is fully booked.

About Malvika Sharan

I am a Community Outreach Coordinator for Bio-IT and Training Coordinator for ELIXIR Germany. Find me at EMBL-HD office 101 or at Bio-IT drop-in Sessions on Tuesdays 10:00-12:00 at the EMBL staff lounge. Contact Details: email - malvika.sharan@embl.de, Twitter - https://twitter.com/MalvikaSharan, GitHub - https://github.com/malvikasharan.