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Commit 22809f5e authored by Malvika Sharan's avatar Malvika Sharan
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Update README.md

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**Part-1 Protein databases and sequence analysis**
1. Protein databases:
- [Introduction to protein databases](https://git.embl.de/sharan/protein-bioinformatics-nov-2016/blob/master/TeachingMaterials/Protein_session-1.pdf) - Malvika
- [Quick overview of NCBI](https://git.embl.de/sharan/protein-bioinformatics-nov-2016/blob/master/TeachingMaterials/protein_database.md) - Malvika
- UniProt - Ben
- [Introduction to protein databases](https://git.embl.de/sharan/protein-bioinformatics-nov-2016/blob/master/TeachingMaterials/Protein_session-1.pdf): Malvika
- [Quick overview of NCBI](https://git.embl.de/sharan/protein-bioinformatics-nov-2016/blob/master/TeachingMaterials/protein_database.md): Malvika
- UniProt: Ben
- Swissprot and Trembl
- Cross-refrences and link-outs
- OMIM, Domains, GO, ...
2. Study of similar sequences - Marc
2. Study of similar sequences: Marc
- BLAST
- BLASTp, BLASTn, PSI-BLAST, ...
- Diamond
- HMMER
- HHPred
3. [Multiple sequence alignments](https://git.embl.de/sharan/protein-bioinformatics-nov-2016/blob/master/TeachingMaterials/multiple_sequence_alignment.md) - Malvika
3. [Multiple sequence alignments](https://git.embl.de/sharan/protein-bioinformatics-nov-2016/blob/master/TeachingMaterials/multiple_sequence_alignment.md): Malvika
- Clustal omega (EMBL-EBI)
- COBALT (NCBI)
4. Other resources
- [Human Protein Atlas](https://git.embl.de/sharan/protein-bioinformatics-nov-2016/blob/master/TeachingMaterials/HPRexercise.md) - Toby
- [Antibodypedia](https://git.embl.de/sharan/protein-bioinformatics-nov-2016/blob/master/TeachingMaterials/Antibodypedia.md) - Toby
- [EMBOSS toolkits](https://git.embl.de/sharan/protein-bioinformatics-nov-2016/blob/master/TeachingMaterials/EMBOSS_EBI.md) - Malvika
- [Human Protein Atlas](https://git.embl.de/sharan/protein-bioinformatics-nov-2016/blob/master/TeachingMaterials/HPRexercise.md): Toby
- [Antibodypedia](https://git.embl.de/sharan/protein-bioinformatics-nov-2016/blob/master/TeachingMaterials/Antibodypedia.md): Toby
- [EMBOSS toolkits](https://git.embl.de/sharan/protein-bioinformatics-nov-2016/blob/master/TeachingMaterials/EMBOSS_EBI.md): Malvika
- EMBOSS dot-plot
- dotmatcher
- Pepinfo
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- jpred: Jalview
- Tertiary structure prediction: Phyre2, I-TASSER
3. [Domain databases](https://docs.google.com/document/d/1v7JM9i7yANHasTdpLFZIx_oKIx5K-t0S2o5GnDbXKD0/edit): Manjeet
- InterPro & InterProScan
- [SMART](http://smart.embl-heidelberg.de/)
- [Pfam](http://pfam.xfam.org/)
- [Superfamily](http://supfam.org/SUPERFAMILY/)
- InterPro & InterProScan
4. [Prediction of transmembrane helices in proteins](https://docs.google.com/document/d/1v7JM9i7yANHasTdpLFZIx_oKIx5K-t0S2o5GnDbXKD0/edit): Manjeet
- [TMHMM](http://www.cbs.dtu.dk/services/TMHMM/)
- [IUPRED](http://iupred.enzim.hu/) and [Anchor](http://anchor.enzim.hu/)
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