Added piratenpad program to README

README.md

@@ -6,4 +6,60 @@
 
 ## Program
 
-For now, please check the Piraten Pad: https://piratenpad.de/p/gibson_workshops
\ No newline at end of file
+**Part-1 Protein databases and sequence analysis**
+
+1. Protein databases: Malvika
+    - NCBI (very quick overview)
+    - UniProt
+        - Swissprot
+        - Cross-refrences and link-outs
+            - OMIM, Domains, GO, ...
+        - Trembl
+2. Study of similar sequences: Marc
+    - BLAST
+        - BLASTp, BLASTn, PSI-BLAST, 
+    - HHPred
+    - HMMER
+3. Multiple sequence alignments: Manjeet
+    - UniProt aligner
+    - EMBOSS dot-plot
+    - Muscle, Clustal omega
+4. Other resources: Toby & Malvika
+    - Human portein atlas
+    - Antibodypedia
+    - EMBOSS toolkits
+        - Pepinfo
+		- Sixpack
+		- dotmatcher: http://emboss.bioinformatics.nl/cgi-bin/emboss/dotmatcher
+    - Prediction of transmembrane helices in proteins: (This is a bit misplaced)
+	    TMHMM (http://www.cbs.dtu.dk/services/TMHMM/)
+
+**Part-2 Protein structure analysis**
+
+* Toby's keynote: * Secondary vs tertiary structure vs protein complexes (Theory)
+
+1. Structure database: Toby
+    - PDB (http://www.rcsb.org/pdb/home/home.do)
+2. Structure visualization: Toby
+    - Motif visualization:
+        - Jalview, MEME, Weblogo, Chimera (https://screenshots.debian.net/package/chimera2)
+3. Structure prediction: ???
+    - jpred (http://www.compbio.dundee.ac.uk/jpred/)
+    - Jalview linked tool Janet (?)
+    - PSIpred (?)
+    - Tertiary structure prediction
+    - I-TASSER
+4. Domain databases: Ben
+    - InterPro, 
+    - Pfam
+    - SCOP 
+    - SMART?
+    - SUPERFAMILY?
+5. Intrinsically disordered region : Marc
+    - ELM ( http://elm.eu.org)
+    - IUPRED (http://iupred.enzim.hu)
+    - DISPROT?
+6. Protein-protein interaction: Malvika
+    - STRING (http://string-db.org)
+    - BioGrid?
+    - MINT?