Survey of Natural Language Processing Techniques in Bioinformatics

Table 2

Web server for protein-protein interaction and sites prediction.

Problem	Name	Websites	Input format
Protein interaction sites prediction	PPISP	http://pipe.scs.fsu.edu/ppisp.html	PDB file
		http://pipe.scs.fsu.edu/meta-ppisp.html
	Protemot	http://protemot.csbb.ntu.edu.tw/index.html	PDB ID
	SPPIDER	http://sppider.cchmc.org	PDB file or PDB ID
	Whiscy	http://nmr.chem.uu.nl/Software/whiscy/index.html	PDB file
Protein-protein interaction prediction	InterPreTS	http://www.russell.embl.de/cgi-bin/tools/interprets.pl	Fasta, 40 sequences at most
	PIE	http://www.ncbi.nlm.nih.gov/CBBresearch/Wilbur/IRET/PIE/	Gene ID or name
	PPI	http://121.192.180.204:8080/PPI/Home.jsp	Fasta
	PredHS	http://www.predhs.org/	PDB files, 10 files at most
	Pred-PPI	http://cic.scu.edu.cn/bioinformatics/predict_ppi/default.html	Two fasta sequences
	Prism	http://cosbi.ku.edu.tr/prism/	Two PDB IDs or PDB files
	Struct2Net	http://groups.csail.mit.edu/cb/struct2net/webserver/	Gene names or keywords