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PPNI datasets

Feature Extraction

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Contact and Citation

Supplementary Material

Supplementary Tables

• Dowload (PDF file): Supplementary Material (169KB)

Data sets

Positive data set (DIP)

• Ref: Salwinski L, Miller C S, Smith A J, et al. The database of interacting proteins: 2004 update[J]. Nucleic acids research, 2004, 32(suppl 1): D449-D451.
• Dowload (zipped file): DIP data set.zip (5.89M)

Negative data sets

• Ref: Smialowski P, Pagel P, Wong P, et al. The Negatome database: a reference set of non-interacting protein pairs[J]. Nucleic acids research, 2010, 38(suppl 1): D540-D544.
• Download (zipped file): Negatome data set.zip (4.55MB)


• Download (zipped file): RandomPairs data set.zip (5.90MB)


• Download (zipped file): RecombinePairs data set.zip (6.24MB)

Tools and Codes

N-gram

• jar: download
• Usage: java -jar n-gram_pro.jar 3 inputpath outputpath 1

inputpath is input fasta file path, outputpath is the result path.

k-skip-2-gram

• jar: download
• Usage: java -jar k-skip.jar -i inputFile.fasta -o outputFile -k 2 -f 1 -m 1

inputFile is input fasta file path, outputFile is the result path.

mRMR

• Introduction

MRMD

• jar: download
• source code
• Usage

PSIPRed

• PSIPRed 3.5

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Last Modified in 2015/2/8