Index of /afs/cs.cmu.edu/project/structure-9/Yanjun/allpredictions

Icon  Name                    Last modified      Size  Description
[DIR] Parent Directory - [   ] HPMRreceptors.genes...> 19-Oct-2009 12:03 45K [   ] PredictionsResultFil..> 30-May-2006 12:45 787 [   ] human.hprdlabel.rece..> 18-Oct-2009 08:38 2.0M [   ] human.hprdlabel.rece..> 18-Oct-2009 08:38 2.0M [   ] human.hprdlabel.rece..> 18-Oct-2009 08:41 1.9M [   ] human.hprdlabel.rece..> 18-Oct-2009 08:41 1.8M [   ] human.hprdlabel.rece..> 18-Oct-2009 08:42 1.8M [   ] human.hprdlabel.rece..> 18-Oct-2009 08:42 1.9M [   ] human.hprdlabel.rece..> 18-Oct-2009 08:44 2.0M [   ] human.hprdlabel.rece..> 18-Oct-2009 08:44 1.2M [   ] human.hprdlabel.rece..> 17-Oct-2009 21:58 817K [   ] human.hprdlabel.rece..> 17-Oct-2009 21:58 2.0M [   ] human.hprdlabel.rece..> 17-Oct-2009 21:58 1.8M [   ] human.hprdlabel.rece..> 17-Oct-2009 21:58 1.9M [   ] human.hprdlabel.rece..> 17-Oct-2009 21:58 1.6M [   ] human.hprdlabel.rece..> 17-Oct-2009 21:58 1.9M [   ] human.hprdlabel.rece..> 17-Oct-2009 21:59 2.0M [   ] human.hprdlabel.rece..> 17-Oct-2009 21:59 1.5M [   ] 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human.hprdlabel.rece..> 19-Oct-2009 10:52 1.4M [   ] human.hprdlabel.rece..> 19-Oct-2009 10:53 1.7M [TXT] readme.txt 20-Oct-2009 10:26 2.5K
*****  DUE TO THE SERVER SPACE LIMIT, NOT ALL RECEPTOR'S PREDICTION FILES ARE HERE   ******



Totally there exist 905 prediction files. 

In this directory, we provide 318 of them (due to OUR SERVER HARD DISK SPACE LIMIT). 

The other files @ http://www.cs.cmu.edu/afs/cs.cmu.edu/project/structure-9/PPI/HMRI/allresults-eachReceptorOwn/



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This directory contains the supplementary files for paper: 



Yanjun Qi[1]1, Harpreet K. Dhiman2, Neil Bhola3, Ivan Budyak4, Siddhartha Kar5, David Man2, Arpana Dutta2, Kalyan Tirupula2, Brian I. Carr5, Jennifer Grandis3,  Ziv Bar-Joseph1 and Judith Klein-Seetharaman1,2,4

Systematic prediction of human membrane receptor interactions, PROTEOMICS (2009) (In Press)

Supplementary Information see: http://www.cs.cmu.edu/~qyj/HMRI/



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SubDir:  ./allresults-eachReceptorOwn



For each human membrane receptor, we predict its potential interaction partners from all human proteins. 

All possible pairs are tested and scores are provided (with no score cutoff). 



*****  DUE TO THE SERVER SPACE LIMIT, NOT ALL RECEPTOR'S PREDICTION FILES ARE HERE   ******



Totally there exist 905 prediction files. 

In this directory, we provide 318 of them (due to OUR SERVER HARD DISK SPACE LIMIT). 

The other files @ http://www.cs.cmu.edu/afs/cs.cmu.edu/project/structure-9/PPI/HMRI/allresults-eachReceptorOwn/





For each receptor, there exist a separate prediction file which is compressed into *.tar.gz format. 

You can use the gene ID of receptors to locate its prediction file in this subdir. 



Please use "gunzip" then "tar -xvf " to decompress it.  You can OPEN the file using EXCEL. 



In each line, Items are Separated by TAB.

The pairs could be sorted based on the "column E" .



column A, gene ID of gene1 ==> geneID1

column B, gene Symbol of gene1 ==> geneSym1

column C, gene ID of gene2 ==> geneID2

column D, gene Symbol of gene2 ==> geneSym2

column E, predicted score for this pair ==> RFpnScore

column F, the label of HPRD data set : [1 means interact; 2 means not-interact]  ==> hprdLabel

column H, gene description of gene1 ==> GeneID1:Synonyms:description

column J, features we used in the computational method ==> 27features

column L, GDB ID for gene1 ==> GDBID

column M, genetic disorder information for gene1 ==> GeneticDisorder



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