PredictCellCycle

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Contents

Intro

PredictCellCycle allows the user to run a protein sequence to determine estimates for involvement in the cell cycle process or search CellCycleDB for predicted cell cycle proteins among six eukaryotic proteomes. CellCycleDB is currently a first detailed analysis through homology assignment for identifying proteins functioning in the cell cycle process focusing on cell cycle control. Single sequence queries are evaluated against a trusted annotated data set of experimentally identified cell cycle control proteins. An overall accuracy estimate for invlovemnt in the cell cycle process based on HSSP-distance threshold values is presented for any specific query. CellCycleDB provides various accuracy levels for cell cycle function assignment of all proteins among six eukaryotic proteomes.

Recommended Packages

In order to properly run predictcellcycle you will need to install the following packages.

  • BLAST - The popular sequence alignment program.

Input Files

predictcellcycle takes one input file:

  • sequence_file - file containing protein amino-acid sequence in fasta format.

Running predictcellcycle

Please see the predictcellcycle man page:

 man predcellcycle

CellCycleDB

Intro

CellCycleDB allows the user to submit a protein sequence to determine estimates for involvement in the cell cycle process or search CellCycleDB for predicted cell cycle proteins among six eukaryotic proteomes. CellCycleDB is currently a first detailed analysis through homology assignment for identifying proteins functioning in the cell cycle process focusing on cell cycle control. Single sequence queries are evaluated against a trusted annotated data set of experimentally identified cell cycle control proteins. An overall accuracy estimate for invlovemnt in the cell cycle process based on HSSP-distance threshold values is presented for any specific query. CellCycleDB provides various accuracy levels for cell cycle function assignment of all proteins among six eukaryotic proteomes.

Reference

Wrzeszczynski, K.O. and Rost, B. (2004) Methods Mol Biol. 241: 219-33.

Availabilty

You can download the cellcycledb from our ftp site

Questions

Please see the FAQ section or contact the developer

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