CPC 2 – Assess Protein-coding Potential of Transcripts

CPC 2

:: DESCRIPTION

CPC (Coding Potential Calculator) is a software to assess the protein-coding potential of a transcript (i.e whether a cDNA/RNA transcript could encode a peptide or not) based on six biologically meaningful sequence features. Tenfold cross-validation on the training dataset and further testing on several large datasets showed that CPC can discriminate coding from noncoding transcripts with high accuracy. Furthermore, CPC also runs an order-of-magnitude faster than a previous state-of-the-art tool and has higher accuracy.

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::DEVELOPER

Gao Lab, Peking University.

:: SCREENSHOTS

N/A

:: REQUIREMENTS

  • Linux

:: DOWNLOAD

 CPC

:: MORE INFORMATION

Citation:

Kang YJ, Yang DC, Kong L, Hou M, Meng YQ, Wei L, Gao G.
CPC2: a fast and accurate coding potential calculator based on sequence intrinsic features.
Nucleic Acids Res. 2017 Jul 3;45(W1):W12-W16. doi: 10.1093/nar/gkx428. PMID: 28521017; PMCID: PMC5793834.

Kong, L., Y. Zhang, Z.Q. Ye, X.Q. Liu, S.Q. Zhao, L. Wei, and G. Gao. 2007.
CPC: assess the protein-coding potential of transcripts using sequence features and support vector machine.
Nucleic Acids Res 36: W345-349.

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