软件名称 转录本可编码性在线计算平台软件(Coding Potential Calculator Online) 软件简称 CPC Online 版本号 V1.0 登记号 2009SR04808 分类号 - 著作权人 北京大学 首次发表日期 2007-07-01 登记日期 2009-02-05 该公司其他软件著作权 序号登记日期软件全称软件简称登记号版本号 1 2025-05-16 手术室环境视频+交...
CPC: Coding Potential Calculator lncRNA: Long non-coding RNA mRNA: Messenger RNA NPV: Negative predictive value nt: Nucleotide PacBio: Pacific Biosciences PLEK: Predictor of long non-coding RNAs and messenger RNAs based on an improved k-mer scheme PPV: Positive predictive value SVM: ...
A comparative analysis shows that our method outperforms the existing two state-of-the-art methods—the CPC (Coding Potential Calculator) and the PORTRAIT in classifying transcripts from the test dataset.doi:10.1007/978-3-319-00536-2_125Ashis Kumer Biswas...
[26]. Another tool, the Coding Potential Calculator (CPC), can estimate a transcript’s protein coding potential by analyzing six sequence features [27]. CPC2, an updated version, boasts a thousand fold increase in speed over its predecessor while enhancing accuracy and maintaining a species-...
CPC is an assessment of the protein-coding potential of transcripts based on six biologically meaningful sequence features, the prediction of which relies on sequence alignments using pairwise homology searches for protein evidence. Applying riboHMM, which is based on a hidden Markov model, to human...
1b). In order to confirm the non-coding nature of MUC5B-AS1, coding-potential analysis was performed by Coding Potential Assessment Tool (CPAT)23 and Coding Potential Calculator (CPC) computational algorithm24, which predicted that MUC5B-AS1 had a very low coding potential (Fig. 1b). We ...
including identifying lncRNAs using the Coding Potential Calculator (CPC)47. Another important database is GreeNC38,48, which also uses a predictive annotation through CPC to identify lncRNAs in different species based on transcripts available in Phytozome49and ENSEMBL50, including 2752 genes inA. tha...
Currently, computational coding potential prediction methods mainly have two categories. On one hand, sequence alignment for homology search or phylogenetic conservation calculation is utilized in several methods like the coding potential calculator (CPC)39 and PhyloCSF.40 These alignment-based methods are...
(https://www.ncbi.nlm.nih.gov/) using Cuffcompare v2.1.1 to remove the same or similar transcripts [32]. (4) transcripts with FPKM < 1 were removed; (5) transcripts that did not pass the protein-coding-score test were removed using the Coding Potential Calculator (CPC) [36] and ...
Any potential coding of the remaining transcripts was evaluated using Coding Potential Calculator (CPC)40 and pfamscan (http://rfam.sanger.ac.uk/) (PFAM)41. Only transcripts determined to be non-coding by both CPC and PFAM were considered lncRNAs. The remaining transcripts were searched against...