sOCP: a framework predicting smORF coding potential based on TIS and in-frame features and effectively applied in the human genome

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成果类型：

期刊论文

作者：

Peng, Zhao;Li, Jiaqiang;Jiang, Xingpeng;Wan, Cuihong

通讯作者：

Wan, CH;Jiang, XP

作者机构：

[Wan, Cuihong; Wan, CH; Peng, Zhao] Cent China Normal Univ, Sch Life Sci, 152 Luoyu Rd, Wuhan 430079, Peoples R China.

[Jiang, Xingpeng; Li, Jiaqiang] Cent China Normal Univ, Sch Comp Sci, 382 Xiongchu Ave, Wuhan 430079, Peoples R China.

[Wan, CH] Cent China Normal Univ, Hubei Key Lab Genet Regulat & Integrat Biol, 152 Luoyu Rd, Wuhan 430079, Peoples R China.

[Jiang, Xingpeng] Cent China Normal Univ, Hubei Prov Key Lab Artificial Intelligence & Smart, 382 Xiongchu Ave, Wuhan 430079, Peoples R China.

通讯机构：

[Wan, CH ; Jiang, XP ] C

Cent China Normal Univ, Sch Life Sci, 152 Luoyu Rd, Wuhan 430079, Peoples R China.

Cent China Normal Univ, Hubei Key Lab Genet Regulat & Integrat Biol, 152 Luoyu Rd, Wuhan 430079, Peoples R China.

Cent China Normal Univ, Sch Comp Sci, 382 Xiongchu Ave, Wuhan 430079, Peoples R China.

Cent China Normal Univ, Hubei Prov Key Lab Artificial Intelligence & Smart, 382 Xiongchu Ave, Wuhan 430079, Peoples R China.

语种：

英文

关键词：

small ORF;microprotein;coding potential;genome annotation;machine learning

期刊：

BRIEFINGS IN BIOINFORMATICS

ISSN：

1467-5463

年：

2024

卷：

期：

DOI：

10.1093/bib/bbae147

基金类别：

This work was supported by the Natural Science Foundation of China [grant numbers 32271503 to C.W., 61872157 to X.J.] and Fundamental Research Funds for Central Universities [grant number KJ02502022-0450 to X.J.].

机构署名：

本校为第一且通讯机构

院系归属：

生命科学学院

计算机学院

摘要：

Small open reading frames (smORFs) have been acknowledged to play various roles on essential biological pathways and affect human beings from diabetes to tumorigenesis. Predicting smORFs in silico is quite a prerequisite for processing the omics data. Here, we proposed the smORF-coding-potential-predicting framework, sOCP, which provides functions to construct a model for predicting novel smORFs in some species. The sOCP model constructed in human was based on in-frame features and the nucleotide bias around the start codon, and the small feature subset was proved to be competent enough and av...

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sOCP: a framework predicting smORF coding potential based on TIS and in-frame features and effectively applied in the human genome

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