Open Access

Comprehensive analysis of circRNA expression profiles in humans by RAISE

  • Authors:
    • Lin Li
    • Yong-Chang Zheng
    • Masood Ur Rehman Kayani
    • Wen Xu
    • Guan-Qun Wang
    • Pei Sun
    • Ning Ao
    • Li-Na Zhang
    • Zhao-Qi Gu
    • Liang-Cai Wu
    • Hai-Tao Zhao
  • View Affiliations

  • Published online on: October 16, 2017     https://doi.org/10.3892/ijo.2017.4162
  • Pages:1625-1638
  • Copyright: © Li et al. This is an open access article distributed under the terms of Creative Commons Attribution License.

Metrics: PDF 0 views | HTML 0 views
0

Abstract

Circular RNAs (circRNAs) are pervasively expressed circles of non‑coding RNAs. Even though many circRNAs have been reported in humans, their expression patterns and functions remain poorly understood. In this study, we employed a pipeline named RAISE to detect circRNAs in RNA‑seq data. RAISE can fully characterize circRNA structure and abundance. We evaluated inter-individual variations in circRNA expression in humans by applying this pipeline to numerous non‑poly(A)-selected RNA‑seq data. We identified 59,128 circRNA candidates in 61 human liver samples, with almost no overlap in the circRNA of the recruited samples. Approximately 89% of the circRNAs were detected in one or two samples. In comparison, 10% of the linear mRNAs and non‑coding RNAs were detected in each sample. We estimated the variation in other tissues, especially the circRNA high-abundance tissues, in advance. Only 0.5% of the 50,631 brain circRNA candidates were shared among the 30 recruited brain samples, which is similar to the proportion in liver. Moreover, we found inter- and intra-individual diversity in circRNAs expression in the granulocyte RNA‑seq data from seven individuals sampled 3 times at one-month intervals. Our findings suggest that careful consideration of inter-individual diversity is required when extensively identifying human circRNAs or proposing their use as potential biomarkers and therapeutic targets in disease.

Related Articles

Journal Cover

December 2017
Volume 51 Issue 6

Print ISSN: 1019-6439
Online ISSN:1791-2423

2016 Impact Factor: 3.079
Ranked #33/217 Oncology
(total number of cites)

Sign up for eToc alerts

Recommend to Library

Copy and paste a formatted citation
APA
Li, L., Zheng, Y., Kayani, M.R., Xu, W., Wang, G., Sun, P. ... Zhao, H. (2017). Comprehensive analysis of circRNA expression profiles in humans by RAISE. International Journal of Oncology, 51, 1625-1638. https://doi.org/10.3892/ijo.2017.4162
MLA
Li, L., Zheng, Y., Kayani, M. R., Xu, W., Wang, G., Sun, P., Ao, N., Zhang, L., Gu, Z., Wu, L., Zhao, H."Comprehensive analysis of circRNA expression profiles in humans by RAISE". International Journal of Oncology 51.6 (2017): 1625-1638.
Chicago
Li, L., Zheng, Y., Kayani, M. R., Xu, W., Wang, G., Sun, P., Ao, N., Zhang, L., Gu, Z., Wu, L., Zhao, H."Comprehensive analysis of circRNA expression profiles in humans by RAISE". International Journal of Oncology 51, no. 6 (2017): 1625-1638. https://doi.org/10.3892/ijo.2017.4162