CleaveLand: a pipeline for using degradome data to find cleaved small RNA targets

By Charles Addo-Quaye, Webb Miller, Michael J. Axtell. Bioinform., 2009

599 citations recorded by the source corpus.

Subfields: Cancer Research, Molecular Biology

View Paper: https://www.semanticscholar.org/paper/59dca2ca65c01b1e7bc3fbc80b9f000736ce70e7

How researchers see this paper

The researchers whose trusted networks rank it highest, strongest advocate first. Every researcher gets a different order.

In Cancer Research

1. Jianhua Yang
2. Liang-Hu Qu
3. Peng Shao
4. Junhao Li
5. Hui Zhou
6. Yue‐Qin Chen
7. Shun Liu

In Molecular Biology

1. Jianhua Yang
2. Liang-Hu Qu
3. Junhao Li
4. Pamela J. Green
5. Scott A. Jackson
6. Hui Zhou
7. Shun Liu

Citations in the corpus

• starBase: a database for exploring microRNA–mRNA interaction maps from Argonaute CLIP-Seq and Degradome-Seq data (2010, methodology): “We applied the CleaveLand program (version 2.0) (31) to plant Degradome-Seq data, and identified approximately 66 000 miRNA–target regulatory relationships that involved 25 579 genes and 856 miRNAs (Table 1 and Supplementary Table S2).”
• Degradome sequencing reveals endogenous small RNA targets in rice (Oryza sativa L. ssp. indica) (2010, methodology): “Acknowledgements The authors thank Drs. Charles Addo-Quaye and Michael Axtell in Pennsylvania State University for help in using CleaveLand software.”
• Comprehending crystalline β-carotene accumulation by comparing engineered cell models and the natural carotenoid-rich system of citrus (2011, unknown): “Importantly, the 200 targets belonging to category I are the most close to the authentic transcripts sliced by miRNAs (Addo-Quaye et al., 2009a).”
• MicroRNAs as master regulators of the plant NB-LRR defense gene family via the production of phased, trans-acting siRNAs. (2011, methodology): “We used CleaveLand to predict miRNA targets (Addo-Quaye et al. 2009).”