title: Registered report: Coding-independent regulation of the tumor suppressor PTEN by competing endogenous mRNAs.
abstract: The Reproducibility Project: Cancer Biology seeks to address growing concerns about reproducibility in scientific research by conducting replications of selected experiments from a number of high-profile papers in the field of cancer biology. The papers, which were published between 2010 and 2012, were selected on the basis of citations and Altmetric scores (Errington et al., 2014). This Registered Report describes the proposed replication plan of key experiments from "Coding-Independent Regulation of the Tumor Suppressor PTEN by Competing Endogenous 'mRNAs' by Tay and colleagues, published in Cell in 2011 (Tay et al., 2011). The experiments to be replicated are those reported in Figures 3C, 3D, 3G, 3H, 5A and 5B, and in Supplemental Figures 3A and B. Tay and colleagues proposed a new regulatory mechanism based on competing endogenous RNAs (ceRNAs), which regulate target genes by competitive binding of shared microRNAs. They test their model by identifying and confirming ceRNAs that target PTEN. In Figure 3A and B, they report that perturbing expression of putative PTEN ceRNAs affects expression of PTEN. This effect is dependent on functional microRNA machinery (Figure 3G and H), and affects the pathway downstream of PTEN itself (Figures 5A and B). The Reproducibility Project: Cancer Biology is a collaboration between the Center for Open Science and Science Exchange, and the results of the replications will be published by eLife.
authors.affiliation: Pharmacoanalytic Shared Resource, The Ohio State University, Columbus, United States.
authors.forename: Mitch
authors.initials: M
authors.lastname: Phelps
authors.affiliation: Pharmacoanalytic Shared Resource, The Ohio State University, Columbus, United States.
authors.forename: Chris
authors.initials: C
authors.lastname: Coss
authors.affiliation: Pharmacoanalytic Shared Resource, The Ohio State University, Columbus, United States.
authors.forename: Hongyan
authors.initials: H
authors.lastname: Wang
authors.affiliation: University of California San Francisco, San Francisco, United States.
authors.forename: Matthew
authors.initials: M
authors.lastname: Cook
mesh_terms: D005786:Gene Expression Regulation; D006801:Humans; D051059:PTEN Phosphohydrolase / Q000096:biosynthesis*; D012333:RNA, Messenger / Q000378:metabolism*
chemical_list: D012333:RNA, Messenger; D051059:PTEN Phosphohydrolase; C494929:PTEN protein, human
keywords: PTEN; Reproducibility Project: Cancer Biology; human; human biology; medicine; methodology; microRNA