## Registered report: Coding-independent regulation of the tumor suppressor PTEN by competing endogenous mRNAs <br> **Abstract:** The [Reproducibility Project: Cancer Biology][1] 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][2] ([Errington et al., 2014][3]). 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][4]). 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 collaboration between the [Center for Open Science][5] and [Science Exchange][6], and the results of the replications will be published in [*eLife*][7]. ---------- ### Contents This component contains additional materials relating to the Registered Report for Study 24: Tay et al., 2010, *Cell*. The Registered Report can be found [here][8]. ---------- **Registered Report Initial Draft**: - This document represents the first draft of the selected experimental protocols. It contains the information that the Core team, with help from scientist volunteers, was able to glean from the original publication and its supplemental materials before the original authors were contacted for their input. - [Study 24 Registered Report Initial Draft][9] **Power Calculations**: - These documents contain details about how power calculations were performed, and include spreadsheets documenting statistical tests as well as any PRISM files, R scripts or additional materials used. - [Study 24 Power Calculations][10] - [Study 24 Figure 3C and 3D 1-way ANOVAs.R][11] - [Study 24 Figure 3H 2-way ANOVA.R][12] - [Study 24 Figure S3A and S3B one sample t-tests.pzfx][13] - [Study 24 Figure 5A 2-way ANOVA DU145.R][14] - [Study 24 Figure 5A ANOVA simultion HCT116.R][15] - [Study 24 Figure 5B AUC and ANOVA.R][16] [1]: https://osf.io/e81xl/wiki/home/ [2]: https://osf.io/e81xl/wiki/studies/ [3]: https://doi.org/10.7554/eLife.04333 [4]: https://doi.org/10.1016/j.cell.2011.09.029 [5]: http://cos.io/ [6]: https://www.scienceexchange.com/ [7]: https://elifesciences.org/ [8]: https://elifesciences.org/articles/12470 [9]: https://osf.io/jnsh5/ [10]: https://osf.io/u82m7/ [11]: https://osf.io/w3hfv/ [12]: https://osf.io/kjcb5/ [13]: https://osf.io/v4mqu/ [14]: https://osf.io/r7cft/ [15]: https://osf.io/c3p2g/ [16]: https://osf.io/xkqjz/