## Registered report: A coding-independent function of gene and pseudogene mRNAs regulates tumour biology <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 ‘A coding-independent function of gene and pseudogene mRNAs regulates tumour biology’ by [Poliseno et al. (2010)][4], published in *Nature* in 2010. The key experiments to be replicated are reported in Figures 1D, 2F-H, and 4A. In these experiments, Poliseno and colleagues report microRNAs *miR-19b* and *miR-20a* transcriptionally suppress both *PTEN* and *PTENP1* in prostate cancer cells (Figure 1D; [Poliseno et al., 2010][5]). Decreased expression of *PTEN* and/or *PTENP1* resulted in downregulated PTEN protein levels (Figure 2H), downregulation of both mRNAs (Figure 2G), and increased tumor cell proliferation (Figure 2F; [Poliseno et al., 2010][6]). Furthermore, overexpression of the *PTEN* 3′ UTR enhanced *PTENP1* mRNA abundance limiting tumor cell proliferation, providing additional evidence for the co-regulation of *PTEN* and *PTENP1* (Figure 4A; [Poliseno et al., 2010][7]). The Reproducibility Project: Cancer Biology is collaboration between the [Center for Open Science][8] and [Science Exchange][9], and the results of the replications will be published in [*eLife*][10]. ---------- ### Contents This component contains additional materials relating to the Registered Report for Study 1: Poliseno et al., 2010, *Nature*. The Registered Report can be found [here][11]. For the correction to the Registered Report after publication, the originally published version is available [here][12] with the author response letter for the revisions [here][13]. ---------- **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 1 Registered Report Initial Draft][14] **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 1 Power Calculations][15] - [Study 1 data estimation][16] - [Study 1 Protocol 1 2-way ANOVA.R][17] - [Study 1 Protocol 2 AUC.R][18] - [Study 1 Protocol 2 2-way ANOVA.R][19] - [Study 1 Protocol 3 2-way ANOVA.R][20] - [Study 1 Protocol 4 2-way ANOVA.R][21] - [Study 1 Protocol 6 AUC.R][22] [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/10.1038/nature09144 [5]: https://doi.org/10.1038/nature09144 [6]: https://doi.org/10.1038/nature09144 [7]: https://doi.org/10.1038/nature09144 [8]: http://cos.io/ [9]: https://www.scienceexchange.com/ [10]: https://elifesciences.org/ [11]: http://elifesciences.org/content/4/e08245 [12]: https://osf.io/5kpmz/ [13]: https://osf.io/jv7zd/ [14]: https://osf.io/jt8am/ [15]: https://osf.io/ezrct/ [16]: https://osf.io/8zdkg/ [17]: https://osf.io/q6zsy/ [18]: https://osf.io/pemr7/ [19]: https://osf.io/q3fgz/ [20]: https://osf.io/n3yga/ [21]: https://osf.io/b35qd/ [22]: https://osf.io/wgrqn/