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Pitfalls of Mapping High-Throughput Sequencing Data to Repetitive Sequences: Piwi’s Genomic Targets Still Not Identified

Marinov, Georgi K. and Wang, Jie and Handler, Dominik and Wold, Barbara J. and Weng, Zhiping and Hannon, Gregory J. and Aravin, Alexei A. and Zamore, Phillip D. and Brennecke, Julius and Fejes Toth, Katalin (2015) Pitfalls of Mapping High-Throughput Sequencing Data to Repetitive Sequences: Piwi’s Genomic Targets Still Not Identified. Developmental Cell, 32 (6). pp. 765-771. ISSN 1534-5807. PMCID PMC4494788. https://resolver.caltech.edu/CaltechAUTHORS:20150327-092616999

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Abstract

Huang et al. (2013) recently reported that chromatin immunoprecipitation sequencing (ChIP-seq) reveals the genome-wide sites of occupancy by Piwi, a piRNA-guided Argonaute protein central to transposon silencing in Drosophila. Their study also reported that loss of Piwi causes widespread rewiring of transcriptional patterns, as evidenced by changes in RNA polymerase II occupancy across the genome. Here we reanalyze their data and report that the underlying deep-sequencing dataset does not support the authors’ genome-wide conclusions.


Item Type:Article
Related URLs:
URLURL TypeDescription
http://dx.doi.org/10.1016/j.devcel.2015.01.013DOIArticle
http://www.sciencedirect.com/science/article/pii/S1534580715000362PublisherArticle
https://www.ncbi.nlm.nih.gov/pmc/articles/PMC4494788PubMed CentralArticle
ORCID:
AuthorORCID
Marinov, Georgi K.0000-0003-1822-7273
Wold, Barbara J.0000-0003-3235-8130
Additional Information:© 2015 Elsevier Inc. Received: July 17, 2014; Revised: December 18, 2014; Accepted: January 14, 2015; Published: March 23, 2015. G.K.M., J.W., and D.H. performed the computational analyses; all authors analyzed the data and wrote the manuscript. We thank Haifan Lin for kindly sharing the detailed computational pipeline underlying the analyses in Huang et al. (2013).
Issue or Number:6
PubMed Central ID:PMC4494788
Record Number:CaltechAUTHORS:20150327-092616999
Persistent URL:https://resolver.caltech.edu/CaltechAUTHORS:20150327-092616999
Official Citation:Marinov, Georgi K., Wang, J., Handler, D., Wold, Barbara J., Weng, Z., Hannon, Gregory J., . . . Toth, Katalin F. (2015). Pitfalls of Mapping High-Throughput Sequencing Data to Repetitive Sequences: Piwi’s Genomic Targets Still Not Identified. Developmental Cell, 32(6), 765-771. doi: http://dx.doi.org/10.1016/j.devcel.2015.01.013
Usage Policy:No commercial reproduction, distribution, display or performance rights in this work are provided.
ID Code:56169
Collection:CaltechAUTHORS
Deposited By: Jason Perez
Deposited On:27 Mar 2015 21:35
Last Modified:03 Oct 2019 08:11

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