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Published March 23, 2015 | Accepted Version + Supplemental Material
Journal Article Open

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


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.

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).

Attached Files

Accepted Version - nihms703574.pdf

Supplemental Material - mmc1.pdf


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