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

Marinov, Georgi K, Wang, Jie, Handler, Dominik, Wold, Barbara J, Weng, Zhiping, Hannon, Gregory J, Aravin, Alexei A, Zamore, Phillip D, Brennecke, Julius, Toth, Katalin Fejes (March 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

URL: http://www.ncbi.nlm.nih.gov/pubmed/25805138
DOI: 10.1016/j.devcel.2015.01.013

Abstract

Summary 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: Paper
Subjects: bioinformatics > genomics and proteomics > genetics & nucleic acid processing > protein structure, function, modification > protein types > Piwi protein
bioinformatics > genomics and proteomics > genetics & nucleic acid processing > protein structure, function, modification > protein types > argonaute proteins
Investigative techniques and equipment > Chromatin immunoprecipitation
bioinformatics > genomics and proteomics > genetics & nucleic acid processing > DNA, RNA structure, function, modification > piRNA
CSHL Authors:
Communities: CSHL labs > Hannon lab
CSHL Cancer Center Program > Cancer Genetics
Depositing User: Matt Covey
Date: 23 March 2015
Date Deposited: 25 Mar 2015 15:06
Last Modified: 14 Oct 2015 19:16
Related URLs:
URI: http://repository.cshl.edu/id/eprint/31289

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