Phillip D Zamore
Affiliation: University of Massachusetts Medical School
Smith C, Jouravleva K, Huisman M, Jolly S, Zamore P, GRUNWALD D. An automated Bayesian pipeline for rapid analysis of single-molecule binding data. Nat Commun. 2019;10:272 pubmed publisher
..We also use the pipeline to extend our understanding of TtAgo by measuring the protein's binding kinetics at physiological temperatures and for target DNAs containing multiple, adjacent binding sites. ..
Chang T, Mattei E, Gainetdinov I, Colpan C, Weng Z, Zamore P. Maelstrom Represses Canonical Polymerase II Transcription within Bi-directional piRNA Clusters in Drosophila melanogaster. Mol Cell. 2019;73:291-303.e6 pubmed publisher
..We propose that by repressing canonical transcription of individual transposon mRNAs, Mael helps Rhi drive non-canonical transcription of piRNA precursors without generating mRNAs encoding transposon proteins. ..
Ozata D, Gainetdinov I, Zoch A, O Carroll D, Zamore P. PIWI-interacting RNAs: small RNAs with big functions. Nat Rev Genet. 2019;20:89-108 pubmed publisher
..Here, we discuss how a common piRNA pathway allows animals to recognize diverse targets, ranging from selfish genetic elements to genes essential for gametogenesis. ..
Gainetdinov I, Colpan C, Arif A, Cecchini K, Zamore P. A Single Mechanism of Biogenesis, Initiated and Directed by PIWI Proteins, Explains piRNA Production in Most Animals. Mol Cell. 2018;71:775-790.e5 pubmed publisher
..The unified model places PIWI-clade Argonautes at the center of piRNA biology and suggests that the ancestral animal-the Urmetazoan-used PIWI proteins both to generate piRNA guides and to execute piRNA function. ..
Fu Y, Wu P, Beane T, Zamore P, Weng Z. Elimination of PCR duplicates in RNA-seq and small RNA-seq using unique molecular identifiers. BMC Genomics. 2018;19:531 pubmed publisher
..Finally, we show that computational removal of PCR duplicates based only on their mapping coordinates introduces substantial bias into data analysis. ..
Zhang Z, Theurkauf W, Weng Z, Zamore P. Strand-specific libraries for high throughput RNA sequencing (RNA-Seq) prepared without poly(A) selection. Silence. 2012;3:9 pubmed publisher
..The protocol has been used to measure RNA transcript identity and abundance in tissues from flies, mice, rats, chickens, and frogs, demonstrating its general applicability. ..
Ge D, Tipping C, Brodsky M, Zamore P. Rapid Screening for CRISPR-Directed Editing of the Drosophila Genome Using white Coconversion. G3 (Bethesda). 2016;6:3197-3206 pubmed publisher
..Finally, we show that gap repair induced by two guide RNAs more reliably converts the intervening target sequence, whereas the use of Lig4169 mutants to suppress end joining does not improve recombination efficacy. ..
Koh C, Madireddy R, Beane T, Zamore P, Korostelev A. Small methyltransferase RlmH assembles a composite active site to methylate a ribosomal pseudouridine. Sci Rep. 2017;7:969 pubmed publisher
..Our findings elucidate the mechanism by which a small protein dimer assembles a functionally asymmetric architecture. ..
Wang W, Han B, Tipping C, Ge D, Zhang Z, Weng Z, et al
. Slicing and Binding by Ago3 or Aub Trigger Piwi-Bound piRNA Production by Distinct Mechanisms. Mol Cell. 2015;59:819-30 pubmed publisher
..This alternative pathway may help flies silence newly acquired transposons for which they lack extensively complementary piRNAs. ..