Publications by authors named "David P Bartel"

100Publications

The biochemical basis for the cooperative action of microRNAs.

Proc Natl Acad Sci U S A 2020 07 13;117(30):17764-17774. Epub 2020 Jul 13.

Whitehead Institute for Biomedical Research, Cambridge, MA 02142;

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http://dx.doi.org/10.1073/pnas.1920404117DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC7395462PMC
July 2020

Xrn1p acts at multiple steps in the budding-yeast RNAi pathway to enhance the efficiency of silencing.

Nucleic Acids Res 2020 07;48(13):7404-7420

Whitehead Institute for Biomedical Research, Cambridge, MA 02142, USA.

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http://dx.doi.org/10.1093/nar/gkaa468DOI Listing
July 2020

MicroRNA Clustering Assists Processing of Suboptimal MicroRNA Hairpins through the Action of the ERH Protein.

Mol Cell 2020 04;78(2):289-302.e6

Howard Hughes Medical Institute, Cambridge, MA 02142, USA; Whitehead Institute of Biomedical Research, Cambridge, MA 02142, USA; Department of Biology, Massachusetts Institute of Technology, Cambridge, MA 02139, USA. Electronic address:

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http://dx.doi.org/10.1016/j.molcel.2020.01.026DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC7243034PMC
April 2020

The Dynamics of Cytoplasmic mRNA Metabolism.

Mol Cell 2020 02 2;77(4):786-799.e10. Epub 2020 Jan 2.

Howard Hughes Medical Institute, Cambridge, MA 02142, USA; Whitehead Institute for Biomedical Research, Cambridge, MA 02142, USA; Department of Biology, Massachusetts Institute of Technology, Cambridge, MA 02139, USA. Electronic address:

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http://dx.doi.org/10.1016/j.molcel.2019.12.005DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC7265681PMC
February 2020

MicroRNAs Cause Accelerated Decay of Short-Tailed Target mRNAs.

Mol Cell 2020 02 2;77(4):775-785.e8. Epub 2020 Jan 2.

Howard Hughes Medical Institute, Cambridge, MA 02142, USA; Whitehead Institute for Biomedical Research, Cambridge, MA 02142, USA; Department of Biology, Massachusetts Institute of Technology, Cambridge, MA 02139, USA. Electronic address:

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http://dx.doi.org/10.1016/j.molcel.2019.12.004DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC7096130PMC
February 2020

The biochemical basis of microRNA targeting efficacy.

Science 2019 12 5;366(6472). Epub 2019 Dec 5.

Howard Hughes Medical Institute, Whitehead Institute for Biomedical Research, Cambridge, MA 02142, USA.

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http://dx.doi.org/10.1126/science.aav1741DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC7051167PMC
December 2019

Global analyses of the dynamics of mammalian microRNA metabolism.

Genome Res 2019 11 13;29(11):1777-1790. Epub 2019 Sep 13.

Howard Hughes Medical Institute and Whitehead Institute for Biomedical Research, Cambridge, Massachusetts 02142, USA.

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http://dx.doi.org/10.1101/gr.251421.119DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC6836734PMC
November 2019

mA modification of a 3' UTR site reduces RME1 mRNA levels to promote meiosis.

Nat Commun 2019 07 30;10(1):3414. Epub 2019 Jul 30.

Whitehead Institute for Biomedical Research, Cambridge, MA, 02142, USA.

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http://dx.doi.org/10.1038/s41467-019-11232-7DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC6667471PMC
July 2019

Early genome activation in is extensive with an initial tendency for aborted transcripts and retained introns.

Genome Res 2019 07 24;29(7):1188-1197. Epub 2019 Jun 24.

Howard Hughes Medical Institute, Whitehead Institute for Biomedical Research, Cambridge, Massachusetts 02142, USA.

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http://dx.doi.org/10.1101/gr.242164.118DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC6633261PMC
July 2019

Excised linear introns regulate growth in yeast.

Nature 2019 01 16;565(7741):606-611. Epub 2019 Jan 16.

Howard Hughes Medical Institute, Cambridge, MA, USA.

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http://dx.doi.org/10.1038/s41586-018-0828-1DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC6464110PMC
January 2019

Predicting microRNA targeting efficacy in Drosophila.

Genome Biol 2018 10 4;19(1):152. Epub 2018 Oct 4.

Whitehead Institute for Biomedical Research and Howard Hughes Medical Institute, 9 Cambridge Center, Cambridge, MA, 02142, USA.

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http://dx.doi.org/10.1186/s13059-018-1504-3DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC6172730PMC
October 2018

A Network of Noncoding Regulatory RNAs Acts in the Mammalian Brain.

Cell 2018 07 7;174(2):350-362.e17. Epub 2018 Jun 7.

Howard Hughes Medical Institute, Cambridge, MA 02142, USA; Whitehead Institute of Biomedical Research, Cambridge, MA 02142, USA; Department of Biology, Massachusetts Institute of Technology, Cambridge, MA 02139, USA. Electronic address:

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http://dx.doi.org/10.1016/j.cell.2018.05.022DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC6559361PMC
July 2018

Metazoan MicroRNAs.

Authors:
David P Bartel

Cell 2018 03;173(1):20-51

Howard Hughes Medical Institute and Whitehead Institute for Biomedical Research, Cambridge, MA 02142, USA; Department of Biology, Massachusetts Institute of Technology, Cambridge, MA 02139, USA. Electronic address:

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http://dx.doi.org/10.1016/j.cell.2018.03.006DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC6091663PMC
March 2018

A Seed Mismatch Enhances Argonaute2-Catalyzed Cleavage and Partially Rescues Severely Impaired Cleavage Found in Fish.

Mol Cell 2017 12;68(6):1095-1107.e5

Howard Hughes Medical Institute, Cambridge, MA 02142, USA; Whitehead Institute for Biomedical Research, Cambridge, MA 02142, USA; Department of Biology, Massachusetts Institute of Technology, Cambridge, MA 02139, USA. Electronic address:

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http://dx.doi.org/10.1016/j.molcel.2017.11.032DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5821252PMC
December 2017

Widespread Influence of 3'-End Structures on Mammalian mRNA Processing and Stability.

Cell 2017 May;169(5):905-917.e11

Howard Hughes Medical Institute and Whitehead Institute for Biomedical Research, Cambridge, MA 02142, USA; Department of Biology, Massachusetts Institute of Technology, Cambridge, MA 02139, USA. Electronic address:

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http://dx.doi.org/10.1016/j.cell.2017.04.036DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5546744PMC
May 2017

kpLogo: positional k-mer analysis reveals hidden specificity in biological sequences.

Nucleic Acids Res 2017 07;45(W1):W534-W538

Howard Hughes Medical Institute and Whitehead Institute for Biomedical Research, Cambridge, MA 02142, USA.

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http://dx.doi.org/10.1093/nar/gkx323DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5570168PMC
July 2017

Impact of MicroRNA Levels, Target-Site Complementarity, and Cooperativity on Competing Endogenous RNA-Regulated Gene Expression.

Mol Cell 2016 11 27;64(3):565-579. Epub 2016 Oct 27.

Institute of Molecular Health Sciences, Swiss Federal Institute of Technology in Zurich (ETH Zurich), Otto-Stern-Weg 7, 8093 Zürich, Switzerland. Electronic address:

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http://dx.doi.org/10.1016/j.molcel.2016.09.027DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5101187PMC
November 2016

RNA G-quadruplexes are globally unfolded in eukaryotic cells and depleted in bacteria.

Science 2016 Sep;353(6306)

Howard Hughes Medical Institute, Whitehead Institute for Biomedical Research, Cambridge, MA 02142, USA. Department of Biology, Massachusetts Institute of Technology, Cambridge, MA 02139, USA.

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http://dx.doi.org/10.1126/science.aaf5371DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5367264PMC
September 2016

mRNA poly(A)-tail changes specified by deadenylation broadly reshape translation in Drosophila oocytes and early embryos.

Elife 2016 07 30;5. Epub 2016 Jul 30.

Howard Hughes Medical Institute, Whitehead Institute for Biomedical Research, Cambridge, United States.

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http://dx.doi.org/10.7554/eLife.16955DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4988829PMC
July 2016

Improved Ribosome-Footprint and mRNA Measurements Provide Insights into Dynamics and Regulation of Yeast Translation.

Cell Rep 2016 Feb 11;14(7):1787-1799. Epub 2016 Feb 11.

Howard Hughes Medical Institute; Whitehead Institute for Biomedical Research, 9 Cambridge Center, Cambridge, MA 02142, USA; Department of Biology, Massachusetts Institute of Technology, Cambridge, MA 02139, USA.

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http://dx.doi.org/10.1016/j.celrep.2016.01.043DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4767672PMC
February 2016

The Menu of Features that Define Primary MicroRNAs and Enable De Novo Design of MicroRNA Genes.

Mol Cell 2015 Oct 24;60(1):131-45. Epub 2015 Sep 24.

Howard Hughes Medical Institute, Cambridge, MA 02142, USA; Whitehead Institute for Biomedical Research, Cambridge, MA 02142, USA; Department of Biology, Massachusetts Institute of Technology, Cambridge, MA 02139, USA. Electronic address:

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https://linkinghub.elsevier.com/retrieve/pii/S10972765150066
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http://dx.doi.org/10.1016/j.molcel.2015.08.015DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4613790PMC
October 2015

Independent regulation of vertebral number and vertebral identity by microRNA-196 paralogs.

Proc Natl Acad Sci U S A 2015 Sep 17;112(35):E4884-93. Epub 2015 Aug 17.

EMBL Australia, Australian Regenerative Medicine Institute, Monash University, Clayton, VIC 3800, Australia; Department of Genetics, Harvard Medical School, Boston, MA 02115;

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http://dx.doi.org/10.1073/pnas.1512655112DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4568285PMC
September 2015

Predicting effective microRNA target sites in mammalian mRNAs.

Elife 2015 Aug 12;4. Epub 2015 Aug 12.

Howard Hughes Medical Institute, Whitehead Institute for Biomedical Research, Cambridge, United States.

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https://elifesciences.org/articles/05005
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http://dx.doi.org/10.7554/eLife.05005DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4532895PMC
August 2015

Principles of long noncoding RNA evolution derived from direct comparison of transcriptomes in 17 species.

Cell Rep 2015 May 7;11(7):1110-22. Epub 2015 May 7.

Department of Biological Regulation, Weizmann Institute of Science, Rehovot 76100, Israel. Electronic address:

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https://linkinghub.elsevier.com/retrieve/pii/S22111247150041
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http://dx.doi.org/10.1016/j.celrep.2015.04.023DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4576741PMC
May 2015

Sequencing the cap-snatching repertoire of H1N1 influenza provides insight into the mechanism of viral transcription initiation.

Nucleic Acids Res 2015 May 21;43(10):5052-64. Epub 2015 Apr 21.

Department of Biology, Massachusetts Institute of Technology, Cambridge, MA 02139, USA Whitehead Institute of Biomedical Research, 9 Cambridge Center, Cambridge, MA 02142, USA Howard Hughes Medical Institute, Whitehead Institute of Biomedical Research, Cambridge, MA 02142, USA

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http://dx.doi.org/10.1093/nar/gkv333DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4446424PMC
May 2015

mRNA destabilization is the dominant effect of mammalian microRNAs by the time substantial repression ensues.

Mol Cell 2014 Oct 25;56(1):104-15. Epub 2014 Sep 25.

Howard Hughes Medical Institute, Massachusetts Institute of Technology, Cambridge, MA 02139, USA; Whitehead Institute for Biomedical Research, 9 Cambridge Center, Cambridge, MA 02142, USA; Department of Biology, Massachusetts Institute of Technology, Cambridge, MA 02139, USA. Electronic address:

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http://ac.els-cdn.com/S1097276514007060/1-s2.0-S109727651400
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http://www.cell.com/cms/attachment/2032431954/2048992605/mmc
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http://linkinghub.elsevier.com/retrieve/pii/S109727651400706
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http://dx.doi.org/10.1016/j.molcel.2014.08.028DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4292926PMC
October 2014

Widespread changes in the posttranscriptional landscape at the Drosophila oocyte-to-embryo transition.

Cell Rep 2014 Jun 29;7(5):1495-1508. Epub 2014 May 29.

Whitehead Institute, Cambridge, MA 02142, USA; Department of Biology, Massachusetts Institute of Technology, Cambridge, MA 02142, USA. Electronic address:

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http://dx.doi.org/10.1016/j.celrep.2014.05.002DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4143395PMC
June 2014

Assessing the ceRNA hypothesis with quantitative measurements of miRNA and target abundance.

Mol Cell 2014 Jun 1;54(5):766-76. Epub 2014 May 1.

Institute of Molecular Health Sciences, ETH Zurich, Otto-Stern-Weg 7, HPL H36, 8093 Zurich, Switzerland; Competence Center of Systems Physiology and Metabolic Disease, ETH Zurich, Otto-Stern-Weg 7, 8093 Zurich, Switzerland. Electronic address:

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http://dx.doi.org/10.1016/j.molcel.2014.03.045DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4267251PMC
June 2014

Poly(A)-tail profiling reveals an embryonic switch in translational control.

Nature 2014 Apr 29;508(7494):66-71. Epub 2014 Jan 29.

1] Howard Hughes Medical Institute, Massachusetts Institute of Technology, Cambridge, Massachusetts 02139, USA [2] Whitehead Institute for Biomedical Research, 9 Cambridge Center, Cambridge, Massachusetts 02142, USA [3] Department of Biology, Massachusetts Institute of Technology, Cambridge, Massachusetts 02139, USA.

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http://dx.doi.org/10.1038/nature13007DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4086860PMC
April 2014

3' UTR-isoform choice has limited influence on the stability and translational efficiency of most mRNAs in mouse fibroblasts.

Genome Res 2013 Dec 26;23(12):2078-90. Epub 2013 Sep 26.

Howard Hughes Medical Institute and Whitehead Institute for Biomedical Research, Cambridge, Massachusetts 02142, USA;

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http://dx.doi.org/10.1101/gr.156919.113DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3847777PMC
December 2013

lincRNAs: genomics, evolution, and mechanisms.

Cell 2013 Jul;154(1):26-46

Whitehead Institute for Biomedical Research, Cambridge, MA 02142, USA.

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http://dx.doi.org/10.1016/j.cell.2013.06.020DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3924787PMC
July 2013

Synthetic shuffling and in vitro selection reveal the rugged adaptive fitness landscape of a kinase ribozyme.

RNA 2013 Aug 24;19(8):1116-28. Epub 2013 Jun 24.

Whitehead Institute for Biomedical Research, Cambridge, Massachusetts 02142, USA.

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http://dx.doi.org/10.1261/rna.037572.112DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3708531PMC
August 2013

Extensive alternative polyadenylation during zebrafish development.

Genome Res 2012 Oct 21;22(10):2054-66. Epub 2012 Jun 21.

Whitehead Institute for Biomedical Research, Cambridge, Massachusetts 02142, USA.

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http://dx.doi.org/10.1101/gr.139733.112DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3460199PMC
October 2012

Structure of yeast Argonaute with guide RNA.

Nature 2012 Jun 20;486(7403):368-74. Epub 2012 Jun 20.

Structural Biology Program, Memorial Sloan-Kettering Cancer Center, New York, New York 10065, USA.

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http://dx.doi.org/10.1038/nature11211DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3853139PMC
June 2012

Long noncoding RNAs in C. elegans.

Genome Res 2012 Dec 15;22(12):2529-40. Epub 2012 Jun 15.

Whitehead Institute for Biomedical Research, Cambridge, Massachusetts 02142, USA.

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http://genome.cshlp.org/cgi/doi/10.1101/gr.140475.112
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http://dx.doi.org/10.1101/gr.140475.112DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3514682PMC
December 2012

Maternal and paternal genomes contribute equally to the transcriptome of early plant embryos.

Nature 2012 Jan 22;482(7383):94-7. Epub 2012 Jan 22.

Whitehead Institute for Biomedical Research, 9 Cambridge Center, Cambridge, Massachusetts 02142, USA.

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http://dx.doi.org/10.1038/nature10756DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3477627PMC
January 2012

Candida albicans Dicer (CaDcr1) is required for efficient ribosomal and spliceosomal RNA maturation.

Proc Natl Acad Sci U S A 2012 Jan 15;109(2):523-8. Epub 2011 Dec 15.

Whitehead Institute for Biomedical Research, Cambridge, MA 02142, USA.

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http://dx.doi.org/10.1073/pnas.1118859109DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3258626PMC
January 2012

Compatibility with killer explains the rise of RNAi-deficient fungi.

Science 2011 Sep;333(6049):1592

Whitehead Institute for Biomedical Research, 9 Cambridge Center, Cambridge, MA 02142, USA.

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http://dx.doi.org/10.1126/science.1209575DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3790311PMC
September 2011

Weak seed-pairing stability and high target-site abundance decrease the proficiency of lsy-6 and other microRNAs.

Nat Struct Mol Biol 2011 Sep 11;18(10):1139-46. Epub 2011 Sep 11.

Whitehead Institute for Biomedical Research, Cambridge, Massachusetts, USA.

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http://dx.doi.org/10.1038/nsmb.2115DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3190056PMC
September 2011

The structural basis of RNA-catalyzed RNA polymerization.

Nat Struct Mol Biol 2011 Aug 21;18(9):1036-42. Epub 2011 Aug 21.

Whitehead Institute for Biomedical Research, Cambridge, Massachusetts, USA.

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http://dx.doi.org/10.1038/nsmb.2107DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3169305PMC
August 2011

The inside-out mechanism of Dicers from budding yeasts.

Cell 2011 Jul;146(2):262-76

Whitehead Institute for Biomedical Research, 9 Cambridge Center, Cambridge, MA 02142, USA.

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http://dx.doi.org/10.1016/j.cell.2011.06.021DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3169304PMC
July 2011

Unusually effective microRNA targeting within repeat-rich coding regions of mammalian mRNAs.

Genome Res 2011 Sep 17;21(9):1395-403. Epub 2011 Jun 17.

Department of Mathematics, Massachusetts Institute of Technology, Cambridge, MA 02139, USA.

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http://dx.doi.org/10.1101/gr.121210.111DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3166825PMC
September 2011

MicroRNAs prevent precocious gene expression and enable pattern formation during plant embryogenesis.

Genes Dev 2010 Dec;24(23):2678-92

Whitehead Institute for Biomedical Research, Cambridge, Massachusetts 02142, USA.

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http://dx.doi.org/10.1101/gad.1986710DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC2994041PMC
December 2010

Formation, regulation and evolution of Caenorhabditis elegans 3'UTRs.

Nature 2011 Jan 17;469(7328):97-101. Epub 2010 Nov 17.

Whitehead Institute for Biomedical Research, Cambridge, Massachusetts 02142, USA.

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http://dx.doi.org/10.1038/nature09616DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3057491PMC
January 2011

Mammalian microRNAs predominantly act to decrease target mRNA levels.

Nature 2010 Aug;466(7308):835-40

Whitehead Institute for Biomedical Research, Cambridge, Massachusetts 02142, USA.

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http://dx.doi.org/10.1038/nature09267DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC2990499PMC
August 2010

Crystal structure of the catalytic core of an RNA-polymerase ribozyme.

Science 2009 Nov;326(5957):1271-5

Whitehead Institute for Biomedical Research and Howard Hughes Medical Institute, 9 Cambridge Center, Cambridge, MA 02142, USA.

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http://dx.doi.org/10.1126/science.1174676DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3978776PMC
November 2009

In ovo application of antagomiRs indicates a role for miR-196 in patterning the chick axial skeleton through Hox gene regulation.

Proc Natl Acad Sci U S A 2009 Nov 21;106(44):18610-5. Epub 2009 Oct 21.

Department of Genetics, Harvard Medical School, 77 Avenue Louis Pasteur, Boston, MA 02115, USA.

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http://dx.doi.org/10.1073/pnas.0910374106DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC2773993PMC
November 2009

RNAi in budding yeast.

Science 2009 Oct 10;326(5952):544-550. Epub 2009 Sep 10.

Whitehead Institute for Biomedical Research, 9 Cambridge Center, Cambridge, MA 02142, USA.

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http://dx.doi.org/10.1126/science.1176945DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3786161PMC
October 2009

Allelic imbalance sequencing reveals that single-nucleotide polymorphisms frequently alter microRNA-directed repression.

Nat Biotechnol 2009 May 26;27(5):472-7. Epub 2009 Apr 26.

Whitehead Institute for Biomedical Research, Cambridge, Massachusetts, USA.

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http://www.nature.com/articles/nbt.1540
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http://dx.doi.org/10.1038/nbt.1540DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC2828817PMC
May 2009

Coherent but overlapping expression of microRNAs and their targets during vertebrate development.

Genes Dev 2009 Feb;23(4):466-81

Whitehead Institute of Biomedical Research and Department of Biology, Massachusetts Institute of Technology, Cambridge, Massachusetts 01142, USA.

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http://dx.doi.org/10.1101/gad.1745709DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC2648652PMC
February 2009

MicroRNAs: target recognition and regulatory functions.

Authors:
David P Bartel

Cell 2009 Jan;136(2):215-33

Howard Hughes Medical Institute, Massachusetts Institute of Technology, Cambridge, MA 02139, USA.

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http://dx.doi.org/10.1016/j.cell.2009.01.002DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3794896PMC
January 2009

Most mammalian mRNAs are conserved targets of microRNAs.

Genome Res 2009 Jan 27;19(1):92-105. Epub 2008 Oct 27.

Department of Biology, Massachusetts Institute of Technology, Cambridge, Massachusetts 02139, USA.

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http://dx.doi.org/10.1101/gr.082701.108DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC2612969PMC
January 2009

Mouse ES cells express endogenous shRNAs, siRNAs, and other Microprocessor-independent, Dicer-dependent small RNAs.

Genes Dev 2008 Oct;22(20):2773-85

Institute for Regeneration Medicine, Center for Reproductive Sciences, University of California at San Francisco, San Francisco, California 94143, USA.

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http://dx.doi.org/10.1101/gad.1705308DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC2569885PMC
October 2008

Early origins and evolution of microRNAs and Piwi-interacting RNAs in animals.

Nature 2008 Oct 1;455(7217):1193-7. Epub 2008 Oct 1.

Whitehead Institute for Biomedical Research, 9 Cambridge Center, Cambridge, Massachusetts 02142, USA.

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http://dx.doi.org/10.1038/nature07415DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3837422PMC
October 2008

MicroRNAs in the Hox network: an apparent link to posterior prevalence.

Nat Rev Genet 2008 Oct;9(10):789-96

Whitehead Institute for Biomedical Research, Cambridge, Massachusetts 02142, USA.

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http://dx.doi.org/10.1038/nrg2400DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC2710959PMC
October 2008

TRAMP-mediated RNA surveillance prevents spurious entry of RNAs into the Schizosaccharomyces pombe siRNA pathway.

Nat Struct Mol Biol 2008 Oct 7;15(10):1015-23. Epub 2008 Sep 7.

Department of Cell Biology, 240 Longwood Avenue, Harvard Medical School, Boston, Massachusetts 02115 USA.

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http://www.nature.com/articles/nsmb.1481
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http://dx.doi.org/10.1038/nsmb.1481DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3240669PMC
October 2008

The impact of microRNAs on protein output.

Nature 2008 Sep 30;455(7209):64-71. Epub 2008 Jul 30.

Whitehead Institute for Biomedical Research, 9 Cambridge Center, Cambridge, Massachusetts 02142, USA.

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http://dx.doi.org/10.1038/nature07242DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC2745094PMC
September 2008

Endogenous siRNA and miRNA targets identified by sequencing of the Arabidopsis degradome.

Curr Biol 2008 May 8;18(10):758-762. Epub 2008 May 8.

Cell and Developmental Biology Graduate Program, Huck Institutes of the Life Sciences, Pennsylvania State University, University Park, Pennsylvania 16802; Department of Biology, Pennsylvania State University, University Park, Pennsylvania 16802. Electronic address:

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http://www.ncbi.nlm.nih.gov/pmc/articles/PMC2583427PMC
May 2008

The Drosophila hairpin RNA pathway generates endogenous short interfering RNAs.

Nature 2008 Jun 7;453(7196):803-6. Epub 2008 May 7.

Sloan-Kettering Institute, Department of Developmental Biology, 521 Rockefeller Research Laboratories, 1275 York Avenue, Box 252, New York, New York 10065, USA.

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http://dx.doi.org/10.1038/nature07015DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC2735555PMC
June 2008

Improved polymerase ribozyme efficiency on hydrophobic assemblies.

RNA 2008 Mar 29;14(3):552-62. Epub 2008 Jan 29.

Whitehead Institute for Biomedical Research, Department of Biology, Massachusetts Institute of Technology, Cambridge, Massachusetts 02142, USA.

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http://dx.doi.org/10.1261/rna.494508DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC2248263PMC
March 2008

A single Hox locus in Drosophila produces functional microRNAs from opposite DNA strands.

Genes Dev 2008 Jan;22(1):8-13

Broad Institute of Massachussetts Institute of Technology and Harvard University, Cambridge, Massachusetts 02141, USA.

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http://dx.doi.org/10.1101/gad.1613108DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC2151017PMC
January 2008

Common functions for diverse small RNAs of land plants.

Plant Cell 2007 Jun 29;19(6):1750-69. Epub 2007 Jun 29.

Department of Biology and Huck Institutes of the Life Sciences, Pensylvania State University, University Park, PA 16802, USA.

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http://dx.doi.org/10.1105/tpc.107.051706DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC1955733PMC
June 2007

Intronic microRNA precursors that bypass Drosha processing.

Nature 2007 Jul 24;448(7149):83-6. Epub 2007 Jun 24.

Whitehead Institute for Biomedical Research, 9 Cambridge Center, Cambridge, Massachusetts 02142, USA.

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http://dx.doi.org/10.1038/nature05983DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC2475599PMC
July 2007

miR-150, a microRNA expressed in mature B and T cells, blocks early B cell development when expressed prematurely.

Proc Natl Acad Sci U S A 2007 Apr 16;104(17):7080-5. Epub 2007 Apr 16.

Whitehead Institute for Biomedical Research, Nine Cambridge Center, Cambridge, MA 02142, USA.

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http://www.pnas.org/cgi/doi/10.1073/pnas.0702409104
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http://www.ncbi.nlm.nih.gov/pmc/articles/PMC1855395PMC
April 2007

Disrupting the pairing between let-7 and Hmga2 enhances oncogenic transformation.

Science 2007 Mar 22;315(5818):1576-9. Epub 2007 Feb 22.

Howard Hughes Medical Institute and Department of Biology, Massachusetts Institute of Technology, and Whitehead Institute for Biomedical Research, 9 Cambridge Center, Cambridge, MA 02142, USA.

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http://dx.doi.org/10.1126/science.1137999DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC2556962PMC
March 2007

A diverse and evolutionarily fluid set of microRNAs in Arabidopsis thaliana.

Genes Dev 2006 Dec;20(24):3407-25

Howard Hughes Medical Institute, Department of Biology, Massachusetts Institute of Technology, Whitehead Institute for Biomedical Research, Cambridge, Massachusetts 02142, USA.

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http://www.genesdev.org/cgi/doi/10.1101/gad.1476406
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http://www.ncbi.nlm.nih.gov/pmc/articles/PMC1698448PMC
December 2006

A two-hit trigger for siRNA biogenesis in plants.

Cell 2006 Nov;127(3):565-77

Howard Hughes Medical Institute, Department of Biology, Massachusetts Institute of Technology, Cambridge, MA, USA.

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http://dx.doi.org/10.1016/j.cell.2006.09.032DOI Listing
November 2006

Characterization of the piRNA complex from rat testes.

Science 2006 Jul 15;313(5785):363-7. Epub 2006 Jun 15.

Department of Molecular Biology, Massachusetts General Hospital, 185 Cambridge Street, Boston, MA 02114, USA.

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July 2006

MicroRNAS and their regulatory roles in plants.

Annu Rev Plant Biol 2006 ;57:19-53

Whitehead Institute for Biomedical Research, Department of Biology, Massachusetts Institute of Technology, and Howard Hughes Medical Institute, Cambridge, Massachusetts 02142, USA.

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January 2007

AGO1 homeostasis entails coexpression of MIR168 and AGO1 and preferential stabilization of miR168 by AGO1.

Mol Cell 2006 Apr;22(1):129-36

Laboratoire de Biologie Cellulaire, Institut Jean-Pierre Bourgin, INRA, 78026 Versailles Cedex, France.

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http://dx.doi.org/10.1016/j.molcel.2006.03.011DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC2323247PMC
April 2006

The microRNA miR-196 acts upstream of Hoxb8 and Shh in limb development.

Nature 2005 Dec;438(7068):671-4

Department of Genetics, Harvard Medical School, 77 Avenue Louis Pasteur, Boston, Massachusetts 02115, USA.

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http://www.nature.com/articles/nature04138
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December 2005

The widespread impact of mammalian MicroRNAs on mRNA repression and evolution.

Science 2005 Dec 24;310(5755):1817-21. Epub 2005 Nov 24.

Whitehead Institute for Biomedical Research, Department of Biology, Massachusetts Institute of Technology, and Howard Hughes Medical Institute, 9 Cambridge Center, Cambridge, MA 02142, USA.

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December 2005

Compact and ordered collapse of randomly generated RNA sequences.

Nat Struct Mol Biol 2005 Dec 6;12(12):1130-6. Epub 2005 Nov 6.

Whitehead Institute for Biomedical Research, 9 Cambridge Center, Cambridge, Massachusetts 02142, USA.

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December 2005

Passenger-strand cleavage facilitates assembly of siRNA into Ago2-containing RNAi enzyme complexes.

Cell 2005 Nov 3;123(4):607-20. Epub 2005 Nov 3.

Department of Biochemistry and Molecular Pharmacology, University of Massachusetts Medical School, Worcester, Massachusetts 01605, USA.

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November 2005

New catalytic structures from an existing ribozyme.

Nat Struct Mol Biol 2005 Nov;12(11):994-1000

Whitehead Institute for Biomedical Research and Department of Biology, 9 Cambridge Center, Cambridge, Massachusetts 02142, USA.

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November 2005