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List of works by David P. Bartel

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

scientific article published on 26 September 2013

A Network of Noncoding Regulatory RNAs Acts in the Mammalian Brain

scientific article published on 07 June 2018

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

scientific article published in December 2017

A bifunctional tRNA for in vitro selection

scientific article

A biochemical framework for RNA silencing in plants

scientific article (publication date: 2003)

A class I ligase ribozyme with reduced Mg2+ dependence: Selection, sequence analysis, and identification of functional tertiary interactions.

scientific article

A portable RNA sequence whose recognition by a synthetic antibody facilitates structural determination

scientific article

A ribozyme that ligates RNA to protein

scientific article

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

scientific article (publication date: 2008)

A two-hit trigger for siRNA biogenesis in plants

scientific article

A uniform system for microRNA annotation

scientific article

A viral suppressor of RNA silencing differentially regulates the accumulation of short interfering RNAs and micro-RNAs in tobacco

scientific article

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

scientific article (publication date: 7 April 2006)

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

scientific article

An oxocarbenium-ion intermediate of a ribozyme reaction indicated by kinetic isotope effects

scientific article

Antiquity of microRNAs and their targets in land plants

scientific article

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

scientific article

Beyond secondary structure: primary-sequence determinants license pri-miRNA hairpins for processing.

scientific article

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

scientific article published on 15 December 2011

Censors of the genome

scientific article published on 01 August 2003

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

scientific article published on February 2009

Combinatorial minimization and secondary structure determination of a nucleotide synthase ribozyme

scientific article

Common functions for diverse small RNAs of land plants

scientific article

Compact and ordered collapse of randomly generated RNA sequences

scientific article published on 06 November 2005

Compatibility with killer explains the rise of RNAi-deficient fungi

scientific article published on September 2011

Computational identification of plant microRNAs and their targets, including a stress-induced miRNA

scientific article

Connecting microRNA genes to the core transcriptional regulatory circuitry of embryonic stem cells

scientific article (publication date: 8 August 2008)

Conserved function of lincRNAs in vertebrate embryonic development despite rapid sequence evolution

scientific article

Conserved seed pairing, often flanked by adenosines, indicates that thousands of human genes are microRNA targets

scientific article (publication date: 14 January 2005)

Control of developmental regulators by Polycomb in human embryonic stem cells

scientific article (publication date: 21 April 2006)

Criteria for annotation of plant MicroRNAs

scientific article published on 12 December 2008

Crystal Structure of the Catalytic Core of an RNA-Polymerase Ribozyme

scientific article

Discovery of functional elements in 12 Drosophila genomes using evolutionary signatures

scientific article

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

scientific article

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

scientific article published on 24 June 2019

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

scientific article (publication date: October 2008)

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

scientific article

Endogenous trans-acting siRNAs regulate the accumulation of Arabidopsis mRNAs

scientific article

Evolution, biogenesis, expression, and target predictions of a substantially expanded set of Drosophila microRNAs

scientific article

Excised linear introns regulate growth in yeast

scientific article published on 16 January 2019

Expanded identification and characterization of mammalian circular RNAs

scientific article

Expanding the microRNA targeting code: functional sites with centered pairing

scientific article

Extensive alternative polyadenylation during zebrafish development

scientific article

Formation, regulation and evolution of Caenorhabditis elegans 3'UTRs

scientific article

Genetic dissection of the miR-200-Zeb1 axis reveals its importance in tumor differentiation and invasion

scientific article published in Nature Communications

Genome-Scale Networks Link Neurodegenerative Disease Genes to α-Synuclein through Specific Molecular Pathways

scientific article

Global analyses of the dynamics of mammalian microRNA metabolism

scientific article published on 13 September 2019

Global analyses of the effect of different cellular contexts on microRNA targeting

scientific article

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

scientific article

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

scientific article published on 10 February 2016

Improved polymerase ribozyme efficiency on hydrophobic assemblies

scientific article published on 29 January 2008

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

scientific article

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

scientific article

Intronic microRNA precursors that bypass Drosha processing

scientific article

Long noncoding RNAs in C. elegans

scientific article

Mammalian microRNAs predominantly act to decrease target mRNA levels

scientific article (publication date: 12 August 2010)

Mammalian microRNAs: experimental evaluation of novel and previously annotated genes

scientific article

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

scientific article

Metal ion requirements for structure and catalysis of an RNA ligase ribozyme.

scientific article

Metazoan MicroRNAs

MicroRNA 3'-compensatory pairing occurs through two binding modes, with affinity shaped by nucleotide identity and position

scientific article published on 22 February 2022

MicroRNA 3′-compensatory pairing occurs through two binding modes, with affinity shaped by nucleotide identity and position

scientific article published on 22 February 2022

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

scientific article published on 01 April 2020

MicroRNA control of PHABULOSA in leaf development: importance of pairing to the microRNA 5' region

scientific article (publication date: 18 August 2004)

MicroRNA destabilization enables dynamic regulation of the miR-16 family in response to cell-cycle changes

scientific article

MicroRNA regulation of NAC-domain targets is required for proper formation and separation of adjacent embryonic, vegetative, and floral organs

scientific article published in June 2004

MicroRNA targeting specificity in mammals: determinants beyond seed pairing

scientific article

MicroRNA-directed cleavage of HOXB8 mRNA

scientific article (publication date: 23 April 2004)

MicroRNA-directed regulation of Arabidopsis AUXIN RESPONSE FACTOR17 is essential for proper development and modulates expression of early auxin response genes

scientific article

MicroRNAS and their regulatory roles in plants

scientific article (publication date: 2006)

MicroRNAs Cause Accelerated Decay of Short-Tailed Target mRNAs

scientific article published on 02 January 2020

MicroRNAs in plants

scientific article

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

scientific article (publication date: October 2008)

MicroRNAs modulate hematopoietic lineage differentiation

scientific article (publication date: 2 January 2004)

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

scientific article (publication date: December 2010)

MicroRNAs: at the root of plant development?

article by Bonnie Bartel & David P. Bartel published June 2003 in Plant Physiology

MicroRNAs: genomics, biogenesis, mechanism, and function

scientific article (publication date: 23 January 2004)

MicroRNAs: target recognition and regulatory functions

scientific article

Microarray analysis shows that some microRNAs downregulate large numbers of target mRNAs

scientific article (publication date: 17 February 2005)

Microarray profiling of microRNAs reveals frequent coexpression with neighboring miRNAs and host genes

scientific article

Most Caenorhabditis elegans microRNAs are individually not essential for development or viability

scientific article

Most mammalian mRNAs are conserved targets of microRNAs

scientific article

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

scientific article

New CRISPR Mutagenesis Strategies Reveal Variation in Repair Mechanisms among Fungi.

scientific article published on 25 April 2018

New catalytic structures from an existing ribozyme.

scientific article

New ligase-derived RNA polymerase ribozymes

scientific article published on 29 June 2005

PRG-1 and 21U-RNAs interact to form the piRNA complex required for fertility in C. elegans

scientific article published on 19 June 2008

Partially redundant functions of Arabidopsis DICER-like enzymes and a role for DCL4 in producing trans-acting siRNAs.

scientific article published in August 2005

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

scientific journal article

Patterns of flanking sequence conservation and a characteristic upstream motif for microRNA gene identification

scientific article

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

scientific article

Predicting effective microRNA target sites in mammalian mRNAs

scientific article published in 2015

Predicting microRNA targeting efficacy in Drosophila

scientific article published on 04 October 2018

Prediction of mammalian microRNA targets

scientific article (publication date: 26 December 2003)

Prediction of plant microRNA targets

scientific article (publication date: 23 August 2002)

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

scientific article published on 7 May 2015

Processivity of ribozyme-catalyzed RNA polymerization

scientific article published in 2003

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

scientific article published on September 2016

RNAi in budding yeast

scientific article

Regulatory mutations of mir-48, a C. elegans let-7 family MicroRNA, cause developmental timing defects

scientific article

Reviews

SBAR: electronic handoff tool for noncomplicated procedural patients

scientific article published on 01 April 2012

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

scientific article

Small RNAs correspond to centromere heterochromatic repeats

scientific article

Stalled spliceosomes are a signal for RNAi-mediated genome defense.

scientific article published on 14 February 2013

Structure of yeast Argonaute with guide RNA

scientific article

Substrate 2'-hydroxyl groups required for ribozyme-catalyzed polymerization

scientific article published on 01 September 2003

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

scientific article published on 24 June 2013

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

scientific article published on 7 September 2008

The Drosophila hairpin RNA pathway generates endogenous short interfering RNAs

scientific article published on 07 May 2008

The Dynamics of Cytoplasmic mRNA Metabolism

scientific article published on 02 January 2020

The G3BP Stress-Granule Proteins Reinforce the Translation Program of the Integrated Stress Response

The G3BP Stress-Granule Proteins Reinforce the Translation Program of the Integrated Stress Response

scientific article published on 5 October 2024

The Inside-Out Mechanism of Dicers from Budding Yeasts

scientific article

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

scientific article

The ZSWIM8 ubiquitin ligase mediates target-directed microRNA degradation

scientific article

The action of ARGONAUTE1 in the miRNA pathway and its regulation by the miRNA pathway are crucial for plant development.

scientific article

The biochemical basis for the cooperative action of microRNAs

scientific article published on 13 July 2020

The biochemical basis of microRNA targeting efficacy

scientific article

The guide-RNA sequence dictates the slicing kinetics and conformational dynamics of the Argonaute silencing complex

scientific article published in July 2024

The helicase Ded1p controls use of near-cognate translation initiation codons in 5' UTRs

scientific article published in Nature

The impact of microRNAs on protein output

scientific article

The influence of microRNAs and poly(A) tail length on endogenous mRNA-protein complexes

scientific article

The let-7 MicroRNA family members mir-48, mir-84, and mir-241 function together to regulate developmental timing in Caenorhabditis elegans

scientific article

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

scientific article

The microRNAs of Caenorhabditis elegans

scientific article

The molecular basis of coupling between poly(A)-tail length and translational efficiency

The molecular basis of coupling between poly(A)-tail length and translational efficiency

scientific article published on 2 July 2021

The structural basis for RNA slicing by human Argonaute2

The structural basis for RNA slicing by human Argonaute2

scientific article published on 20 August 2024

The structural basis of RNA-catalyzed RNA polymerization

scientific article

The three-dimensional architecture of the class I ligase ribozyme

scientific article

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

scientific article

Vertebrate microRNA genes

scientific article

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

scientific article

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

scientific article

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

scientific article

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

scientific article published on 05 June 2020

ZSWIM8 destabilizes many murine microRNAs and is required for proper embryonic growth and development

ZSWIM8 destabilizes many murine microRNAs and is required for proper embryonic growth and development

scientific article published in September 2023

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

scientific article published on 29 April 2017

lincRNAs: genomics, evolution, and mechanisms

scientific article published on July 2013

m6A modification of a 3' UTR site reduces RME1 mRNA levels to promote meiosis

scientific article published on 30 July 2019

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

scientific article

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

scientific article published on 30 July 2016

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

scholarly article

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