Targeting RNA structures with small molecules

DNA-encoded library versus RNA-encoded library selection enables design of an oncogenic noncoding RNA inhibitor

(2022) Raphael I. Benhamou et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

An orally available, brain penetrant, small molecule lowers huntingtin levels by enhancing pseudoexon inclusion

(2022) Caroline Gubser Keller et al.   Nature Communications

Design and Implementation of Synthetic RNA Binders for the Inhibition of miR-21 Biogenesis

(2021) Chloé Maucort et al.   ACS Medicinal Chemistry Letters

Systematically Studying the Effect of Small Molecules Interacting with RNA in Cellular and Preclinical Models

(2021) Jessica A. Bush et al.   ACS Chemical Biology

Exploring the Druggability of Conserved RNA Regulatory Elements in the SARS‐CoV‐2 Genome

(2021) Sridhar Sreeramulu et al.   ANGEWANDTE CHEMIE-INTERNATIONAL EDITION

1-Aminomethyl SAR in a novel series of flavagline-inspired eIF4A inhibitors: Effects of amine substitution on cell potency and in vitro PK properties

(2021) Christian Nilewski et al.   BIOORGANIC & MEDICINAL CHEMISTRY LETTERS

A Druglike Small Molecule that Targets r(CCUG) Repeats in Myotonic Dystrophy Type 2 Facilitates Degradation by RNA Quality Control Pathways

(2021) Sarah Wagner-Griffin et al.   JOURNAL OF MEDICINAL CHEMISTRY

Reprogramming of Protein-Targeted Small-Molecule Medicines to RNA by Ribonuclease Recruitment

(2021) Peiyuan Zhang et al.   JOURNAL OF THE AMERICAN CHEMICAL SOCIETY

Geometric deep learning of RNA structure

(2021) Raphael J. L. Townshend et al.   SCIENCE

Mechanisms of cellular iron sensing, regulation of erythropoiesis and mitochondrial iron utilization

(2021) Nunziata Maio et al.   SEMINARS IN HEMATOLOGY

Conservation in the Iron Responsive Element Family

(2021) Karl Volz   Genes

Developments in solution-state NMR yield broader and deeper views of the dynamic ensembles of nucleic acids

(2021) Bei Liu et al.   CURRENT OPINION IN STRUCTURAL BIOLOGY

Discovery of highly reactive self-splicing group II introns within the mitochondrial genomes of human pathogenic fungi

(2021) Tianshuo Liu et al.   NUCLEIC ACIDS RESEARCH

Ribonuclease recruitment using a small molecule reduced c9ALS/FTD r(G 4 C 2 ) repeat expansion in vitro and in vivo ALS models

(2021) Jessica A. Bush et al.   Science Translational Medicine

A chemical probe based on the PreQ1 metabolite enables transcriptome-wide mapping of binding sites

(2021) Sumirtha Balaratnam et al.   Nature Communications

Amilorides inhibit SARS-CoV-2 replication in vitro by targeting RNA structures

(2021) Martina Zafferani et al.   Science Advances

Structure-Specific Cleavage of an RNA Repeat Expansion with a Dimeric Small Molecule Is Advantageous over Sequence-Specific Recognition by an Oligonucleotide

(2020) Raphael I. Benhamou et al.   ACS Chemical Biology

Estimating the power of sequence covariation for detecting conserved RNA structure

(2020) Elena Rivas et al.   BIOINFORMATICS

Revolution of Small Molecule Drug Discovery by Affinity Selection-Mass Spectrometry Technology

(2020) Takashi Motoyaji   CHEMICAL & PHARMACEUTICAL BULLETIN

Small-molecule targeted recruitment of a nuclease to cleave an oncogenic RNA in a mouse model of metastatic cancer

(2020) Matthew G. Costales et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Translation of the intrinsically disordered protein α-synuclein is inhibited by a small molecule targeting its structured mRNA

(2020) Peiyuan Zhang et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Probing RNA Conformational Equilibria within the Functional Cellular Context

(2020) Laura R. Ganser et al.   Cell Reports

Ferroptosis was more initial in cell death caused by iron overload and its underlying mechanism in Parkinson's disease

(2020) Pei Zhang et al.   FREE RADICAL BIOLOGY AND MEDICINE

How We Think about Targeting RNA with Small Molecules

(2020) Matthew G. Costales et al.   JOURNAL OF MEDICINAL CHEMISTRY

Design of Development Candidate eFT226, a First in Class Inhibitor of Eukaryotic Initiation Factor 4A RNA Helicase

(2020) Justin T. Ernst et al.   JOURNAL OF MEDICINAL CHEMISTRY

Targeted Degradation of the Oncogenic MicroRNA 17-92 Cluster by Structure-Targeting Ligands

(2020) Xiaohui Liu et al.   JOURNAL OF THE AMERICAN CHEMICAL SOCIETY

Design, Optimization, and Study of Small Molecules That Target Tau Pre-mRNA and Affect Splicing

(2020) Jonathan L. Chen et al.   JOURNAL OF THE AMERICAN CHEMICAL SOCIETY

Former orphan riboswitches reveal unexplored areas of bacterial metabolism, signaling, and gene control processes

(2020) Madeline E. Sherlock et al.   RNA

A Toxic RNA Templates the Synthesis of Its Own Fluorogenic Inhibitor by Using a Bio-orthogonal Tetrazine Ligation in Cells and Tissues

(2020) Alicia J. Angelbello et al.   ACS Chemical Biology

Gini Coefficients as a Single Value Metric to Define Chemical Probe Selectivity

(2020) Andrei Ursu et al.   ACS Chemical Biology

Accelerated cryo-EM-guided determination of three-dimensional RNA-only structures

(2020) Kalli Kappel et al.   NATURE METHODS

Strategic Diastereoselective C1 Functionalization in the Aza-Rocaglamide Scaffold toward Natural Product-Inspired eIF4A Inhibitors

(2020) Christian Nilewski et al.   ORGANIC LETTERS

FARFAR2: Improved De Novo Rosetta Prediction of Complex Global RNA Folds

(2020) Andrew Martin Watkins et al.   STRUCTURE

IRES-targeting small molecule inhibits enterovirus 71 replication via allosteric stabilization of a ternary complex

(2020) Jesse Davila-Calderon et al.   Nature Communications

Alpha-Synuclein in Alcohol Use Disorder, Connections with Parkinson’s Disease and Potential Therapeutic Role of 5’ Untranslated Region-Directed Small Molecules

(2020) Catherine M. Cahill et al.   Biomolecules

A novel SHAPE reagent enables the analysis of RNA structure in living cells with unprecedented accuracy

(2020) Tycho Marinus et al.   NUCLEIC ACIDS RESEARCH

A general fragment-based approach to identify and optimize bioactive ligands targeting RNA

(2020) Blessy M. Suresh et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Selective small molecule targeting of a triple helix encoded by the long non-coding RNA, MALAT1

(2019) Fardokht A Abulwerdi et al.   ACS Chemical Biology

The PROTAC technology in drug development

(2019) Yutian Zou et al.   CELL BIOCHEMISTRY AND FUNCTION

RNA structure maps across mammalian cellular compartments

(2019) Lei Sun et al.   NATURE STRUCTURAL & MOLECULAR BIOLOGY

Perspectives on targeting RNA with small molecules to capture opportunities at the intersection of chemistry, biology, and medicine

(2019) Matthew D. Disney   JOURNAL OF THE AMERICAN CHEMICAL SOCIETY

A Designed Small Molecule Inhibitor of a Non-Coding RNA Sensitizes HER2 Negative Cancers to Herceptin

(2019) Matthew G. Costales et al.   JOURNAL OF THE AMERICAN CHEMICAL SOCIETY

Therapeutic Antisense Oligonucleotides Are Coming of Age

(2019) C. Frank Bennett   Annual Review of Medicine

Fluorescent indicator displacement assays to identify and characterize small molecule interactions with RNA

(2019) Sarah L. Wicks et al.   METHODS

RNA-ALIS: Methodology for screening soluble RNAs as small molecule targets using ALIS affinity-selection mass spectrometry

(2019) Noreen F. Rizvi et al.   METHODS

Novel Nucleic Acid Binding Small Molecules Discovered Using DNA-Encoded Chemistry

(2019) Litovchick et al.   MOLECULES

Precise small-molecule cleavage of an r(CUG) repeat expansion in a myotonic dystrophy mouse model

(2019) Alicia J. Angelbello et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Tetracyclines as Inhibitors of Pre-microRNA Maturation: A Disconnection between RNA Binding and Inhibition

(2019) Amanda L. Garner et al.   ACS Medicinal Chemistry Letters

Synthetic ligands for PreQ1 riboswitches provide structural and mechanistic insights into targeting RNA tertiary structure

(2019) Colleen M. Connelly et al.   Nature Communications

A cross-linking approach to map small molecule-RNA binding sites in cells

(2019) Sai Pradeep Velagapudi et al.   BIOORGANIC & MEDICINAL CHEMISTRY LETTERS

A Structure-Based Drug Discovery Paradigm

(2019) Maria Batool et al.   INTERNATIONAL JOURNAL OF MOLECULAR SCIENCES

RNA structural analysis of the MYC mRNA reveals conserved motifs that affect gene expression

(2019) Collin A. O’Leary et al.   PLoS One

Development of targeted protein degradation therapeutics

(2019) Philip P. Chamberlain et al.   Nature Chemical Biology

Off-target toxicity is a common mechanism of action of cancer drugs undergoing clinical trials

(2019) Ann Lin et al.   Science Translational Medicine

Alternative Splicing Regulatory Networks: Functions, Mechanisms, and Evolution

(2019) Jernej Ule et al.   MOLECULAR CELL

Structural basis of a small molecule targeting RNA for a specific splicing correction

(2019) Sébastien Campagne et al.   Nature Chemical Biology

Expedited mapping of the ligandable proteome using fully functionalized enantiomeric probe pairs

(2019) Yujia Wang et al.   Nature Chemistry

Hybridization-mediated off-target effects of splice-switching antisense oligonucleotides

(2019) Juergen Scharner et al.   NUCLEIC ACIDS RESEARCH

Cryo-EM structure of a 40 kDa SAM-IV riboswitch RNA at 3.7 Å resolution

(2019) Kaiming Zhang et al.   Nature Communications

Discovery of Selective RNA-Binding Small Molecules by Affinity-Selection Mass Spectrometry

(2018) Noreen F. Rizvi et al.   ACS Chemical Biology

Design of Bivalent Nucleic Acid Ligands for Recognition of RNA-Repeated Expansion Associated with Huntington’s Disease

(2018) Shivaji A. Thadke et al.   BIOCHEMISTRY

Protein structure-based drug design: from docking to molecular dynamics

(2018) Paweł Śledź et al.   CURRENT OPINION IN STRUCTURAL BIOLOGY

Small Molecule Targeted Recruitment of a Nuclease to RNA

(2018) Matthew G. Costales et al.   JOURNAL OF THE AMERICAN CHEMICAL SOCIETY

Kinase-targeted cancer therapies: progress, challenges and future directions

(2018) Khushwant S. Bhullar et al.   Molecular Cancer

Principles for targeting RNA with drug-like small molecules

(2018) Katherine Deigan Warner et al.   NATURE REVIEWS DRUG DISCOVERY

High-performance virtual screening by targeting a high-resolution RNA dynamic ensemble

(2018) Laura R. Ganser et al.   NATURE STRUCTURAL & MOLECULAR BIOLOGY

Alpha-synuclein: Pathology, mitochondrial dysfunction and neuroinflammation in Parkinson’s disease

(2018) Emily M. Rocha et al.   NEUROBIOLOGY OF DISEASE

A functional genetic screen reveals sequence preferences within a key tertiary interaction in cobalamin riboswitches required for ligand selectivity

(2018) Jacob T Polaski et al.   NUCLEIC ACIDS RESEARCH

High-performance virtual screening by targeting a high-resolution RNA dynamic ensemble

(2018) Laura R. Ganser et al.   NATURE STRUCTURAL & MOLECULAR BIOLOGY

Modulation of oncogenic miRNA biogenesis using functionalized polyamines

(2018) Cathy Staedel et al.   Scientific Reports

Structure–Activity Relationship of Flavin Analogues That Target the Flavin Mononucleotide Riboswitch

(2018) Quentin Vicens et al.   ACS Chemical Biology

Delivery approaches for CRISPR/Cas9 therapeutics in vivo: advances and challenges

(2018) D.C. Luther et al.   Expert Opinion on Drug Delivery

Discovery of Risdiplam, a Selective Survival of Motor Neuron-2 (SMN2) Gene Splicing Modifier for the Treatment of Spinal Muscular Atrophy (SMA)

(2018) Hasane Ratni et al.   JOURNAL OF MEDICINAL CHEMISTRY

Dysregulation of Neuronal Iron Homeostasis as an Alternative Unifying Effect of Mutations Causing Familial Alzheimer’s Disease

(2018) Amanda L. Lumsden et al.   Frontiers in Neuroscience

A Massively Parallel Selection of Small Molecule-RNA Motif Binding Partners Informs Design of an Antiviral from Sequence

(2018) Jessica L. Childs-Disney et al.   Chem

Precise Small Molecule Degradation of a Noncoding RNA Identifies Cellular Binding Sites and Modulates an Oncogenic Phenotype

(2018) Yue Li et al.   ACS Chemical Biology

Small molecules that target group II introns are potent antifungal agents

(2018) Olga Fedorova et al.   Nature Chemical Biology

The ReFRAME library as a comprehensive drug repurposing library and its application to the treatment of cryptosporidiosis

(2018) Jeff Janes et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

ScanFold: an approach for genome-wide discovery of local RNA structural elements—applications to Zika virus and HIV

(2018) Ryan J. Andrews et al.   PeerJ

Discovery of Allosteric Inhibitors Targeting the Spliceosomal RNA Helicase Brr2

(2017) Misa Iwatani-Yoshihara et al.   JOURNAL OF MEDICINAL CHEMISTRY

Inducing Protein Degradation as a Therapeutic Strategy

(2017) Craig M. Crews   JOURNAL OF MEDICINAL CHEMISTRY

Iron regulatory protein (IRP)-iron responsive element (IRE) signaling pathway in human neurodegenerative diseases

(2017) Zhi Dong Zhou et al.   Molecular Neurodegeneration

Amiloride as a new RNA-binding scaffold with activity against HIV-1 TAR

(2017) Neeraj N. Patwardhan et al.   MedChemComm

Binding to SMN2 pre-mRNA-protein complex elicits specificity for small molecule splicing modifiers

(2017) Manaswini Sivaramakrishnan et al.   Nature Communications

Defining RNA–Small Molecule Affinity Landscapes Enables Design of a Small Molecule Inhibitor of an Oncogenic Noncoding RNA

(2017) Sai Pradeep Velagapudi et al.   ACS Central Science

Rational Design of Small Molecules Targeting Oncogenic Noncoding RNAs from Sequence

(2016) Matthew D. Disney et al.   ACCOUNTS OF CHEMICAL RESEARCH

Discovery of Inhibitors of MicroRNA-21 Processing Using Small Molecule Microarrays

(2016) Colleen M. Connelly et al.   ACS Chemical Biology

Small Molecule Microarray Based Discovery of PARP14 Inhibitors

(2016) Bo Peng et al.   ANGEWANDTE CHEMIE-INTERNATIONAL EDITION

Genome-Wide Analysis of RNA Secondary Structure

(2016) Philip C. Bevilacqua et al.   Annual Review of Genetics

Tau and tauopathies

(2016) Thomas Arendt et al.   BRAIN RESEARCH BULLETIN

Oncogenic MicroRNAs Biogenesis as a Drug Target: Structure-Activity Relationship Studies on New Aminoglycoside Conjugates

(2016) Duc Duy Vo et al.   CHEMISTRY-A EUROPEAN JOURNAL

Small-molecule approaches toward the targeting of oncogenic miRNAs: roadmap for the discovery of RNA modulators

(2016) Audrey Di Giorgio et al.   Future Medicinal Chemistry

Deciphering structure-activity relationships in a series of Tat/TAR inhibitors

(2016) Lise Pascale et al.   JOURNAL OF BIOMOLECULAR STRUCTURE & DYNAMICS

Development of Small Molecules with a Noncanonical Binding Mode to HIV-1 Trans Activation Response (TAR) RNA

(2016) Fardokht A. Abulwerdi et al.   JOURNAL OF MEDICINAL CHEMISTRY

Specific Correction of Alternative Survival Motor Neuron 2 Splicing by Small Molecules: Discovery of a Potential Novel Medicine To Treat Spinal Muscular Atrophy

(2016) Hasane Ratni et al.   JOURNAL OF MEDICINAL CHEMISTRY

Rocaglates convert DEAD-box protein eIF4A into a sequence-selective translational repressor

(2016) Shintaro Iwasaki et al.   NATURE

Corrigendum: SMN2 splice modulators enhance U1–pre-mRNA association and rescue SMA mice

(2016) James Palacino et al.   Nature Chemical Biology

Precise small-molecule recognition of a toxic CUG RNA repeat expansion

(2016) Suzanne G Rzuczek et al.   Nature Chemical Biology

A statistical test for conserved RNA structure shows lack of evidence for structure in lncRNAs

(2016) Elena Rivas et al.   NATURE METHODS

Splice-switching antisense oligonucleotides as therapeutic drugs

(2016) Mallory A. Havens et al.   NUCLEIC ACIDS RESEARCH

Design of a small molecule against an oncogenic noncoding RNA

(2016) Sai Pradeep Velagapudi et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Microarray Based Screening of Peptide Nano Probes for HER2 Positive Tumor

(2015) Zihua Wang et al.   ANALYTICAL CHEMISTRY

Mechanisms and Regulation of Alternative Pre-mRNA Splicing

(2015) Yeon Lee et al.   Annual Review of Biochemistry

Novel Riboswitch-Binding Flavin Analog That Protects Mice against Clostridium difficile Infection without Inhibiting Cecal Flora

(2015) Kenneth F. Blount et al.   ANTIMICROBIAL AGENTS AND CHEMOTHERAPY

HOTAIR Forms an Intricate and Modular Secondary Structure

(2015) Srinivas Somarowthu et al.   MOLECULAR CELL

Selective small-molecule inhibition of an RNA structural element

(2015) John A. Howe et al.   NATURE

RNA Structures as Mediators of Neurological Diseases and as Drug Targets

(2015) Viachaslau Bernat et al.   NEURON

2-aminopurine as a fluorescent probe of DNA conformation and the DNA–enzyme interface

(2015) Anita C. Jones et al.   QUARTERLY REVIEWS OF BIOPHYSICS

Structural determinants for alternative splicing regulation of the MAPT pre-mRNA

(2015) Jolanta Lisowiec et al.   RNA Biology

Probing Xist RNA Structure in Cells Using Targeted Structure-Seq

(2015) Rui Fang et al.   PLoS Genetics

Platinum-RNA Modifications Following Drug Treatment in S. cerevisiae Identified by Click Chemistry and Enzymatic Mapping

(2014) Maire F. Osborn et al.   ACS Chemical Biology

Computational Analysis of Conserved RNA Secondary Structure in Transcriptomes and Genomes

(2014) Sean R. Eddy   Annual Review of Biophysics

Synthesis of triazole-functionalized 2-DOS analogues and their evaluation as A-site binders

(2014) Panoula Anastasopoulou et al.   BIOORGANIC & MEDICINAL CHEMISTRY LETTERS

Bottom-up Design of Small Molecules that Stimulate Exon 10 Skipping in MutantMAPTPre-mRNA

(2014) Yiling Luo et al.   CHEMBIOCHEM

Identification of Biologically Active, HIV TAR RNA-Binding Small Molecules Using Small Molecule Microarrays

(2014) Joanna Sztuba-Solinska et al.   JOURNAL OF THE AMERICAN CHEMICAL SOCIETY

Landscape and variation of RNA secondary structure across the human transcriptome

(2014) Yue Wan et al.   NATURE

Drugging the undruggable RAS: Mission Possible?

(2014) Adrienne D. Cox et al.   NATURE REVIEWS DRUG DISCOVERY

Rfam 12.0: updates to the RNA families database

(2014) Eric P. Nawrocki et al.   NUCLEIC ACIDS RESEARCH

SMN2 splicing modifiers improve motor function and longevity in mice with spinal muscular atrophy

(2014) N. A. Naryshkin et al.   SCIENCE

RNA structural analysis by evolving SHAPE chemistry

(2014) Robert C. Spitale et al.   Wiley Interdisciplinary Reviews-RNA

Covalent Small-Molecule-RNA Complex Formation Enables Cellular Profiling of Small-Molecule-RNA Interactions

(2013) Lirui Guan et al.   ANGEWANDTE CHEMIE-INTERNATIONAL EDITION

Role of Context in RNA Structure: Flanking Sequences Reconfigure CAG Motif Folding in Huntingtin Exon 1 Transcripts

(2013) Steven Busan et al.   BIOCHEMISTRY

Developing Bivalent Ligands to Target CUG Triplet Repeats, the Causative Agent of Myotonic Dystrophy Type 1

(2013) Amin Haghighat Jahromi et al.   JOURNAL OF MEDICINAL CHEMISTRY

Hepatitis C Virus Translation Inhibitors Targeting the Internal Ribosomal Entry Site

(2013) Sergey M. Dibrov et al.   JOURNAL OF MEDICINAL CHEMISTRY

In vivo genome-wide profiling of RNA secondary structure reveals novel regulatory features

(2013) Yiliang Ding et al.   NATURE

Genome-wide probing of RNA structure reveals active unfolding of mRNA structures in vivo

(2013) Silvi Rouskin et al.   NATURE

Novel 5′ Untranslated Region Directed Blockers of Iron-Regulatory Protein-1 Dependent Amyloid Precursor Protein Translation: Implications for Down Syndrome and Alzheimer's Disease

(2013) Sanghamitra Bandyopadhyay et al.   PLoS One

 -Synuclein in Parkinson's Disease

(2013) L. Stefanis   Cold Spring Harbor Perspectives in Medicine

Rationally Designed Small Molecules Targeting the RNA That Causes Myotonic Dystrophy Type 1 Are Potently Bioactive

(2012) Jessica L. Childs-Disney et al.   ACS Chemical Biology

Chemical Correction of Pre-mRNA Splicing Defects Associated with Sequestration of Muscleblind-like 1 Protein by Expanded r(CAG)-Containing Transcripts

(2012) Amit Kumar et al.   ACS Chemical Biology

Two high-throughput screening assays for aberrant RNA–protein interactions in myotonic dystrophy type 1

(2012) Catherine Z. Chen et al.   ANALYTICAL AND BIOANALYTICAL CHEMISTRY

An integrated encyclopedia of DNA elements in the human genome

(2012)   NATURE

Quantifying the chemical beauty of drugs

(2012) G. Richard Bickerton et al.   Nature Chemistry

RNA therapeutics: beyond RNA interference and antisense oligonucleotides

(2012) Ryszard Kole et al.   NATURE REVIEWS DRUG DISCOVERY

Structural architecture of the human long non-coding RNA, steroid receptor RNA activator

(2012) Irina V. Novikova et al.   NUCLEIC ACIDS RESEARCH

RNA Splicing Is Responsive to MBNL1 Dose

(2012) Sonali P. Jog et al.   PLoS One

Structure of a hepatitis C virus RNA domain in complex with a translation inhibitor reveals a binding mode reminiscent of riboswitches

(2012) S. M. Dibrov et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Identifying the preferred RNA motifs and chemotypes that interact by probing millions of combinations

(2012) Tuan Tran et al.   Nature Communications

ViennaRNA Package 2.0

(2011) Ronny Lorenz et al.   Algorithms for Molecular Biology

All-atom knowledge-based potential for RNA structure prediction and assessment

(2011) Emidio Capriotti et al.   BIOINFORMATICS

A Powerful Approach for the Selection of 2-Aminopurine Substitution Sites to Investigate RNA Folding

(2011) Marie F. Soulière et al.   JOURNAL OF THE AMERICAN CHEMICAL SOCIETY

Discovery of selective bioactive small molecules by targeting an RNA dynamic ensemble

(2011) Andrew C Stelzer et al.   Nature Chemical Biology

Mutant CAG repeats of Huntingtin transcript fold into hairpins, form nuclear foci and are targets for RNA interference

(2011) Mateusz de Mezer et al.   NUCLEIC ACIDS RESEARCH

Molecular sensing by the aptamer domain of the FMN riboswitch: a general model for ligand binding by conformational selection

(2011) Quentin Vicens et al.   NUCLEIC ACIDS RESEARCH

Identification of potential conserved RNA secondary structure throughout influenza A coding regions

(2011) W. N. Moss et al.   RNA

A modified fluorescent intercalator displacement assay for RNA ligand discovery

(2010) Papa Nii Asare-Okai et al.   ANALYTICAL BIOCHEMISTRY

A Modular Approach to Synthetic RNA Binders of the Hepatitis C Virus Internal Ribosome Entry Site

(2010) Maia Carnevali et al.   CHEMBIOCHEM

A degron created by SMN2 exon 7 skipping is a principal contributor to spinal muscular atrophy severity

(2010) S. Cho et al.   GENES & DEVELOPMENT

Fluorescent Indicator Displacement Assay for Ligand−RNA Interactions

(2010) Jinhua Zhang et al.   JOURNAL OF THE AMERICAN CHEMICAL SOCIETY

Long Noncoding RNA as Modular Scaffold of Histone Modification Complexes

(2010) M.-C. Tsai et al.   SCIENCE

Riboswitches: Structures and Mechanisms

(2010) A. D. Garst et al.   Cold Spring Harbor Perspectives in Biology

Riboswitches and the RNA World

(2010) R. R. Breaker   Cold Spring Harbor Perspectives in Biology

Small Molecule Microarrays of RNA-Focused Peptoids Help Identify Inhibitors of a Pathogenic Group I Intron

(2009) Lucas P. Labuda et al.   ACS Chemical Biology

Structural Basis for Stabilization of the Tau Pre-mRNA Splicing Regulatory Element by Novantrone (Mitoxantrone)

(2009) Suxin Zheng et al.   CHEMISTRY & BIOLOGY

Exploring conformational modes of macromolecular assemblies by multiparticle cryo-EM

(2009) Christian MT Spahn et al.   CURRENT OPINION IN STRUCTURAL BIOLOGY

Physiological and Pathological Role of Alpha-synuclein in Parkinson’s Disease Through Iron Mediated Oxidative Stress; The Role of a Putative Iron-responsive Element

(2009) David Olivares et al.   INTERNATIONAL JOURNAL OF MOLECULAR SCIENCES

Mitoxantrone Analogues as Ligands for a Stem−Loop Structure of Tau Pre-mRNA

(2009) Yang Liu et al.   JOURNAL OF MEDICINAL CHEMISTRY

Discovery of Inhibitors of Aberrant Gene Transcription from Libraries of DNA Binding Molecules: Inhibition of LEF-1-Mediated Gene Transcription and Oncogenic Transformation

(2009) James S. Stover et al.   JOURNAL OF THE AMERICAN CHEMICAL SOCIETY

Rational Design of Ligands Targeting Triplet Repeating Transcripts That Cause RNA Dominant Disease: Application to Myotonic Muscular Dystrophy Type 1 and Spinocerebellar Ataxia Type 3

(2009) Alexei Pushechnikov et al.   JOURNAL OF THE AMERICAN CHEMICAL SOCIETY

Coenzyme recognition and gene regulation by a flavin mononucleotide riboswitch

(2009) Alexander Serganov et al.   NATURE

Conformational inhibition of the hepatitis C virus internal ribosome entry site RNA

(2009) Jerod Parsons et al.   Nature Chemical Biology

Constructing RNA dynamical ensembles by combining MD and motionally decoupled NMR RDCs: new insights into RNA dynamics and adaptive ligand recognition

(2009) Aaron T. Frank et al.   NUCLEIC ACIDS RESEARCH

NNDB: the nearest neighbor parameter database for predicting stability of nucleic acid secondary structure

(2009) Douglas H. Turner et al.   NUCLEIC ACIDS RESEARCH

Therapeutic Potential of Splice-Switching Oligonucleotides

(2009) John Bauman et al.   OLIGONUCLEOTIDES

Repression of  -synuclein expression and toxicity by microRNA-7

(2009) E. Junn et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Systemic Iron Homeostasis and the Iron-Responsive Element/Iron-Regulatory Protein (IRE/IRP) Regulatory Network

(2008) Martina U. Muckenthaler et al.   Annual Review of Nutrition

Riboswitches that sense S-adenosylmethionine and S-adenosylhomocysteineThis paper is one of a selection of papers published in this Special Issue, entitled CSBMCB — Systems and Chemical Biology, and has undergone the Journal's usual peer review process.

(2008) Joy Xin Wang et al.   Biochemistry and Cell Biology

iFoldRNA: three-dimensional RNA structure prediction and folding

(2008) Shantanu Sharma et al.   BIOINFORMATICS

Targeting RNA with Small Molecules

(2008) Jason R. Thomas et al.   CHEMICAL REVIEWS

Two-Dimensional Combinatorial Screening Identifies Specific Aminoglycoside−RNA Internal Loop Partners

(2008) Matthew D. Disney et al.   JOURNAL OF THE AMERICAN CHEMICAL SOCIETY

The MC-Fold and MC-Sym pipeline infers RNA structure from sequence data

(2008) Marc Parisien et al.   NATURE

Interaction of anthracyclines with iron responsive element mRNAs

(2008) Joshua C. Canzoneri et al.   NUCLEIC ACIDS RESEARCH

Accurate SHAPE-directed RNA structure determination

(2008) K. E. Deigan et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA