A ceRNA Hypothesis: The Rosetta Stone of a Hidden RNA Language? To view the full text, please login as a subscribed user or purchase a subscription.
Click here to view the full text on ScienceDirect. Here, we present a unifying hypothesis about how messenger RNAs, transcribed pseudogenes, and long noncoding RNAs “talk” to each other using microRNA response elements (MREs) as letters of a new language. We propose that this “competing endogenous RNA” (ceRNA) activity forms a large-scale regulatory network across the transcriptome, greatly expanding the functional genetic information in the human genome and playing important roles in pathological conditions, such as cancer.
Register an Account If you do not have an account, create one by clicking the button below, and take full advantage of this site's features. A Laminar Flow Electroporation System for Efficient DNA and siRNA Delivery - Analytical Chemistry. Zewen Wei †¶, Deyao Zhao ‡, Xueming Li †, Mengxi Wu †, Wei Wang †, Huang Huang ‡, Xiaoxia Wang ‡, Quan Du *‡, Zicai Liang *‡, and Zhihong Li *†
A Long Noncoding RNA Controls Muscle Differentiation by Functioning as a Competing Endogenous RNA. To view the full text, please login as a subscribed user or purchase a subscription. Click here to view the full text on ScienceDirect. Figure 1 Muscle-Specific lincRNA Profiling (A) Human miRNA genomic location relative to their host genes. (B) Schematic representation of the murine miR-206/133b genomic locus. A Long Noncoding RNA Controls Muscle Differentiation by Functioning as a Competing Endogenous RNA. A Structural Basis for the Antibiotic Resistance Conferred by an A1408G Mutation in 16S rRNA and for the Antiprotozoal Activity of Aminoglycosides - Kondo - 2011 - Angewandte Chemie International Edition.
A-Minor Tertiary Interactions in RNA Kink-Turns. Molecular Dynamics and Quantum Chemical Analysis - The Journal of Physical Chemistry B. Institute of Biophysics, Academy of Sciences of the Czech Republic, Královopolská 135, 61265 Brno, Czech Republic CEITEC - Central European Institute of Technology, Masaryk University, Brno, Czech Republic J.
Phys. Advanced Drug Delivery Reviews : Using drug-excipient interactions for siRNA delivery. Volume 63, Issue 13, October 2011, Pages 1210–1226 Formulating biomolecules: mechanistics insights in molecular interactions Edited By Dr.
Philippe Rogueda and Dr. An Active-Site Guanine Participates in glmS Ribozyme Catalysis in Its Protonated State - Journal of the American Chemical Society. Department of Chemical Physiology, Department of Molecular Biology, and The Skaggs Institute for Chemical Biology, The Scripps Research Institute, 10550 North Torrey Pines Road, La Jolla, California 92037, United States Cassia LLC, Suite 214, 3030 Bunker Hill Street, San Diego, California 92109, United States J.
An Extensive MicroRNA-Mediated Network of RNA-RNA Interactions Regulates Established Oncogenic Pathways in Glioblastoma. To view the full text, please login as a subscribed user or purchase a subscription. Click here to view the full text on ScienceDirect. Figure 1 MiR Activity Modulators MiR activity modulation may be implemented by several distinct mechanisms. Angiogenin-Mediated Photosensitizer–Aptamer Conjugate for Photodynamic Therapy - Yang - 2011 - ChemMedChem. Aptamer Functionalized Microcantilever Sensors for Cocaine Detection - Langmuir. †Department of Mechanical Engineering and ‡Department of Biochemistry, Biophysics and Molecular Biology, Iowa State University, Ames, Iowa 50011, United States Langmuir, 2011, 27 (23), pp 14696–14702 DOI: 10.1021/la202067y Publication Date (Web): August 29, 2011 Copyright © 2011 American Chemical Society Section:
Before and after Endosomal Escape: Roles of Stimuli-Converting siRNA/Polymer Interactions in Determining Gene Silencing Efficiency - Accounts of Chemical Research. Department of Pharmaceutical Sciences, Department of Chemical Engineering and Materials Science, Department of Biomedical Engineering, and Department of Molecular Biology and Biochemistry, University of California, Irvine, California 92697, United States Acc.
Chem. Res., 2012, 45 (7), pp 1077–1088 DOI: 10.1021/ar200241v Publication Date (Web): November 21, 2011. Benchmarking AMBER Force Fields for RNA: Comparisons to NMR Spectra for Single-Stranded r(GACC) Are Improved by Revised χ Torsions - The Journal of Physical Chemistry B. †Department of Chemistry and ‡Center for RNA Biology, University of Rochester, Rochester, New York 14627, United States Department of Biochemistry and Biophysics, School of Medicine and Dentistry, University of Rochester, Rochester, New York 14642, United States J.
Phys. Chem. B, 2011, 115 (29), pp 9261–9270 DOI: 10.1021/jp2016006 Publication Date (Web): July 1, 2011 Copyright © 2011 American Chemical Society. Cancer Cell - Short Hairpin RNA Screen Reveals Bromodomain Proteins as Novel Targets in Acute Myeloid Leukemia. Characterization of the Reaction Path and Transition States for RNA Transphosphorylation Models from Theory and Experiment - Wong - 2011 - Angewandte Chemie International Edition. Charged Nucleobases and Their Potential for RNA Catalysis - Accounts of Chemical Research. Department of Chemistry, The Pennsylvania State University, University Park, Pennsylvania 16802, United States Acc.
Chem. Res., 2011, 44 (12), pp 1270–1279 DOI: 10.1021/ar2000452 Publication Date (Web): July 6, 2011 Copyright © 2011 American Chemical Society To whom correspondence should be addressed. Competitive Protection of Aptamer-Functionalized Gold Nanoparticles by Controlling the DNA Assembly - Analytical Chemistry. Department of Chemistry, University of Alberta, Edmonton, Alberta, Canada School of Chemistry and Chemical Engineering, Nanjing University, Nanjing, China Department of Laboratory Medicine and Pathology, University of Alberta, Edmonton, Canada, T6G 2G3 Anal.
Chem., 2011, 83 (17), pp 6464–6467 DOI: 10.1021/ac201801k. Crowding Promotes the Switch from Hairpin to Pseudoknot Conformation in Human Telomerase RNA - Journal of the American Chemical Society. Department of Chemistry and Biochemistry and Biophysics Program, Institute for Physical Science and Technology, University of Maryland, College Park, Maryland 20742, United States J. Am. Chem. Soc., 2011, 133 (31), pp 11858–11861 DOI: 10.1021/ja2035128 Publication Date (Web): July 7, 2011.
Detection of Lysozyme Magnetic Relaxation Switches Based on Aptamer-Functionalized Superparamagnetic Nanoparticles - Analytical Chemistry. Center for Research at the Bio/nano Interface, Department of Chemistry and Department of Physiology and Functional Genomics, Shands Cancer Center, University of Florida, Gainesville, Florida 32611-7200, United States State Key Laboratory for Chemo/Biosensing and Chemometrics, College of Biology, College of Chemistry and Chemical Engineering, Human University, Changsha 410082, P.R.
China Anal. Chem., 2011, 83 (20), pp 7795–7799. Direct Observation of Single RNA Polymerase Processing through a Single Endogenous Gene in a Living Yeast Cell - Treutlein - 2011 - Angewandte Chemie International Edition. Discovery of Naturally Occurring Aurones That Are Potent Allosteric Inhibitors of Hepatitis C Virus RNA-Dependent RNA Polymerase - Journal of Medicinal Chemistry. Evidence for a Thermodynamically Distinct Mg2+ Ion Associated with Formation of an RNA Tertiary Structure - Journal of the American Chemical Society. Experimental Method to Measure the Effect of Charge on Bimolecular Collision Rates in Electrolyte Solutions - The Journal of Physical Chemistry A.
Department of Physics and Astronomy and The Center for Supramolecular Studies, California State University—Northridge, Northridge, California 91330, United States Department of Electrical Engineering and Western Institute of Nanoelectronics, University of California—Los Angeles, Los Angeles, California 90095, United States J. Phys. Chem. A, 2011, 115 (40), pp 10903–10910 DOI: 10.1021/jp207349s. Fast Folding of RNA Pseudoknots Initiated by Laser Temperature-Jump - Journal of the American Chemical Society. †Department of Physics (M/C 273) and ‡Department of Bioengineering (M/C 063), University of Illinois at Chicago, 845 W.
Taylor St., Chicago, Illinois 60607, United States J. Femtomole SHAPE Reveals Regulatory Structures in the Authentic XMRV RNA Genome - Journal of the American Chemical Society. Fluorescence Detection of Intron Lariat RNA with Reduction-Triggered Fluorescent Probes - Furukawa - 2011 - Angewandte Chemie International Edition. Host and Microbe - The Control of HIV Transcription: Keeping RNA Polymerase II on Track. To view the full text, please login as a subscribed user or purchase a subscription. Click here to view the full text on ScienceDirect. Thirteen years ago, human cyclin T1 was identified as part of the positive transcription elongation factor b (P-TEFb) and the long-sought host cofactor for the HIV-1 transactivator Tat. Recent years have brought new insights into the intricate regulation of P-TEFb function and its relationship with Tat, revealing novel mechanisms for controlling HIV transcription and fueling new efforts to overcome the barrier of transcriptional latency in eradicating HIV.
Moreover, the improved understanding of HIV and Tat forms a basis for studying transcription elongation control in general. Register an Account. Identifying Protein Variants with Cross-Reactive Aptamer Arrays - Stewart - 2011 - ChemBioChem. Improving Aptamer Selection Efficiency through Volume Dilution, Magnetic Concentration, and Continuous Washing in Microfluidic Channels - Analytical Chemistry. In Vivo Sustained Release of siRNA from Solid Lipid Nanoparticles - ACS Nano. Inside Cover: A 5′-Cap for DNA Probes Binding RNA Target Strands (Chem. Eur. J. 42/2011) - Egetenmeyer - 2011 - Chemistry - A European Journal. Journal of Controlled Release : PEGylated poly(ethylene imine) copolymer-delivered siRNA inhibits HIV replication in vitro. Journal of Controlled Release : Systemic delivery of siRNA with cationic lipid assisted PEG-PLA nanoparticles for cancer therapy. Mapping the Landscape of RNA Dynamics with NMR Spectroscopy - Accounts of Chemical Research.
Measurement of Aptamer–Protein Interactions with Back-Scattering Interferometry - Analytical Chemistry. Metabolism - Small Nucleolar RNAs U32a, U33, and U35a Are Critical Mediators of Metabolic Stress. To view the full text, please login as a subscribed user or purchase a subscription. Click here to view the full text on ScienceDirect. Figure 1 6F2 Cells Are Resistant to Palmitate-Induced Lipotoxicity. MiRNA Processing and Human Cancer: DICER1 Cuts the Mustard. Science Translational Medicinestm.sciencemag.org Sci Transl Med 30 November 2011: Vol. 3, Issue 111, p. 111ps46 Sci. Transl. Med. Multimerized siRNA Cross-linked by Gold Nanoparticles - Bioconjugate Chemistry. Multistrand RNA Secondary Structure Prediction and Nanostructure Design Including Pseudoknots - ACS Nano. Nanopores: The Passage of Homopolymeric RNA through Small Solid-State Nanopores (Small 15/2011) - van den Hout - 2011 - Small.
Nanoscale Topography: Aptamer-Mediated Efficient Capture and Release of T Lymphocytes on Nanostructured Surfaces (Adv. Mater. 38/2011) - Chen - 2011 - Advanced Materials. NcRNA- and Pc2 Methylation-Dependent Gene Relocation between Nuclear Structures Mediates Gene Activation Programs. Noncanonical Hydrogen Bonding in Nucleic Acids. Benchmark Evaluation of Key Base–Phosphate Interactions in Folded RNA Molecules Using Quantum-Chemical Calculations and Molecular Dynamics Simulations - The Journal of Physical Chemistry A. Nonviral Pulmonary Delivery of siRNA - Accounts of Chemical Research. Plug and Play with RNA - Mayer - 2011 - Angewandte Chemie International Edition. Probing Conformational Variations at the ATPase Site of the RNA Helicase DbpA by High-Field Electron–Nuclear Double Resonance Spectroscopy - Journal of the American Chemical Society. Protein Labeling Enhances Aptamer Selection by Methods of Kinetic Capillary Electrophoresis - Analytical Chemistry.
Proteomics Reveals a Role for the RNA Helicase crhR in the Modulation of Multiple Metabolic Pathways during Cold Acclimation of Synechocystis sp. PCC6803 - Journal of Proteome Research. QM/MM Studies of Hairpin Ribozyme Self-Cleavage Suggest the Feasibility of Multiple Competing Reaction Mechanisms - The Journal of Physical Chemistry B. Quinoxalino[2,3-c]cinnolines and Their 5-N-Oxide: Alkoxylation of Methyl-Substituted Quinoxalino[2,3-c]cinnolines to Acetals and Orthoesters - The Journal of Organic Chemistry. Rapid HATU-Mediated Solution Phase siRNA Conjugation - Bioconjugate Chemistry. Redirection page. RNA Biology: An Introduction By Gunter Meister. - Narberhaus - 2011 - ChemBioChem. Sensitive Detection and Identification of DNA and RNA Using a Patterned Capillary Tube - Analytical Chemistry. Site-Specific Labeling of DNA and RNA Using an Efficiently Replicated and Transcribed Class of Unnatural Base Pairs - Journal of the American Chemical Society.
Solution structures of DEAD-box RNA chaperones reveal conformational changes and nucleic acid tethering by a basic tail. Sticky Nanoparticles: A Platform for siRNA Delivery by a Bis(zinc(II) dipicolylamine)-Functionalized, Self-Assembled Nanoconjugate - Liu - 2011 - Angewandte Chemie International Edition. Sticky Nanoparticles: A Platform for siRNA Delivery by a Bis(zinc(II) dipicolylamine)-Functionalized, Self-Assembled Nanoconjugate - Liu - 2011 - Angewandte Chemie International Edition. Structural Basis for the Activation of Innate Immune Pattern-Recognition Receptor RIG-I by Viral RNA. Structural Basis for the Exceptional Stability of Bisaminoacylated Nucleotides and Transfer RNAs - Journal of the American Chemical Society.
Structural Insights into RNA Recognition by RIG-I. Structure of Long Human Telomeric RNA (TERRA): G-Quadruplexes Formed by Four and Eight UUAGGG Repeats Are Stable Building Blocks - Biochemistry. Superparamagnetic Nanoparticles: N-Alkyl-PEI-Functionalized Iron Oxide Nanoclusters for Efficient siRNA Delivery (Small 19/2011) - Liu - 2011 - Small. Synthesis, Properties, and Applications of Oligonucleotides Containing an RNA Dinucleotide Phosphorothiolate Linkage - Accounts of Chemical Research. Template-Directed RNA Polymerization: The Taming of the Milieu - Lehman - 2011 - ChemBioChem. The Molecular Interactions That Stabilize RNA Tertiary Structure: RNA Motifs, Patterns, and Networks - Accounts of Chemical Research. Theory of Nonrigid Rotational Motion Applied to NMR Relaxation in RNA - The Journal of Physical Chemistry A. Time-Resolved Events on the Reaction Pathway of Transcript Initiation by a Single-Subunit RNA Polymerase: Raman Crystallographic Evidence - Journal of the American Chemical Society.
Transgenerational Inheritance of an Acquired Small RNA-Based Antiviral Response in C. elegans. Ultrasensitive Aptamer-Based Multiplexed Electrochemical Detection by Coupling Distinguishable Signal Tags with Catalytic Recycling of DNase I - Analytical Chemistry. YY1 Tethers Xist RNA to the Inactive X Nucleation Center.