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Nucleic acid sequence design via efficient ensemble defect optimization.

Nucleic acid sequence design via efficient ensemble defect optimization.

http://www.wikidata.org/entity/Q34131851

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ViennaRNA Package 2.0 A weighted sampling algorithm for the design of RNA sequences with targeted secondary structure and nucleotide distribution A global sampling approach to designing and reengineering RNA secondary structures Frnakenstein: multiple target inverse RNA folding Biophysically inspired rational design of structured chimeric substrates for DNAzyme cascade engineering Discovery of Novel ncRNA Sequences in Multiple Genome Alignments on the Basis of Conserved and Stable Secondary Structures Fast, approximate kinetics of RNA folding Developments in the tools and methodologies of synthetic biology Complete RNA inverse folding: computational design of functional hammerhead ribozymes Using the fast fourier transform to accelerate the computational search for RNA conformational switches Next-generation in situ hybridization chain reaction: higher gain, lower cost, greater durability.In silico design and enzymatic synthesis of functional RNA nanoparticles.Identification of the determinants of tRNA function and susceptibility to rapid tRNA decay by high-throughput in vivo analysis.RNAiFold2T: Constraint Programming design of thermo-IRES switches.Multistrand RNA secondary structure prediction and nanostructure design including pseudoknots.RNAiFOLD: a constraint programming algorithm for RNA inverse folding and molecular design.RNAiFold: a web server for RNA inverse folding and molecular design.Conditional Dicer substrate formation via shape and sequence transduction with small conditional RNAs.RiboMaker: computational design of conformation-based riboregulation.RNAiFold 2.0: a web server and software to design custom and Rfam-based RNA molecules.antaRNA: ant colony-based RNA sequence design antaRNA--Multi-objective inverse folding of pseudoknot RNA using ant-colony optimization.ERD: a fast and reliable tool for RNA design including constraints.Multi-objective optimization for RNA design with multiple target secondary structures Statistical evaluation of improvement in RNA secondary structure prediction.Mutations Designed by Ensemble Defect to Misfold Conserved RNA Structures of Influenza A Segments 7 and 8 Affect Splicing and Attenuate Viral Replication in Cell Culture An Adaptive Defect Weighted Sampling Algorithm to Design Pseudoknotted RNA Secondary Structures RNAdualPF: software to compute the dual partition function with sample applications in molecular evolution theory.DyNAMiC Workbench: an integrated development environment for dynamic DNA nanotechnology.Programmable control of bacterial gene expression with the combined CRISPR and antisense RNA system.Using in-cell SHAPE-Seq and simulations to probe structure-function design principles of RNA transcriptional regulators.Using RNA inverse folding to identify IRES-like structural subdomains.Pattern transformation with DNA circuits.RNAblueprint: Flexible multiple target nucleic acid sequence design.Design of RNAs: comparing programs for inverse RNA folding.RNA Thermodynamic Structural Entropy.Programmable in situ amplification for multiplexed imaging of mRNA expression.Gener: a minimal programming module for chemical controllers based on DNA strand displacement Combinatorial displacement of DNA strands: application to matrix multiplication and weighted sums.Enzyme-free nucleic acid dynamical systems.

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P2860

Nucleic acid sequence design via efficient ensemble defect optimization.

http://www.wikidata.org/entity/Q34131851

description

2010 nî lūn-bûn

@nan

2010 թուականի Օգոստոսին հրատարակուած գիտական յօդուած

@hyw

2010 թվականի օգոստոսին հրատարակված գիտական հոդված

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2010年の論文

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2010年論文

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2010年論文

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2010年論文

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2010年論文

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2010年論文

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2010年论文

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name

Nucleic acid sequence design via efficient ensemble defect optimization.

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Nucleic acid sequence design via efficient ensemble defect optimization.

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Nucleic acid sequence design via efficient ensemble defect optimization.

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type

label

Nucleic acid sequence design via efficient ensemble defect optimization.

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Nucleic acid sequence design via efficient ensemble defect optimization.

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Nucleic acid sequence design via efficient ensemble defect optimization.

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prefLabel

Nucleic acid sequence design via efficient ensemble defect optimization.

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Nucleic acid sequence design via efficient ensemble defect optimization.

@en

Nucleic acid sequence design via efficient ensemble defect optimization.

@nl

P1433

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P1476

Nucleic acid sequence design via efficient ensemble defect optimization.

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P2093

Brian R Wolfe

http://www.w3.org/2001/XMLSchema#string

Joseph N Zadeh

http://www.w3.org/2001/XMLSchema#string

Niles A Pierce

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P2860

RNA secondary structure prediction by centroids in a Boltzmann weighted ensemble

Design of multistable RNA molecules

Using an RNA secondary structure partition function to determine confidence in base pairs predicted by free energy minimization

Partition function and base pairing probabilities of RNA heterodimers

Optimal computer folding of large RNA sequences using thermodynamics and auxiliary information

Paradigms for computational nucleic acid design

A statistical sampling algorithm for RNA secondary structure prediction

A unified view of polymer, dumbbell, and oligonucleotide DNA nearest-neighbor thermodynamics

Expanded sequence dependence of thermodynamic parameters improves prediction of RNA secondary structure

The thermodynamics of DNA structural motifs

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439-452

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10.1002/JCC.21633

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3

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32

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Niles A. Pierce

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