In silico selection of RNA aptamers (Q33451579)

26 July 2017

title

In silico selection of RNA aptamers (English)

1 reference

26 July 2017

1 reference

Yaroslav Chushak

1

1 reference

26 July 2017

Morley O Stone

series ordinal

2

1 reference

26 July 2017

language of work or name

English

0 references

publication date

21 May 2009

1 reference

26 July 2017

published in

Nucleic Acids Research

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26 July 2017

volume

37

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26 July 2017

issue

12

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26 July 2017

page(s)

e87

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Array-based evolution of DNA aptamers allows modelling of an explicit sequence-fitness landscape

26 July 2017

cites work

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2709588

DOVIS 2.0: an efficient and easy to use parallel virtual screening tool based on AutoDock 4.0.

21 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2709588

Massively parallel interrogation of aptamer sequence, structure and function

21 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2709588

Ab initio RNA folding by discrete molecular dynamics: from structure prediction to folding mechanisms

21 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2709588

21 June 2018

The Vienna RNA websuite

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2709588

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

21 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2709588

DOVIS: an implementation for high-throughput virtual screening using AutoDock

21 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2709588

Exploring the sequence space of a DNA aptamer using microarrays

21 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2709588

Automated de novo prediction of native-like RNA tertiary structures

21 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2709588

A semiempirical free energy force field with charge-based desolvation

21 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2709588

Fabrication and characterization of RNA aptamer microarrays for the study of protein-aptamer interactions with SPR imaging

21 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2709588

Codeine-binding RNA aptamers and rapid determination of their binding constants using a direct coupling surface plasmon resonance assay

21 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2709588

Aptamers Selected for Higher-Affinity Binding Are Not More Specific for the Target Ligand

21 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2709588

The Amber biomolecular simulation programs

21 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2709588

In vitro RNA random pools are not structurally diverse: a computational analysis

21 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2709588

Natural and engineered nucleic acids as tools to explore biology

21 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2709588

Informational complexity and functional activity of RNA structures

21 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2709588

Selection of the simplest RNA that binds isoleucine

21 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2709588

A review of protein-small molecule docking methods

21 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2709588

Structure, recognition and discrimination in RNA aptamer complexes with cofactors, amino acids, drugs and aminoglycoside antibiotics

21 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2709588

Molecular interactions and metal binding in the theophylline-binding core of an RNA aptamer

21 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2709588

Saccharide-RNA recognition in a complex formed between neomycin B and an RNA aptamer

21 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2709588

Structural origins of gentamicin antibiotic action

21 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2709588

An RNA aptamer to the xanthine/guanine base with a distinctive mode of purine recognition

21 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2709588

Accessing rare activities from random RNA sequences: the importance of the length of molecules in the starting pool

21 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2709588

Interlocking structural motifs mediate molecular discrimination by a theophylline-binding RNA

21 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2709588

An RNA motif that binds ATP

21 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2709588

Systematic evolution of ligands by exponential enrichment: RNA ligands to bacteriophage T4 DNA polymerase

21 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2709588

In vitro selection of RNA molecules that bind specific ligands

21 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2709588

Functional RNA microarrays for high-throughput screening of antiprotein aptamers

21 June 2018

1 reference

Crossref

https://api.crossref.org/works/10.1093/NAR/GKP408

Validation of automated docking programs for docking and database screening against RNA drug targets

21 January 2018

1 reference

Crossref

https://api.crossref.org/works/10.1093/NAR/GKP408

Screening for engineered neomycin riboswitches that control translation initiation.

21 January 2018

1 reference

Crossref

https://api.crossref.org/works/10.1093/NAR/GKP408

Nucleic Acid Selection and the Challenge of Combinatorial Chemistry

21 January 2018

1 reference

PubMed

https://pubmed.ncbi.nlm.nih.gov/19465396

inferred from PubMed ID database lookup

12 December 2020

based on heuristic

Theory and applications of the generalized Born solvation model in macromolecular simulations

1 reference

PubMed

https://pubmed.ncbi.nlm.nih.gov/19465396

inferred from PubMed ID database lookup

12 December 2020

based on heuristic

On the structural repertoire of pools of short, random RNA sequences

1 reference

PubMed

https://pubmed.ncbi.nlm.nih.gov/19465396

inferred from PubMed ID database lookup

12 December 2020

based on heuristic

Identifiers

DOI

10.1093/NAR/GKP408

1 reference

26 July 2017

1 reference

26 July 2017

1 reference