RNA genome conservation and secondary structure in SARS-CoV-2 and SARS-related viruses (Q88979319)

https://api.crossref.org/v1/works/http://dx.doi.org/10.1101/2020.03.27.012906

27 May 2020

Ivan N. Zheludev

2

1 reference

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27 May 2020

Rhiju Das

3

1 reference

https://api.crossref.org/v1/works/http://dx.doi.org/10.1101/2020.03.27.012906

27 May 2020

3

Rhiju Das

1 reference

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12 June 2020

author name string

Ramya Rangan

1

1 reference

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12 June 2020

Ivan N Zheludev

2

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:32511306%20AND%20SRC:MED&resulttype=core&format=json

An 'elaborated' pseudoknot is required for high frequency frameshifting during translation of HCV 229E polymerase mRNA.

12 June 2020

language of work or name

English

0 references

publication date

29 March 2020

0 references

published in

bioRxiv

0 references

cites work

1 reference

https://pubmed.ncbi.nlm.nih.gov/32511306

12 December 2020

A common RNA motif in the 3' end of the genomes of astroviruses, avian infectious bronchitis virus and an equine rhinovirus

1 reference

https://pubmed.ncbi.nlm.nih.gov/32511306

12 December 2020

Clustering of highly homologous sequences to reduce the size of large protein databases

1 reference

https://pubmed.ncbi.nlm.nih.gov/32511306

12 December 2020

Characterization of the RNA components of a putative molecular switch in the 3' untranslated region of the murine coronavirus genome

1 reference

https://pubmed.ncbi.nlm.nih.gov/32511306

12 December 2020

MUSCLE: multiple sequence alignment with high accuracy and high throughput

1 reference

https://pubmed.ncbi.nlm.nih.gov/32511306

12 December 2020

Consensus folding of aligned sequences as a new measure for the detection of functional RNAs by comparative genomics

1 reference

https://pubmed.ncbi.nlm.nih.gov/32511306

12 December 2020

The structure of a rigorously conserved RNA element within the SARS virus genome

1 reference

https://pubmed.ncbi.nlm.nih.gov/32511306

12 December 2020

Discontinuous subgenomic RNA synthesis in arteriviruses is guided by an RNA hairpin structure located in the genomic leader region

1 reference

https://pubmed.ncbi.nlm.nih.gov/32511306

12 December 2020

Local RNA base pairing probabilities in large sequences.

1 reference

https://pubmed.ncbi.nlm.nih.gov/32511306

12 December 2020

CONTRAfold: RNA secondary structure prediction without physics-based models

1 reference

https://pubmed.ncbi.nlm.nih.gov/32511306

12 December 2020

A hypervariable region within the 3' cis-acting element of the murine coronavirus genome is nonessential for RNA synthesis but affects pathogenesis

1 reference

https://pubmed.ncbi.nlm.nih.gov/32511306

12 December 2020

A U-turn motif-containing stem-loop in the coronavirus 5' untranslated region plays a functional role in replication

1 reference

https://pubmed.ncbi.nlm.nih.gov/32511306

12 December 2020

Oligonucleotide antiviral therapeutics: antisense and RNA interference for highly pathogenic RNA viruses

1 reference

https://pubmed.ncbi.nlm.nih.gov/32511306

12 December 2020

Structural lability in stem-loop 1 drives a 5' UTR-3' UTR interaction in coronavirus replication.

1 reference

https://pubmed.ncbi.nlm.nih.gov/32511306

12 December 2020

The role of programmed-1 ribosomal frameshifting in coronavirus propagation

1 reference

https://pubmed.ncbi.nlm.nih.gov/32511306

12 December 2020

Biopython: freely available Python tools for computational molecular biology and bioinformatics

1 reference

https://pubmed.ncbi.nlm.nih.gov/32511306

12 December 2020

RNAz 2.0: improved noncoding RNA detection.

1 reference

https://pubmed.ncbi.nlm.nih.gov/32511306

12 December 2020

Group-specific structural features of the 5'-proximal sequences of coronavirus genomic RNAs

1 reference

https://pubmed.ncbi.nlm.nih.gov/32511306

12 December 2020

Prediction of RNA secondary structure by maximizing pseudo-expected accuracy

1 reference

https://pubmed.ncbi.nlm.nih.gov/32511306

12 December 2020

A conserved RNA pseudoknot in a putative molecular switch domain of the 3'-untranslated region of coronaviruses is only marginally stable.

1 reference

https://pubmed.ncbi.nlm.nih.gov/32511306

12 December 2020

Fast, scalable generation of high-quality protein multiple sequence alignments using Clustal Omega

1 reference

https://pubmed.ncbi.nlm.nih.gov/32511306

12 December 2020

Genetic evidence of a long-range RNA-RNA interaction between the genomic 5' untranslated region and the nonstructural protein 1 coding region in murine and bovine coronaviruses

1 reference

https://pubmed.ncbi.nlm.nih.gov/32511306

12 December 2020

Geneious Basic: an integrated and extendable desktop software platform for the organization and analysis of sequence data

1 reference

https://pubmed.ncbi.nlm.nih.gov/32511306

12 December 2020

Adding unaligned sequences into an existing alignment using MAFFT and LAST.

1 reference

https://pubmed.ncbi.nlm.nih.gov/32511306

12 December 2020

Infernal 1.1: 100-fold faster RNA homology searches

1 reference

https://pubmed.ncbi.nlm.nih.gov/32511306

12 December 2020

RNA structure analysis of alphacoronavirus terminal genome regions

1 reference

https://pubmed.ncbi.nlm.nih.gov/32511306

12 December 2020

SHAPE analysis of the RNA secondary structure of the Mouse Hepatitis Virus 5' untranslated region and N-terminal nsp1 coding sequences

1 reference

https://pubmed.ncbi.nlm.nih.gov/32511306

12 December 2020

Coronaviruses: an overview of their replication and pathogenesis.

1 reference

https://pubmed.ncbi.nlm.nih.gov/32511306

12 December 2020

The structure and functions of coronavirus genomic 3' and 5' ends

1 reference

https://pubmed.ncbi.nlm.nih.gov/32511306

12 December 2020

The Emerging Role of RNA as a Therapeutic Target for Small Molecules.

1 reference

https://pubmed.ncbi.nlm.nih.gov/32511306

12 December 2020

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

1 reference

https://pubmed.ncbi.nlm.nih.gov/32511306

12 December 2020

Rfam 13.0: shifting to a genome-centric resource for non-coding RNA families

1 reference

https://pubmed.ncbi.nlm.nih.gov/32511306

12 December 2020

Antisense Oligonucleotide Therapies for Neurodegenerative Diseases

1 reference

https://pubmed.ncbi.nlm.nih.gov/32511306

12 December 2020

Data, disease and diplomacy: GISAID's innovative contribution to global health

1 reference

https://pubmed.ncbi.nlm.nih.gov/32511306

12 December 2020

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

1 reference

https://pubmed.ncbi.nlm.nih.gov/32511306

12 December 2020

Genomic variance of the 2019-nCoV coronavirus

1 reference

https://pubmed.ncbi.nlm.nih.gov/32511306

12 December 2020

Estimating the power of sequence covariation for detecting conserved RNA structure

1 reference

https://pubmed.ncbi.nlm.nih.gov/32511306

12 December 2020

The species Severe acute respiratory syndrome-related coronavirus: classifying 2019-nCoV and naming it SARS-CoV-2

1 reference

https://pubmed.ncbi.nlm.nih.gov/32511306

12 December 2020

Identifiers

2 references

https://api.crossref.org/v1/works/http://dx.doi.org/10.1101/2020.03.27.012906

27 May 2020

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Dimensions Publication ID

12 June 2020

1125956839

1 reference

Dimensions COVID-19 publications, datasets and clinical trials

28 May 2020

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:32511306%20AND%20SRC:MED&resulttype=core&format=json