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The genetic robustness of RNA and protein from evolutionary, structural and functional perspectives
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What this work says
Outgoing claims: the papers this work cites, builds on, or argues with.
inferredcites →https://doi.org/10.1002/bip.360290621openalex-snapshot
The equilibrium partition function and base pair binding probabilities for RNA secondary structure
inferredcites →https://doi.org/10.1002/cphc.201900145openalex-snapshot
Effects of Pressure and pH on the Physical Stability of an I‐Motif DNA Structure
inferredcites →https://doi.org/10.1002/jcp.1030590302openalex-snapshot
Extraction, Purification and Properties of Aequorin, a Bioluminescent Protein from the Luminous Hydromedusan, Aequorea
inferredcites →https://doi.org/10.1007/bf00818163openalex-snapshot
Fast folding and comparison of RNA secondary structures
inferredcites →https://doi.org/10.1007/bf02103132openalex-snapshot
A quantitative measure of error minimization in the genetic code
inferredcites →https://doi.org/10.1007/s002390010104openalex-snapshot
RNA Folding Argues Against a Hot-Start Origin of Life
inferredcites →https://doi.org/10.1016/j.bpj.2012.01.047openalex-snapshot
A Comparison of Genotype-Phenotype Maps for RNA and Proteins
inferredcites →https://doi.org/10.1016/j.cell.2009.01.043openalex-snapshot
Regulatory RNAs in Bacteria
inferredcites →https://doi.org/10.1016/j.cell.2014.03.008openalex-snapshot
The Noncoding RNA Revolution—Trashing Old Rules to Forge New Ones
inferredcites →https://doi.org/10.1016/j.jmb.2007.03.069openalex-snapshot
The Stability Effects of Protein Mutations Appear to be Universally Distributed
inferredcites →https://doi.org/10.1016/j.tig.2010.06.002openalex-snapshot
Robustness and Evolvability
inferredcites →https://doi.org/10.1016/s1359-0278(97)00037-0openalex-snapshot
Neutral networks in protein space: a computational study based on knowledge-based potentials of mean force
inferredcites →https://doi.org/10.1021/bi00610a004openalex-snapshot
Chemical and physical properties of aequorin and the green fluorescent protein isolated from Aequorea forskalea
inferredcites →https://doi.org/10.1021/ja508478xopenalex-snapshot
Broccoli: Rapid Selection of an RNA Mimic of Green Fluorescent Protein by Fluorescence-Based Selection and Directed Evolution
inferredcites →https://doi.org/10.1038/246096a0openalex-snapshot
Slightly Deleterious Mutant Substitutions in Evolution
inferredcites →https://doi.org/10.1038/ismej.2017.69openalex-snapshot
Experimental evolution and the dynamics of adaptation and genome evolution in microbial populations
inferredcites →https://doi.org/10.1038/nature13127openalex-snapshot
Guidelines for investigating causality of sequence variants in human disease
inferredcites →https://doi.org/10.1038/ng1621openalex-snapshot
Real ribozymes suggest a relaxed error threshold
inferredcites →https://doi.org/10.1038/nmeth.3213openalex-snapshot
The I-TASSER Suite: protein structure and function prediction
inferredcites →https://doi.org/10.1038/nrg1204openalex-snapshot
The origin of new genes: glimpses from the young and old
inferredcites →https://doi.org/10.1038/nrg2164openalex-snapshot
Splicing in disease: disruption of the splicing code and the decoding machinery
inferredcites →https://doi.org/10.1038/srep02619openalex-snapshot
A comparative assessment and analysis of 20 representative sequence alignment methods for protein structure prediction
inferredcites →https://doi.org/10.1042/bst20160076openalex-snapshot
Selection platforms for directed evolution in synthetic biology
inferredcites →https://doi.org/10.1042/bst20180171openalex-snapshot
Transcriptional noise and exaptation as sources for bacterial sRNAs
inferredcites →https://doi.org/10.1073/pnas.0403255101openalex-snapshot
Protein tolerance to random amino acid change
inferredcites →https://doi.org/10.1073/pnas.0504070102openalex-snapshot
Why highly expressed proteins evolve slowly
inferredcites →https://doi.org/10.1073/pnas.0510098103openalex-snapshot
Protein stability promotes evolvability
inferredcites →https://doi.org/10.1073/pnas.89.22.10915openalex-snapshot
Amino acid substitution matrices from protein blocks.
inferredcites →https://doi.org/10.1073/pnas.96.17.9716openalex-snapshot
Neutral evolution of mutational robustness
inferredcites →https://doi.org/10.1093/bioinformatics/7.3.347openalex-snapshot
Inferring consensus structure from nucleic acid sequences
inferredcites →https://doi.org/10.1093/bioinformatics/btt509openalex-snapshot
Infernal 1.1: 100-fold faster RNA homology searches
inferredcites →https://doi.org/10.1093/bioinformatics/btw518openalex-snapshot
A profile-based method for identifying functional divergence of orthologous genes in bacterial genomes
inferredcites →https://doi.org/10.1093/molbev/msn240openalex-snapshot
An Analysis of Structural Influences on Selection in RNA Genes
inferredcites →https://doi.org/10.1093/molbev/msp063openalex-snapshot
Variation in the Ratio of Nucleotide Substitution and Indel Rates across Genomes in Mammals and Bacteria
inferredcites →https://doi.org/10.1093/nar/22.11.2079openalex-snapshot
RNA sequence analysis using covariance models
inferredcites →https://doi.org/10.1093/nar/gkf544openalex-snapshot
A comparison of profile hidden Markov model procedures for remote homology detection
inferredcites →https://doi.org/10.1093/nar/gkg297openalex-snapshot
A survey of small RNA-encoding genes in Escherichia coli
inferredcites →https://doi.org/10.1093/nar/gki517openalex-snapshot
Predicting the secondary structures and tertiary interactions of 211 group I introns in IE subgroup
inferredcites →https://doi.org/10.1093/nar/gkl315openalex-snapshot
PAL2NAL: robust conversion of protein sequence alignments into the corresponding codon alignments
inferredcites →https://doi.org/10.1093/nar/gkp011openalex-snapshot
Frequency and isostericity of RNA base pairs
inferredcites →https://doi.org/10.1093/nar/gkv1248openalex-snapshot
eggNOG 4.5: a hierarchical orthology framework with improved functional annotations for eukaryotic, prokaryotic and viral sequences
inferredcites →https://doi.org/10.1093/nar/gkv1344openalex-snapshot
The Pfam protein families database: towards a more sustainable future
inferredcites →https://doi.org/10.1093/nar/gkw413openalex-snapshot
tRNAscan-SE On-line: integrating search and context for analysis of transfer RNA genes
inferredcites →https://doi.org/10.1093/nar/gkx1038openalex-snapshot
Rfam 13.0: shifting to a genome-centric resource for non-coding RNA families
inferredcites →https://doi.org/10.1093/protein/12.2.85openalex-snapshot
Twilight zone of protein sequence alignments
inferredcites →https://doi.org/10.1098/rsif.2017.0275openalex-snapshot
Structural properties of genotype–phenotype maps
inferredcites →https://doi.org/10.1101/gr.5890907openalex-snapshot
Exploring genomic dark matter: A critical assessment of the performance of homology search methods on noncoding RNA
inferredcites →https://doi.org/10.1111/j.0014-3820.2003.tb00377.xopenalex-snapshot
PERSPECTIVE: EVOLUTION AND DETECTION OF GENETIC ROBUSTNESS
inferredcites →https://doi.org/10.1126/science.1068696openalex-snapshot
Evolutionary Rate in the Protein Interaction Network
inferredcites →https://doi.org/10.1126/science.153.3734.420openalex-snapshot
Genetic Code: Aspects of Organization
inferredcites →https://doi.org/10.1126/science.280.5368.1451openalex-snapshot
Continuity in Evolution: On the Nature of Transitions
inferredcites →https://doi.org/10.1126/science.aae0568openalex-snapshot
The fitness landscape of a tRNA gene
inferredcites →https://doi.org/10.1146/annurev-biophys-060414-033954openalex-snapshot
Structure and Mechanism of RNA Mimics of Green Fluorescent Protein
inferredcites →https://doi.org/10.1146/annurev.biochem.67.1.509openalex-snapshot
THE GREEN FLUORESCENT PROTEIN
inferredcites →https://doi.org/10.1186/1471-2148-8-231openalex-snapshot
Robustness promotes evolvability of thermotolerance in an RNA virus
inferredcites →https://doi.org/10.1186/1471-2164-13-s4-s6openalex-snapshot
Evaluating our ability to predict the structural disruption of RNA by SNPs
inferredcites →https://doi.org/10.1186/1745-6150-2-24openalex-snapshot
Evolution of the genetic code: partial optimization of a random code for robustness to translation error in a rugged fitness landscape
inferredcites →https://doi.org/10.1186/s12859-015-0548-6openalex-snapshot
MAESTRO - multi agent stability prediction upon point mutations
inferredcites →https://doi.org/10.1214/aoms/1177730491openalex-snapshot
On a Test of Whether one of Two Random Variables is Stochastically Larger than the Other
inferredcites →https://doi.org/10.1371/journal.pbio.0040428openalex-snapshot
Balancing Robustness and Evolvability
inferredcites →https://doi.org/10.1371/journal.pcbi.0030056openalex-snapshot
Query-Dependent Banding (QDB) for Faster RNA Similarity Searches
inferredcites →https://doi.org/10.1371/journal.pcbi.1002195openalex-snapshot
Accelerated Profile HMM Searches
inferredcites →https://doi.org/10.1371/journal.pcbi.1003907openalex-snapshot
Robust Identification of Noncoding RNA from Transcriptomes Requires Phylogenetically-Informed Sampling
inferredcites →https://doi.org/10.1371/journal.pcbi.1004773openalex-snapshot
Genetic Correlations Greatly Increase Mutational Robustness and Can Both Reduce and Enhance Evolvability
inferredcites →https://doi.org/10.1371/journal.pcbi.1005242openalex-snapshot
Alpha Helices Are More Robust to Mutations than Beta Strands
inferredcites →https://doi.org/10.1371/journal.pgen.1001074openalex-snapshot
Disease-Associated Mutations That Alter the RNA Structural Ensemble
inferredcites →https://doi.org/10.1371/journal.pgen.1003076openalex-snapshot
The Contributions of Wobbling and Superwobbling to the Reading of the Genetic Code
inferredcites →https://doi.org/10.1371/journal.pgen.1007333openalex-snapshot
Machine learning identifies signatures of host adaptation in the bacterial pathogen Salmonella enterica
inferredcites →https://doi.org/10.1515/9781400849383openalex-snapshot
Robustness and Evolvability in Living Systems
inferredcites →https://doi.org/10.2307/2412074openalex-snapshot
Atlas of Protein Sequence and Structure, 1966.
inferredcites →https://doi.org/10.7717/peerj.4825openalex-snapshot
On the efficiency of the genetic code after frameshift mutations
What points at this work
Incoming claims: where this work appears in other papers’ reference lists and arguments.
inferred← citeshttps://doi.org/10.1007/s00239-023-10122-3openalex-snapshot
Alternative Reading Frames are an Underappreciated Source of Protein Sequence Novelty
inferred← citeshttps://doi.org/10.1016/j.sbi.2020.11.010openalex-snapshot
Structure and function of naturally evolved de novo proteins
inferred← citeshttps://doi.org/10.1073/pnas.1911203117openalex-snapshot
Frameshifting preserves key physicochemical properties of proteins
inferred← citeshttps://doi.org/10.1098/rsif.2021.0380openalex-snapshot
Insertions and deletions in the RNA sequence–structure map
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