Cargando…

Structural landscape of base pairs containing post-transcriptional modifications in RNA

Base pairs involving post-transcriptionally modified nucleobases are believed to play important roles in a wide variety of functional RNAs. Here we present our attempts toward understanding the structural and functional role of naturally occurring modified base pairs using a combination of X-ray cry...

Descripción completa

Detalles Bibliográficos
Autores principales:	Seelam, Preethi P., Sharma, Purshotam, Mitra, Abhijit
Formato:	Online Artículo Texto
Lenguaje:	English
Publicado:	Cold Spring Harbor Laboratory Press 2017
Materias:	Bioinformatics
Acceso en línea:	https://www.ncbi.nlm.nih.gov/pmc/articles/PMC5435857/ https://www.ncbi.nlm.nih.gov/pubmed/28341704 http://dx.doi.org/10.1261/rna.060749.117

Ejemplares similares

Pairing interactions between nucleobases and ligands in aptamer:ligand complexes of riboswitches: crystal structure analysis, classification, optimal structures, and accurate interaction energies
por: Seelam, Preethi P., et al.
Publicado: (2019)

Going beyond base-pairs: topology-based characterization of base-multiplets in RNA
por: Bhattacharya, Sohini, et al.
Publicado: (2019)

Structural Patterns and Stabilities of Hydrogen-Bonded Pairs Involving Ribonucleotide Bases and Arginine, Glutamic Acid, or Glutamine Residues of Proteins from Quantum Mechanical Calculations
por: Kagra, Deepika, et al.
Publicado: (2020)

Estimating Strengths of Individual Hydrogen Bonds in RNA Base Pairs: Toward a Consensus between Different Computational Approaches
por: Halder, Antarip, et al.
Publicado: (2019)

Genetic robustness of let-7 miRNA sequence–structure pairs
por: He, Qijun, et al.
Publicado: (2019)

Transcriptional landscape in rat intestines under hypobaric hypoxia
por: Tian, Liuyang, et al.
Publicado: (2021)

Direct identification of base-paired RNA nucleotides by correlated chemical probing
por: Krokhotin, Andrey, et al.
Publicado: (2017)

Predicting the immune landscape of invasive breast carcinoma based on the novel signature of immune‐related lncRNA
por: Shen, Shuang, et al.
Publicado: (2021)

Prediction of post-translational modification sites using multiple kernel support vector machine
por: Wang, BingHua, et al.
Publicado: (2017)

Transposable elements contribute to the spatiotemporal microRNA landscape in human brain development
por: Playfoot, Christopher J., et al.
Publicado: (2022)

Singularity Containers Improve Reproducibility and Ease of Use in Computational Image Analysis Workflows
por: Mitra-Behura, Shilpita, et al.
Publicado: (2022)

CiLiQuant: Quantification of RNA Junction Reads Based on Their Circular or Linear Transcript Origin
por: Morlion, Annelien, et al.
Publicado: (2022)

RNA structural motif recognition based on least-squares distance
por: Shen, Ying, et al.
Publicado: (2013)

Rational experiment design for sequencing-based RNA structure mapping
por: Aviran, Sharon, et al.
Publicado: (2014)

Modeling transcriptional activation changes to Gal4 variants via structure-based computational mutagenesis
por: Masso, Majid, et al.
Publicado: (2018)

A common class of transcripts with 5′-intron depletion, distinct early coding sequence features, and N(1)-methyladenosine modification
por: Cenik, Can, et al.
Publicado: (2017)

Accurate detection of chemical modifications in RNA by mutational profiling (MaP) with ShapeMapper 2
por: Busan, Steven, et al.
Publicado: (2018)

miRcorrNet: machine learning-based integration of miRNA and mRNA expression profiles, combined with feature grouping and ranking
por: Yousef, Malik, et al.
Publicado: (2021)

Immune-related miRNA signature identifies prognosis and immune landscape in head and neck squamous cell carcinomas
por: Ma, Bo, et al.
Publicado: (2020)

miRMOD: a tool for identification and analysis of 5′ and 3′ miRNA modifications in Next Generation Sequencing small RNA data
por: Kaushik, Abhinav, et al.
Publicado: (2015)

Post-transcriptional regulation of several biological processes involved in latex production in Hevea brasiliensis
por: Leclercq, Julie, et al.
Publicado: (2020)

bpRNA-align: improved RNA secondary structure global alignment for comparing and clustering RNA structures
por: Lasher, Brittany, et al.
Publicado: (2023)

Characterization of CRISPR RNA transcription by exploiting stranded metatranscriptomic data
por: Ye, Yuzhen, et al.
Publicado: (2016)

Direct RNA sequencing enables m(6)A detection in endogenous transcript isoforms at base-specific resolution
por: Lorenz, Daniel A., et al.
Publicado: (2020)

RNA-Puzzles Round II: assessment of RNA structure prediction programs applied to three large RNA structures
por: Miao, Zhichao, et al.
Publicado: (2015)

The mRNA landscape profiling reveals potential biomarkers associated with acute kidney injury AKI after kidney transplantation
por: Bi, Hui, et al.
Publicado: (2020)

Exploring the Microbiome Analysis and Visualization Landscape
por: Peeters, Jannes, et al.
Publicado: (2021)

Pathway-GPS and SIGORA: identifying relevant pathways based on the over-representation of their gene-pair signatures
por: Foroushani, Amir B.K., et al.
Publicado: (2013)

On the emergence of structural complexity in RNA replicators
por: Oliver, Carlos G., et al.
Publicado: (2019)

Posttranscriptional modifications at the 37th position in the anticodon stem–loop of tRNA: structural insights from MD simulations
por: Seelam Prabhakar, Preethi, et al.
Publicado: (2021)

Feature selection based on differentially correlated gene pairs reveals the mechanism of IFN-β therapy for multiple sclerosis
por: Jin, Tao, et al.
Publicado: (2020)

Study on the mechanism of Danshen-Guizhi drug pair in the treatment of ovarian cancer based on network pharmacology and in vitro experiment
por: Qin, Chongzhen, et al.
Publicado: (2022)

An extended genovo metagenomic assembler by incorporating paired-end information
por: , Afiahayati, et al.
Publicado: (2013)

RNAconTest: comparing tools for noncoding RNA multiple sequence alignment based on structural consistency
por: Wright, Erik S.
Publicado: (2020)

The DNA methylation landscape of five pediatric-tumor types
por: Parker, Alyssa C., et al.
Publicado: (2022)

Gene representation in scRNA-seq is correlated with common motifs at the 3′ end of transcripts
por: Li, Xinling, et al.
Publicado: (2023)

Identification of hub genes and transcription factor-miRNA-mRNA pathways in mice and human renal ischemia-reperfusion injury
por: Ke, Peng, et al.
Publicado: (2021)

Global RNA editome landscape discovers reduced RNA editing in glioma: loss of editing of gamma-amino butyric acid receptor alpha subunit 3 (GABRA3) favors glioma migration and invasion
por: Patil, Vikas, et al.
Publicado: (2020)

Characterization of bidirectional gene pairs in The Cancer Genome Atlas (TCGA) dataset
por: Tu, Juchuanli, et al.
Publicado: (2019)

Tumor immunity landscape in non-small cell lung cancer
por: Yu, Xiaoqing, et al.
Publicado: (2018)

Cannot write session to /tmp/vufind_sessions/sess_im3vqg2p9l353h73cj6juf4n97