Cargando…

Ularcirc: visualization and enhanced analysis of circular RNAs via back and canonical forward splicing

Circular RNAs (circRNA) are a unique class of transcripts that can only be identified from sequence alignments spanning discordant junctions, commonly referred to as backsplice junctions (BSJ). Canonical splicing is also linked with circRNA biogenesis either from the parental transcript or internal...

Descripción completa

Detalles Bibliográficos
Autores principales:	Humphreys, David T, Fossat, Nicolas, Demuth, Madeleine, Tam, Patrick P L, Ho, Joshua W K
Formato:	Online Artículo Texto
Lenguaje:	English
Publicado:	Oxford University Press 2019
Materias:	Methods Online
Acceso en línea:	https://www.ncbi.nlm.nih.gov/pmc/articles/PMC6846653/ https://www.ncbi.nlm.nih.gov/pubmed/31435647 http://dx.doi.org/10.1093/nar/gkz718

Ejemplares similares

Knockout of circRNAs by base editing back-splice sites of circularized exons
por: Gao, Xiang, et al.
Publicado: (2022)

Characterization of RNase R-digested cellular RNA source that consists of lariat and circular RNAs from pre-mRNA splicing
por: Suzuki, Hitoshi, et al.
Publicado: (2006)

Detection and visualization of differential splicing in RNA-Seq data with JunctionSeq
por: Hartley, Stephen W., et al.
Publicado: (2016)

Forward and robust selection of the most potent and noncellular toxic siRNAs from RNAi libraries
por: Li, Zhen, et al.
Publicado: (2009)

High-purity circular RNA isolation method (RPAD) reveals vast collection of intronic circRNAs
por: Panda, Amaresh C., et al.
Publicado: (2017)

NCLscan: accurate identification of non-co-linear transcripts (fusion, trans-splicing and circular RNA) with a good balance between sensitivity and precision
por: Chuang, Trees-Juen, et al.
Publicado: (2016)

Beyond Back Splicing, a Still Poorly Explored World: Non-Canonical Circular RNAs
por: Robic, Annie, et al.
Publicado: (2020)

Robust detection of alternative splicing in a population of single cells
por: Welch, Joshua D., et al.
Publicado: (2016)

SpliceTools, a suite of downstream RNA splicing analysis tools to investigate mechanisms and impact of alternative splicing
por: Flemington, Erik K, et al.
Publicado: (2023)

Human Splicing Finder: an online bioinformatics tool to predict splicing signals
por: Desmet, François-Olivier, et al.
Publicado: (2009)

Canonical correlation analysis for RNA-seq co-expression networks
por: Hong, Shengjun, et al.
Publicado: (2013)

Gene knockdown in malaria parasites via non-canonical RNAi
por: Hentzschel, Franziska, et al.
Publicado: (2020)

Circular permutation profiling by deep sequencing libraries created using transposon mutagenesis
por: Atkinson, Joshua T, et al.
Publicado: (2018)

MapSplice: Accurate mapping of RNA-seq reads for splice junction discovery
por: Wang, Kai, et al.
Publicado: (2010)

DiffSplice: the genome-wide detection of differential splicing events with RNA-seq
por: Hu, Yin, et al.
Publicado: (2013)

Comparison of circular RNA prediction tools
por: Hansen, Thomas B., et al.
Publicado: (2016)

Analysis of splicing patterns by pyrosequencing
por: Méreau, Agnès, et al.
Publicado: (2009)

Redirecting splicing with bifunctional oligonucleotides
por: Brosseau, Jean-Philippe, et al.
Publicado: (2014)

Establishment of an in vitro trans-splicing system in Trypanosoma brucei that requires endogenous spliced leader RNA
por: Shaked, Hadassa, et al.
Publicado: (2010)

UnSplicer: mapping spliced RNA-seq reads in compact genomes and filtering noisy splicing
por: Burns, Paul D., et al.
Publicado: (2014)

SplicePie: a novel analytical approach for the detection of alternative, non-sequential and recursive splicing
por: Pulyakhina, Irina, et al.
Publicado: (2015)

CircularSTAR3D: a stack-based RNA 3D structural alignment tool for circular matching
por: Chen, Xiaoli, et al.
Publicado: (2023)

A cell-based splicing reporter system to identify regulators of cis-splicing between adjacent genes
por: Chwalenia, Katarzyna, et al.
Publicado: (2019)

Effective and scalable single-cell data alignment with non-linear canonical correlation analysis
por: Hu, Jialu, et al.
Publicado: (2021)

EASI—enrichment of alternatively spliced isoforms
por: Venables, Julian P., et al.
Publicado: (2006)

Single molecule analysis of combinatorial splicing
por: Conze, Tim, et al.
Publicado: (2010)

SpliceNet: recovering splicing isoform-specific differential gene networks from RNA-Seq data of normal and diseased samples
por: Yalamanchili, Hari Krishna, et al.
Publicado: (2014)

Splice-Break: exploiting an RNA-seq splice junction algorithm to discover mitochondrial DNA deletion breakpoints and analyses of psychiatric disorders
por: Hjelm, Brooke E, et al.
Publicado: (2019)

Identification of permissive amber suppression sites for efficient non-canonical amino acid incorporation in mammalian cells
por: Bartoschek, Michael D, et al.
Publicado: (2021)

FineSplice, enhanced splice junction detection and quantification: a novel pipeline based on the assessment of diverse RNA-Seq alignment solutions
por: Gatto, Alberto, et al.
Publicado: (2014)

A transposase strategy for creating libraries of circularly permuted proteins
por: Mehta, Manan M., et al.
Publicado: (2012)

Circular RNA profile in gliomas revealed by identification tool UROBORUS
por: Song, Xiaofeng, et al.
Publicado: (2016)

CRISPR-C: circularization of genes and chromosome by CRISPR in human cells
por: Møller, Henrik Devitt, et al.
Publicado: (2018)

Stabilization of RNA hairpins using non-nucleotide linkers and circularization
por: Kiliszek, Agnieszka, et al.
Publicado: (2017)

psichomics: graphical application for alternative splicing quantification and analysis
por: Saraiva-Agostinho, Nuno, et al.
Publicado: (2019)

A molecular beacon assay for monitoring RNA splicing
por: Omran, Qusay Q, et al.
Publicado: (2022)

Diverse alternative back-splicing and alternative splicing landscape of circular RNAs
por: Zhang, Xiao-Ou, et al.
Publicado: (2016)

CRISPR/Cas9-mediated modulation of splicing efficiency reveals short splicing isoform of Xist RNA is sufficient to induce X-chromosome inactivation
por: Yue, Minghui, et al.
Publicado: (2018)

Designing small multiple-target artificial RNAs
por: De Guire, Vincent, et al.
Publicado: (2010)

Proximity extension of circular DNA aptamers with real-time protein detection
por: Di Giusto, Daniel A., et al.
Publicado: (2005)

Cannot write session to /tmp/vufind_sessions/sess_trh0dd6la64c99qc6ootvtvmc2