Cargando…

The discovery potential of RNA processing profiles

Small non-coding RNAs (sncRNAs) are highly abundant molecules that regulate essential cellular processes and are classified according to sequence and structure. Here we argue that read profiles from size-selected RNA sequencing capture the post-transcriptional processing specific to each RNA family,...

Descripción completa

Detalles Bibliográficos
Autores principales:	Pagès, Amadís, Dotu, Ivan, Pallarès-Albanell, Joan, Martí, Eulàlia, Guigó, Roderic, Eyras, Eduardo
Formato:	Online Artículo Texto
Lenguaje:	English
Publicado:	Oxford University Press 2018
Materias:	Methods Online
Acceso en línea:	https://www.ncbi.nlm.nih.gov/pmc/articles/PMC5814818/ https://www.ncbi.nlm.nih.gov/pubmed/29155959 http://dx.doi.org/10.1093/nar/gkx1115

Ejemplares similares

SeqBuster, a bioinformatic tool for the processing and analysis of small RNAs datasets, reveals ubiquitous miRNA modifications in human embryonic cells
por: Pantano, Lorena, et al.
Publicado: (2010)

SECISearch3 and Seblastian: new tools for prediction of SECIS elements and selenoproteins
por: Mariotti, Marco, et al.
Publicado: (2013)

Predictive Models of Gene Regulation from High-Throughput Epigenomics Data
por: Althammer, Sonja, et al.
Publicado: (2012)

A high-throughput approach to profile RNA structure
por: Delli Ponti, Riccardo, et al.
Publicado: (2017)

Use of ChIP-Seq data for the design of a multiple promoter-alignment method
por: Erb, Ionas, et al.
Publicado: (2012)

Detection and discovery of RNA modifications using microarrays
por: Hiley, Shawna L., et al.
Publicado: (2005)

Leveraging transcript quantification for fast computation of alternative splicing profiles
por: Alamancos, Gael P., et al.
Publicado: (2015)

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

Discovery and visualization of miRNA–mRNA functional modules within integrated data using bicluster analysis
por: Bryan, Kenneth, et al.
Publicado: (2014)

A semi-supervised approach uncovers thousands of intragenic enhancers differentially activated in human cells
por: González-Vallinas, Juan, et al.
Publicado: (2015)

Highly sensitive and specific microRNA expression profiling using BeadArray technology
por: Chen, Jing, et al.
Publicado: (2008)

Measuring mRNA translation in neuronal processes and somata by tRNA-FRET
por: Koltun, Bella, et al.
Publicado: (2020)

Experimental discovery of sRNAs in Vibrio cholerae by direct cloning, 5S/tRNA depletion and parallel sequencing
por: Liu, Jane M., et al.
Publicado: (2009)

MixMir: microRNA motif discovery from gene expression data using mixed linear models
por: Diao, Liyang, et al.
Publicado: (2014)

PAREsnip: a tool for rapid genome-wide discovery of small RNA/target interactions evidenced through degradome sequencing
por: Folkes, Leighton, et al.
Publicado: (2012)

Label-free high-throughput microRNA expression profiling from total RNA
por: Duan, Demin, et al.
Publicado: (2011)

Impact of probe annotation on the integration of miRNA–mRNA expression profiles for miRNA target detection
por: Sales, Gabriele, et al.
Publicado: (2010)

High resolution discovery of chromatin interactions
por: Guo, Yuchun, et al.
Publicado: (2019)

Modeling bias and variation in the stochastic processes of small RNA sequencing
por: Argyropoulos, Christos, et al.
Publicado: (2017)

Whole transcriptome profiling reveals the RNA content of motor axons
por: Briese, Michael, et al.
Publicado: (2016)

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

Barcode fusion genetics-protein-fragment complementation assay (BFG-PCA): tools and resources that expand the potential for binary protein interaction discovery
por: Evans-Yamamoto, Daniel, et al.
Publicado: (2022)

SNP discovery by mismatch-targeting of Mu transposition
por: Orsini, Luisa, et al.
Publicado: (2007)

MicroRNA expression profiling of single whole embryonic stem cells
por: Tang, Fuchou, et al.
Publicado: (2006)

ONE-seq: epitranscriptome and gene-specific profiling of NAD-capped RNA
por: Niu, Kongyan, et al.
Publicado: (2022)

Efficient and sensitive profiling of RNA–protein interactions using TLC-CLIP
por: Ernst, Christina, et al.
Publicado: (2023)

Wiring miRNAs to pathways: a topological approach to integrate miRNA and mRNA expression profiles
por: Calura, Enrica, et al.
Publicado: (2014)

An RNA tagging approach for system-wide RNA-binding proteome profiling and dynamics investigation upon transcription inhibition
por: Zhang, Zheng, et al.
Publicado: (2021)

A fast non-parametric test of association for multiple traits
por: Garrido-Martín, Diego, et al.
Publicado: (2023)

Identification of allele-specific alternative mRNA processing via transcriptome sequencing
por: Li, Gang, et al.
Publicado: (2012)

Interaction-based discovery of functionally important genes in cancers
por: Ghersi, Dario, et al.
Publicado: (2014)

Beegle: from literature mining to disease-gene discovery
por: ElShal, Sarah, et al.
Publicado: (2016)

Discovery of cancer common and specific driver gene sets
por: Zhang, Junhua, et al.
Publicado: (2017)

Mouse microRNA profiles determined with a new and sensitive cloning method
por: Takada, Shuji, et al.
Publicado: (2006)

Profiling small RNA reveals multimodal substructural signals in a Boltzmann ensemble
por: Rogers, Emily, et al.
Publicado: (2014)

Nucleotide resolution profiling of m(3)C RNA modification by HAC-seq
por: Cui, Jia, et al.
Publicado: (2020)

High-throughput stem-loop RT-qPCR miRNA expression profiling using minute amounts of input RNA
por: Mestdagh, Pieter, et al.
Publicado: (2008)

Attomole quantification and global profile of RNA modifications: Epitranscriptome of human neural stem cells
por: Basanta-Sanchez, Maria, et al.
Publicado: (2016)

Structure-seq2: sensitive and accurate genome-wide profiling of RNA structure in vivo
por: Ritchey, Laura E., et al.
Publicado: (2017)

Evolutionary computation for discovery of composite transcription factor binding sites
por: Fogel, Gary B., et al.
Publicado: (2008)

Cannot write session to /tmp/vufind_sessions/sess_ecparlsg8546qb2504orncnet4