Cargando…

The multiMiR R package and database: integration of microRNA–target interactions along with their disease and drug associations

microRNAs (miRNAs) regulate expression by promoting degradation or repressing translation of target transcripts. miRNA target sites have been catalogued in databases based on experimental validation and computational prediction using various algorithms. Several online resources provide collections o...

Descripción completa

Detalles Bibliográficos
Autores principales:	Ru, Yuanbin, Kechris, Katerina J., Tabakoff, Boris, Hoffman, Paula, Radcliffe, Richard A., Bowler, Russell, Mahaffey, Spencer, Rossi, Simona, Calin, George A., Bemis, Lynne, Theodorescu, Dan
Formato:	Online Artículo Texto
Lenguaje:	English
Publicado:	Oxford University Press 2014
Materias:	Methods Online
Acceso en línea:	https://www.ncbi.nlm.nih.gov/pmc/articles/PMC4176155/ https://www.ncbi.nlm.nih.gov/pubmed/25063298 http://dx.doi.org/10.1093/nar/gku631

Ejemplares similares

R-chie: a web server and R package for visualizing RNA secondary structures
por: Lai, Daniel, et al.
Publicado: (2012)

r3Cseq: an R/Bioconductor package for the discovery of long-range genomic interactions from chromosome conformation capture and next-generation sequencing data
por: Thongjuea, Supat, et al.
Publicado: (2013)

TCGAbiolinks: an R/Bioconductor package for integrative analysis of TCGA data
por: Colaprico, Antonio, et al.
Publicado: (2016)

cola: an R/Bioconductor package for consensus partitioning through a general framework
por: Gu, Zuguang, et al.
Publicado: (2020)

R-chie: a web server and R package for visualizing cis and trans RNA–RNA, RNA–DNA and DNA–DNA interactions
por: Tsybulskyi, Volodymyr, et al.
Publicado: (2020)

Data quality aware analysis of differential expression in RNA-seq with NOISeq R/Bioc package
por: Tarazona, Sonia, et al.
Publicado: (2015)

The R package Rsubread is easier, faster, cheaper and better for alignment and quantification of RNA sequencing reads
por: Liao, Yang, et al.
Publicado: (2019)

spatzie: an R package for identifying significant transcription factor motif co-enrichment from enhancer–promoter interactions
por: Hammelman, Jennifer, et al.
Publicado: (2022)

POLYPHEMUS: R package for comparative analysis of RNA polymerase II ChIP-seq profiles by non-linear normalization
por: Mendoza-Parra, Marco A., et al.
Publicado: (2012)

DMRcaller: a versatile R/Bioconductor package for detection and visualization of differentially methylated regions in CpG and non-CpG contexts
por: Catoni, Marco, et al.
Publicado: (2018)

regentrans: a framework and R package for using genomics to study regional pathogen transmission
por: Hoffman, Sophie, et al.
Publicado: (2022)

Mapping the B-A conformational transition along plasmid DNA
por: Nejedlý, Karel, et al.
Publicado: (2005)

SubpathwayMiner: a software package for flexible identification of pathways
por: Li, Chunquan, et al.
Publicado: (2009)

HMMRATAC: a Hidden Markov ModeleR for ATAC-seq
por: Tarbell, Evan D, et al.
Publicado: (2019)

Optimized design of antisense oligomers for targeted rRNA depletion
por: Phelps, Wesley A, et al.
Publicado: (2020)

Along signal paths: an empirical gene set approach exploiting pathway topology
por: Martini, Paolo, et al.
Publicado: (2013)

Cell to cell transfer of the chromatin-packaged human β-globin gene cluster
por: Suzuki, Nobutaka, et al.
Publicado: (2010)

R-Coffee: a method for multiple alignment of non-coding RNA
por: Wilm, Andreas, et al.
Publicado: (2008)

Computational and molecular tools for scalable rAAV-mediated genome editing
por: Stoimenov, Ivaylo, et al.
Publicado: (2015)

TFregulomeR reveals transcription factors’ context-specific features and functions
por: Lin, Quy Xiao Xuan, et al.
Publicado: (2020)

Scalable and cost-effective ribonuclease-based rRNA depletion for transcriptomics
por: Huang, Yiming, et al.
Publicado: (2020)

Duplex-specific nuclease efficiently removes rRNA for prokaryotic RNA-seq
por: Yi, Hana, et al.
Publicado: (2011)

Sensitive and specific miRNA detection method using SplintR Ligase
por: Jin, Jingmin, et al.
Publicado: (2016)

PredictABEL: an R package for the assessment of risk prediction models
por: Kundu, Suman, et al.
Publicado: (2011)

Estimation of causal effect measures with the R-package stdReg
por: Sjölander, Arvid
Publicado: (2018)

RIPSeeker: a statistical package for identifying protein-associated transcripts from RIP-seq experiments
por: Li, Yue, et al.
Publicado: (2013)

ESPRIT: estimating species richness using large collections of 16S rRNA pyrosequences
por: Sun, Yijun, et al.
Publicado: (2009)

Synthetic spike-in standards for high-throughput 16S rRNA gene amplicon sequencing
por: Tourlousse, Dieter M., et al.
Publicado: (2017)

SingleCellSignalR: inference of intercellular networks from single-cell transcriptomics
por: Cabello-Aguilar, Simon, et al.
Publicado: (2020)

noisyR: enhancing biological signal in sequencing datasets by characterizing random technical noise
por: Moutsopoulos, Ilias, et al.
Publicado: (2021)

CYCLeR—a novel tool for the full isoform assembly and quantification of circRNAs
por: Stefanov, Stefan R, et al.
Publicado: (2022)

SCRAPT: an iterative algorithm for clustering large 16S rRNA gene data sets
por: Luan, Tu, et al.
Publicado: (2023)

Accurate taxonomy assignments from 16S rRNA sequences produced by highly parallel pyrosequencers
por: Liu, Zongzhi, et al.
Publicado: (2008)

rDNA-directed integration by an HIV-1 integrase—I-PpoI fusion protein
por: Schenkwein, Diana, et al.
Publicado: (2013)

FASTmiR: an RNA-based sensor for in vitro quantification and live-cell localization of small RNAs
por: Huang, Kun, et al.
Publicado: (2017)

NAguideR: performing and prioritizing missing value imputations for consistent bottom-up proteomic analyses
por: Wang, Shisheng, et al.
Publicado: (2020)

Isocratic HPLC analysis for the simultaneous determination of dNTPs, rNTPs and ADP in biological samples
por: Ranjbarian, Farahnaz, et al.
Publicado: (2021)

csaw: a Bioconductor package for differential binding analysis of ChIP-seq data using sliding windows
por: Lun, Aaron T.L., et al.
Publicado: (2016)

peakC: a flexible, non-parametric peak calling package for 4C and Capture-C data
por: Geeven, Geert, et al.
Publicado: (2018)

A single ChIP-seq dataset is sufficient for comprehensive analysis of motifs co-occurrence with MCOT package
por: Levitsky, Victor, et al.
Publicado: (2019)

Cannot write session to /tmp/vufind_sessions/sess_g4aflq27qar25mik29pfujgrqe