SnoRNA copy regulation affects family size, genomic location and family abundance levels

A guide to naming human non‐coding RNA genes

(2020) Ruth L Seal et al.   EMBO JOURNAL

Small nucleolar RNAs: continuing identification of novel members and increasing diversity of their molecular mechanisms of action

(2020) Danny Bergeron et al.   BIOCHEMICAL SOCIETY TRANSACTIONS

SNORA71B promotes breast cancer cells across blood–brain barrier by inducing epithelial-mesenchymal transition

(2020) Sijia Duan et al.   Breast Cancer

HydraPsiSeq: a method for systematic and quantitative mapping of pseudouridines in RNA

(2020) Virginie Marchand et al.   NUCLEIC ACIDS RESEARCH

A mouse tissue atlas of small noncoding RNA

(2020) Alina Isakova et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Rfam 14: expanded coverage of metagenomic, viral and microRNA families

(2020) Ioanna Kalvari et al.   NUCLEIC ACIDS RESEARCH

Diurnal rhythms across the human dorsal and ventral striatum

(2020) Kyle D. Ketchesin et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

The cellular landscape of mid-size noncoding RNA

(2019) Vincent Boivin et al.   Wiley Interdisciplinary Reviews-RNA

CoCo: RNA-seq read assignment correction for nested genes and multimapped reads

(2019) Gabrielle Deschamps-Francoeur et al.   BIOINFORMATICS

Improved TGIRT-seq methods for comprehensive transcriptome profiling with decreased adapter dimer formation and bias correction

(2019) Hengyi Xu et al.   Scientific Reports

snoDB: an interactive database of human snoRNA sequences, abundance and interactions

(2019) Philia Bouchard-Bourelle et al.   NUCLEIC ACIDS RESEARCH

Functional diversity of small nucleolar RNAs

(2019) Tomaž Bratkovič et al.   NUCLEIC ACIDS RESEARCH

Distribution of ncRNAs expression across hypothalamic-pituitary-gonadal axis in Capra hircus

(2018) Emanuele Capra et al.   BMC GENOMICS

An Evaluation of Function of Multicopy Noncoding RNAs in Mammals Using ENCODE/FANTOM Data and Comparative Genomics

(2018) Marc P Hoeppner et al.   MOLECULAR BIOLOGY AND EVOLUTION

Simultaneous sequencing of coding and noncoding RNA reveals a human transcriptome dominated by a small number of highly expressed noncoding genes

(2018) Vincent Boivin et al.   RNA

Protein coding genes as hosts for noncoding RNA expression

(2018) Vincent Boivin et al.   SEMINARS IN CELL & DEVELOPMENTAL BIOLOGY

Identification of sites of 2′-O-methylation vulnerability in human ribosomal RNAs by systematic mapping

(2017) Sunny Sharma et al.   Scientific Reports

Phylogenetic distribution of plant snoRNA families

(2016) Deblina Patra Bhattacharya et al.   BMC GENOMICS

High-throughput identification of C/D box snoRNA targets with CLIP and RiboMeth-seq

(2016) Rafal Gumienny et al.   NUCLEIC ACIDS RESEARCH

Profiling of 2′-O-Me in human rRNA reveals a subset of fractionally modified positions and provides evidence for ribosome heterogeneity

(2016) Nicolai Krogh et al.   NUCLEIC ACIDS RESEARCH

RNA-seq of human reference RNA samples using a thermostable group II intron reverse transcriptase

(2016) Ryan M. Nottingham et al.   RNA

Tissue- and Time-Specific Expression of Otherwise Identical tRNA Genes

(2016) Dror Sagi et al.   PLoS Genetics

Hydroxylated histidine of human ribosomal protein uL2 is involved in maintaining the local structure of 28S rRNA in the ribosomal peptidyl transferase center

(2015) Darya D. Yanshina et al.   FEBS Journal

U6 snRNA Pseudogenes: Markers of Retrotransposition Dynamics in Mammals

(2015) Aurélien J. Doucet et al.   MOLECULAR BIOLOGY AND EVOLUTION

A 3′ Poly(A) Tract Is Required for LINE-1 Retrotransposition

(2015) Aurélien J. Doucet et al.   MOLECULAR CELL

High-throughput sequencing of human plasma RNA by using thermostable group II intron reverse transcriptases

(2015) Yidan Qin et al.   RNA

The emerging landscape of small nucleolar RNAs in cell biology

(2015) Fabien Dupuis-Sandoval et al.   Wiley Interdisciplinary Reviews-RNA

Trimmomatic: a flexible trimmer for Illumina sequence data

(2014) Anthony M. Bolger et al.   BIOINFORMATICS

Human nonsense-mediated RNA decay initiates widely by endonucleolysis and targets snoRNA host genes

(2014) Søren Lykke-Andersen et al.   GENES & DEVELOPMENT

Identification of discrete classes of small nucleolar RNA featuring different ends and RNA binding protein dependency

(2014) Gabrielle Deschamps-Francoeur et al.   NUCLEIC ACIDS RESEARCH

Developmental Analysis of Spliceosomal snRNA Isoform Expression

(2014) Zhipeng Lu et al.   G3-Genes Genomes Genetics

Matching of Soulmates: Coevolution of snoRNAs and Their Targets

(2013) S. Kehr et al.   MOLECULAR BIOLOGY AND EVOLUTION

Snakemake--a scalable bioinformatics workflow engine

(2012) J. Koster et al.   BIOINFORMATICS

Comparative genomics of eukaryotic small nucleolar RNAs reveals deep evolutionary ancestry amidst ongoing intragenomic mobility

(2012) Marc P Hoeppner et al.   BMC EVOLUTIONARY BIOLOGY

Differentially expressed, variant U1 snRNAs regulate gene expression in human cells

(2012) D. O'Reilly et al.   GENOME RESEARCH

Maturation of mammalian H/ACA box snoRNAs: PAPD5-dependent adenylation and PARN-dependent trimming

(2012) H. Berndt et al.   RNA

From snoRNA to miRNA: Dual function regulatory non-coding RNAs

(2011) Michelle S. Scott et al.   BIOCHIMIE

BEDTools: a flexible suite of utilities for comparing genomic features

(2010) Aaron R. Quinlan et al.   BIOINFORMATICS

Systematic identification and evolutionary features of rhesus monkey small nucleolar RNAs

(2010) Yong Zhang et al.   BMC GENOMICS

The Sequence Alignment/Map format and SAMtools

(2009) H. Li et al.   BIOINFORMATICS

Biopython: freely available Python tools for computational molecular biology and bioinformatics

(2009) P. J. A. Cock et al.   BIOINFORMATICS

Genome-wide analysis of chicken snoRNAs provides unique implications for the evolution of vertebrate snoRNAs

(2009) Peng Shao et al.   BMC GENOMICS

Eukaryotic snoRNAs: A paradigm for gene expression flexibility

(2009) Giorgio Dieci et al.   GENOMICS

Retroposed SNOfall--A mammalian-wide comparison of platypus snoRNAs

(2008) J. Schmitz et al.   GENOME RESEARCH