Informatics for mass spectrometry-based RNA analysis

In-Gel Digestion for Mass Spectrometric Characterization of RNA from Fluorescently Stained Polyacrylamide Gels

(2010) Masato Taoka et al.   ANALYTICAL CHEMISTRY

The Centrality of RNA

(2009) Phillip A. Sharp   CELL

The Spliceosome: Design Principles of a Dynamic RNP Machine

(2009) Markus C. Wahl et al.   CELL

Selective stabilization of mammalian microRNAs by 3' adenylation mediated by the cytoplasmic poly(A) polymerase GLD-2

(2009) T. Katoh et al.   GENES & DEVELOPMENT

Direct RNA sequencing

(2009) Fatih Ozsolak et al.   NATURE

Identification of RNA molecules by specific enzyme digestion and mass spectrometry: software for and implementation of RNA mass mapping

(2009) Rune Matthiesen et al.   NUCLEIC ACIDS RESEARCH

An analytical platform for mass spectrometry-based identification and chemical analysis of RNA in ribonucleoprotein complexes

(2009) Masato Taoka et al.   NUCLEIC ACIDS RESEARCH

Ariadne: a database search engine for identification and chemical analysis of RNA using tandem mass spectrometry data

(2009) Hiroshi Nakayama et al.   NUCLEIC ACIDS RESEARCH

Collision-Induced Dissociation of Intact Duplex and Single-Stranded siRNA Anions

(2008) Teng-yi Huang et al.   ANALYTICAL CHEMISTRY

When good transcripts go bad: artifactual RT-PCR ‘splicing’ and genome analysis

(2008) Scott William Roy et al.   BIOESSAYS

Deciphering the assembly pathway of Sm-class U snRNPs

(2008) Nils Neuenkirchen et al.   FEBS LETTERS

Let Me Count the Ways: Mechanisms of Gene Regulation by miRNAs and siRNAs

(2008) Ligang Wu et al.   MOLECULAR CELL

Trans-splicing in C. elegans generates the negative RNAi regulator ERI-6/7

(2008) Sylvia E. J. Fischer et al.   NATURE

Stepwise chromatin remodelling by a cascade of transcription initiation of non-coding RNAs

(2008) Kouji Hirota et al.   NATURE

Induced ncRNAs allosterically modify RNA-binding proteins in cis to inhibit transcription

(2008) Xiangting Wang et al.   NATURE

tRNADB-CE: tRNA gene database curated manually by experts

(2008) Takashi Abe et al.   NUCLEIC ACIDS RESEARCH

NRED: a database of long noncoding RNA expression

(2008) Marcel E. Dinger et al.   NUCLEIC ACIDS RESEARCH

GtRNAdb: a database of transfer RNA genes detected in genomic sequence

(2008) P. P. Chan et al.   NUCLEIC ACIDS RESEARCH

tRNAdb 2009: compilation of tRNA sequences and tRNA genes

(2008) F. Juhling et al.   NUCLEIC ACIDS RESEARCH

MODOMICS: a database of RNA modification pathways. 2008 update

(2008) A. Czerwoniec et al.   NUCLEIC ACIDS RESEARCH

The Functional RNA Database 3.0: databases to support mining and annotation of functional RNAs

(2008) T. Mituyama et al.   NUCLEIC ACIDS RESEARCH

The Ribosomal Database Project: improved alignments and new tools for rRNA analysis

(2008) J. R. Cole et al.   NUCLEIC ACIDS RESEARCH