Identification of long non-coding RNAs in two anthozoan species and their possible implications for coral bleaching

Genome-wide analysis of long non-coding RNAs at early stage of skin pigmentation in goats (Capra hircus)

(2016) Hangxing Ren et al.   BMC GENOMICS

The Transcriptome of the ZoanthidProtopalythoa variabilis(Cnidaria, Anthozoa) Predicts a Basal Repertoire of Toxin-like and Venom-Auxiliary Polypeptides

(2016) Chen Huang et al.   Genome Biology and Evolution

Unique features of long non-coding RNA biogenesis and function

(2016) Jeffrey J. Quinn et al.   NATURE REVIEWS GENETICS

A peptide encoded by a transcript annotated as long noncoding RNA enhances SERCA activity in muscle

(2016) B. R. Nelson et al.   SCIENCE

RNA-Seq of the Caribbean reef-building coralOrbicella faveolata(Scleractinia-Merulinidae) under bleaching and disease stress expands models of coral innate immunity

(2016) David A. Anderson et al.   PeerJ

lncRNA-RNA Interactions across the Human Transcriptome

(2016) Michał Wojciech Szcześniak et al.   PLoS One

Growth of the tropical zoanthid Palythoa caribaeorum (Cnidaria: Anthozoa) on reefs in northeastern Brazil

(2015) JANINE F. SILVA et al.   ANAIS DA ACADEMIA BRASILEIRA DE CIENCIAS

Small RNAs — the secret agents in the plant–pathogen interactions

(2015) Arne Weiberg et al.   CURRENT OPINION IN PLANT BIOLOGY

Dynamic and Widespread lncRNA Expression in a Sponge and the Origin of Animal Complexity

(2015) Federico Gaiti et al.   MOLECULAR BIOLOGY AND EVOLUTION

The role of transcriptome resilience in resistance of corals to bleaching

(2015) Francois O. Seneca et al.   MOLECULAR ECOLOGY

The landscape of long noncoding RNAs in the human transcriptome

(2015) Matthew K Iyer et al.   NATURE GENETICS

Discovery and annotation of long noncoding RNAs

(2015) John S Mattick et al.   NATURE STRUCTURAL & MOLECULAR BIOLOGY

Identification of lncRNA-associated competing triplets reveals global patterns and prognostic markers for cancer

(2015) Peng Wang et al.   NUCLEIC ACIDS RESEARCH

Interaction of long noncoding RNAs and microRNAs in the pathogenesis of idiopathic pulmonary fibrosis

(2015) Chaoqun Huang et al.   PHYSIOLOGICAL GENOMICS

Discovery and annotation of long noncoding RNAs

(2015) John S Mattick et al.   NATURE STRUCTURAL & MOLECULAR BIOLOGY

Whole transcriptome analysis reveals changes in expression of immune-related genes during and after bleaching in a reef-building coral

(2015) J. H. Pinzon et al.   Royal Society Open Science

LongTarget: a tool to predict lncRNA DNA-binding motifs and binding sites via Hoogsteen base-pairing analysis

(2014) Sha He et al.   BIOINFORMATICS

PLEK: a tool for predicting long non-coding RNAs and messenger RNAs based on an improved k-mer scheme

(2014) Aimin Li et al.   BMC BIOINFORMATICS

Early transcriptional changes in the reef-building coral Acropora aspera in response to thermal and nutrient stress

(2014) Nedeljka Rosic et al.   BMC GENOMICS

RNA-RNA Interactions Enable Specific Targeting of Noncoding RNAs to Nascent Pre-mRNAs and Chromatin Sites

(2014) Jesse M. Engreitz et al.   CELL

LncRNA and mRNA interaction study based on transcriptome profiles reveals potential core genes in the pathogenesis of human glioblastoma multiforme

(2014) Yong Yan et al.   JOURNAL OF CANCER RESEARCH AND CLINICAL ONCOLOGY

Identification of mRNA-like non-coding RNAs and validation of a mighty one namedMARinPanax ginseng

(2014) Meizhen Wang et al.   Journal of Integrative Plant Biology

Genome-Wide Analysis of Long Noncoding RNA (lncRNA) Expression in Hepatoblastoma Tissues

(2014) Rui Dong et al.   PLoS One

Functional interactions among microRNAs and long noncoding RNAs

(2014) Je-Hyun Yoon et al.   SEMINARS IN CELL & DEVELOPMENTAL BIOLOGY

Rethinking the role of immunity: lessons from Hydra

(2014) Thomas C.G. Bosch   TRENDS IN IMMUNOLOGY

KEGG orthology-based annotation of the predicted proteome of Acropora digitifera: ZoophyteBase - an open access and searchable database of a coral genome

(2013) Walter C Dunlap et al.   BMC GENOMICS

lincRNAs: Genomics, Evolution, and Mechanisms

(2013) Igor Ulitsky et al.   CELL

Long Noncoding RNAs: Past, Present, and Future

(2013) J. T. Y. Kung et al.   GENETICS

De novo transcript sequence reconstruction from RNA-seq using the Trinity platform for reference generation and analysis

(2013) Brian J Haas et al.   Nature Protocols

Long non-coding RNAs: new players in cell differentiation and development

(2013) Alessandro Fatica et al.   NATURE REVIEWS GENETICS

Pfam: the protein families database

(2013) Robert D. Finn et al.   NUCLEIC ACIDS RESEARCH

NONCODEv4: exploring the world of long non-coding RNA genes

(2013) Chaoyong Xie et al.   NUCLEIC ACIDS RESEARCH

Genomic basis for coral resilience to climate change

(2013) Daniel J. Barshis et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Long noncoding RNAs: fresh perspectives into the RNA world

(2013) Lin Yang et al.   TRENDS IN BIOCHEMICAL SCIENCES

Posttranscriptional Gene Regulation by Long Noncoding RNA

(2012) Je-Hyun Yoon et al.   JOURNAL OF MOLECULAR BIOLOGY

LincRNA-p21 Suppresses Target mRNA Translation

(2012) Je-Hyun Yoon et al.   MOLECULAR CELL

Conserved Function of lincRNAs in Vertebrate Embryonic Development despite Rapid Sequence Evolution

(2011) Igor Ulitsky et al.   CELL

Molecular Mechanisms of Long Noncoding RNAs

(2011) Kevin C. Wang et al.   MOLECULAR CELL

lncRNAs transactivate STAU1-mediated mRNA decay by duplexing with 3′ UTRs via Alu elements

(2011) Chenguang Gong et al.   NATURE

SignalP 4.0: discriminating signal peptides from transmembrane regions

(2011) Thomas Nordahl Petersen et al.   NATURE METHODS

iPath2.0: interactive pathway explorer

(2011) Takuji Yamada et al.   NUCLEIC ACIDS RESEARCH

Fast and accurate long-read alignment with Burrows–Wheeler transform

(2010) Heng Li et al.   BIOINFORMATICS

BEDTools: a flexible suite of utilities for comparing genomic features

(2010) Aaron R. Quinlan et al.   BIOINFORMATICS

Accurate quantification of transcriptome from RNA-Seq data by effective length normalization

(2010) Soohyun Lee et al.   NUCLEIC ACIDS RESEARCH

The Sequence Alignment/Map format and SAMtools

(2009) H. Li et al.   BIOINFORMATICS

Fast and accurate short read alignment with Burrows-Wheeler transform

(2009) H. Li et al.   BIOINFORMATICS

Evolution and Functions of Long Noncoding RNAs

(2009) Chris P. Ponting et al.   CELL

Chromatin signature reveals over a thousand highly conserved large non-coding RNAs in mammals

(2009) Mitchell Guttman et al.   NATURE

STING-ing the Antiviral Pathway

(2009) P. Nakhaei et al.   Journal of Molecular Cell Biology

RNAplex: a fast tool for RNA–RNA interaction search

(2008) Hakim Tafer et al.   BIOINFORMATICS

Long intronic noncoding RNA transcription: Expression noise or expression choice?

(2008) Rodrigo Louro et al.   GENOMICS