Identification of Rhythmically Expressed LncRNAs in the Zebrafish Pineal Gland and Testis

Computational Analysis Predicts Hundreds of Coding lncRNAs in Zebrafish

(2021) Shital Kumar Mishra et al.   Biology-Basel

When non-coding is not enough

(2020) Simone Anfossi et al.   JOURNAL OF EXPERIMENTAL MEDICINE

The micropeptide LEMP plays an evolutionarily conserved role in myogenesis

(2020) Lantian Wang et al.   Cell Death & Disease

Computational methods and applications for identifying disease-associated lncRNAs as potential biomarkers and therapeutic targets

(2020) Congcong Yan et al.   Molecular Therapy-Nucleic Acids

LncRNA Functions as a New Emerging Epigenetic Factor in Determining the Fate of Stem Cells

(2020) Jingcheng Chen et al.   Frontiers in Genetics

Poly(A)-seq: A method for direct sequencing and analysis of the transcriptomic poly(A)-tails

(2020) Fengyun Yu et al.   PLoS One

Emerging role of long noncoding RNA-encoded micropeptides in cancer

(2020) Mujie Ye et al.   Cancer Cell International

A novel mitochondrial micropeptide MPM enhances mitochondrial respiratory activity and promotes myogenic differentiation

(2019) Yi-Fang Lin et al.   Cell Death & Disease

Graph-based genome alignment and genotyping with HISAT2 and HISAT-genotype

(2019) Daehwan Kim et al.   NATURE BIOTECHNOLOGY

Molecular Interactions between Pathogens and the Circadian Clock

(2019) Sailen Barik   INTERNATIONAL JOURNAL OF MOLECULAR SCIENCES

JASPAR 2020: update of the open-access database of transcription factor binding profiles

(2019) Oriol Fornes et al.   NUCLEIC ACIDS RESEARCH

LncRNA-encoded polypeptide ASRPS inhibits triple-negative breast cancer angiogenesis

(2019) Yirong Wang et al.   JOURNAL OF EXPERIMENTAL MEDICINE

High-accuracy determination of internal circadian time from a single blood sample

(2018) Nicole Wittenbrink et al.   JOURNAL OF CLINICAL INVESTIGATION

Micropeptide

(2018) Maria E. Sousa et al.   PLoS Genetics

Points of Significance: Principal component analysis

(2017) Jake Lever et al.   NATURE METHODS

A class of circadian long non-coding RNAs mark enhancers modulating long-range circadian gene regulation

(2017) Zenghua Fan et al.   NUCLEIC ACIDS RESEARCH

The circadian clock regulates autophagy directly through the nuclear hormone receptor Nr1d1/Rev-erbα and indirectly via Cebpb/(C/ebpβ) in zebrafish

(2016) Guodong Huang et al.   Autophagy

MetaCycle: an integrated R package to evaluate periodicity in large scale data

(2016) Gang Wu et al.   BIOINFORMATICS

Long Noncoding RNAs

(2016) Reinier A. Boon et al.   JOURNAL OF THE AMERICAN COLLEGE OF CARDIOLOGY

HIPSTR and thousands of lncRNAs are heterogeneously expressed in human embryos, primordial germ cells and stable cell lines

(2016) Dinar Yunusov et al.   Scientific Reports

A Micropeptide Encoded by a Putative Long Noncoding RNA Regulates Muscle Performance

(2015) Douglas M. Anderson et al.   CELL

Computational identification of epigenetically regulated lncRNAs and their associated genes based on integrating genomic data

(2015) Tingting Zhao et al.   FEBS LETTERS

Timing in the Testis

(2015) Eric L. Bittman   JOURNAL OF BIOLOGICAL RHYTHMS

Identification of cancer-related lncRNAs through integrating genome, regulome and transcriptome features

(2015) Tingting Zhao et al.   Molecular BioSystems

A Long Noncoding RNA Perturbs the Circadian Rhythm of Hepatoma Cells to Facilitate Hepatocarcinogenesis

(2015) Ming Cui et al.   NEOPLASIA

Studying circadian rhythms in Drosophila melanogaster

(2014) Ozgur Tataroglu et al.   METHODS

Strengths and Limitations of Period Estimation Methods for Circadian Data

(2014) Tomasz Zielinski et al.   PLoS One

Functional Development of the Circadian Clock in the Zebrafish Pineal Gland

(2014) Zohar Ben-Moshe et al.   Biomed Research International

Regulatory long non-coding RNA and its functions

(2012) Yong Huang et al.   JOURNAL OF PHYSIOLOGY AND BIOCHEMISTRY

LncRNADisease: a database for long-non-coding RNA-associated diseases

(2012) Geng Chen et al.   NUCLEIC ACIDS RESEARCH

Circadian changes in long noncoding RNAs in the pineal gland

(2012) S. L. Coon et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Molecular Mechanisms and Function Prediction of Long Noncoding RNA

(2012) Handong Ma et al.   TheScientificWorldJOURNAL

Systematic Identification of Rhythmic Genes Reveals camk1gb as a New Element in the Circadian Clockwork

(2012) Adi Tovin et al.   PLoS Genetics

FIMO: scanning for occurrences of a given motif

(2011) Charles E. Grant et al.   BIOINFORMATICS

It's time to swim! Zebrafish and the circadian clock

(2011) Gad Vatine et al.   FEBS LETTERS

Integrative annotation of human large intergenic noncoding RNAs reveals global properties and specific subclasses

(2011) M. N. Cabili et al.   GENES & DEVELOPMENT

Circadian Control of Global Gene Expression Patterns

(2010) Colleen J. Doherty et al.   Annual Review of Genetics

Long Noncoding RNAs with Enhancer-like Function in Human Cells

(2010) Ulf Andersson Ørom et al.   CELL

RNA sequencing: advances, challenges and opportunities

(2010) Fatih Ozsolak et al.   NATURE REVIEWS GENETICS

Getting Started in Gene Orthology and Functional Analysis

(2010) Gang Fang et al.   PLoS Computational Biology

Large scale analysis of positional effects of single-base mismatches on microarray gene expression data

(2010) Fenghai Duan et al.   BioData Mining

bioDBnet: the biological database network

(2009) Uma Mudunuri et al.   BIOINFORMATICS

(PS)2-v2: template-based protein structure prediction server

(2009) Chih-Chieh Chen et al.   BMC BIOINFORMATICS

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

(2009) Mitchell Guttman et al.   NATURE

Systematic and integrative analysis of large gene lists using DAVID bioinformatics resources

(2009) Da Wei Huang et al.   Nature Protocols

High-throughput functional annotation and data mining with the Blast2GO suite

(2008) S. Gotz et al.   NUCLEIC ACIDS RESEARCH