Correlated expression of retrocopies and parental genes in zebrafish

Dynamic Expression of Long Non-Coding RNAs (lncRNAs) in Adult Zebrafish

(2014) Kriti Kaushik et al.   PLoS One

Genome-wide identification, characterization, and expression analysis of lineage-specific genes within zebrafish

(2013) Liandong Yang et al.   BMC GENOMICS

Dvr1 transfers left–right asymmetric signals from Kupffer's vesicle to lateral plate mesoderm in zebrafish

(2013) Annita G. Peterson et al.   DEVELOPMENTAL BIOLOGY

A systematic genome-wide analysis of zebrafish protein-coding gene function

(2013) Ross N. W. Kettleborough et al.   NATURE

Phylogeny and tempo of diversification in the superradiation of spiny-rayed fishes

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

RSeQC: quality control of RNA-seq experiments

(2012) Liguo Wang et al.   BIOINFORMATICS

Incorporating RNA-seq data into the zebrafish Ensembl genebuild

(2012) J. E. Collins et al.   GENOME RESEARCH

Differential gene and transcript expression analysis of RNA-seq experiments with TopHat and Cufflinks

(2012) Cole Trapnell et al.   Nature Protocols

Genome Evolution and Meiotic Maps by Massively Parallel DNA Sequencing: Spotted Gar, an Outgroup for the Teleost Genome Duplication

(2011) Angel Amores et al.   GENETICS

Retrogenes in Rice (Oryza sativa L. ssp. japonica) Exhibit Correlated Expression with Their Source Genes

(2011) Hiroaki Sakai et al.   Genome Biology and Evolution

Systematic identification of long noncoding RNAs expressed during zebrafish embryogenesis

(2011) A. Pauli et al.   GENOME RESEARCH

Zebrafish mRNA sequencing deciphers novelties in transcriptome dynamics during maternal to zygotic transition

(2011) Håvard Aanes et al.   GENOME RESEARCH

Full-length transcriptome assembly from RNA-Seq data without a reference genome

(2011) Manfred G Grabherr et al.   NATURE BIOTECHNOLOGY

Evolutionary Patterns of RNA-Based Duplication in Non-Mammalian Chordates

(2011) Ming Chen et al.   PLoS One

TopHat-Fusion: an algorithm for discovery of novel fusion transcripts

(2011) Daehwan Kim et al.   GENOME BIOLOGY

The rapid generation of chimerical genes expanding protein diversity in zebrafish

(2010) Beide Fu et al.   BMC GENOMICS

Origin of a function by tandem gene duplication limits the evolutionary capability of its sister copy

(2010) M. Hasselmann et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

New Genes in Drosophila Quickly Become Essential

(2010) S. Chen et al.   SCIENCE

A Young Drosophila Duplicate Gene Plays Essential Roles in Spermatogenesis by Regulating Several Y-Linked Male Fertility Genes

(2010) Yun Ding et al.   PLoS Genetics

TopHat: discovering splice junctions with RNA-Seq

(2009) Cole Trapnell et al.   BIOINFORMATICS

Expression pattern divergence of duplicated genes in rice

(2009) Zhe Li et al.   BMC BIOINFORMATICS

The tight junction component Claudin E is required for zebrafish epiboly

(2009) Manal Siddiqui et al.   DEVELOPMENTAL DYNAMICS

Mutation of the bone morphogenetic protein GDF3 causes ocular and skeletal anomalies

(2009) M. Ye et al.   HUMAN MOLECULAR GENETICS

Before Maternal-Zygotic Transition … There Was Morphogenetic Function of Nuclei

(2009) Vladimir Korzh   Zebrafish

Evolutionary origin of regulatory regions of retrogenes in Drosophila

(2008) Yongsheng Bai et al.   BMC GENOMICS

Adaptive Evolution of the Insulin Two-Gene System in Mouse

(2008) M.-S. Shiao et al.   GENETICS

Retrotransposition as a Source of New Promoters

(2008) K. Okamura et al.   MOLECULAR BIOLOGY AND EVOLUTION

RNA-based gene duplication: mechanistic and evolutionary insights

(2008) Henrik Kaessmann et al.   NATURE REVIEWS GENETICS