Genome sequence and genetic diversity of the common carp, Cyprinus carpio

The zebrafish reference genome sequence and its relationship to the human genome

(2013) Kerstin Howe et al.   NATURE

SLAF-seq: An Efficient Method of Large-Scale De Novo SNP Discovery and Genotyping Using High-Throughput Sequencing

(2013) Xiaowen Sun et al.   PLoS One

Transcriptome analysis reveals the time of the fourth round of genome duplication in common carp (Cyprinus carpio)

(2012) Jin-Tu Wang et al.   BMC GENOMICS

High Throughput Mining and Characterization of Microsatellites from Common Carp Genome

(2012) Peifeng Ji et al.   INTERNATIONAL JOURNAL OF MOLECULAR SCIENCES

A Consensus Linkage Map Provides Insights on Genome Character and Evolution in Common Carp (Cyprinus carpio L.)

(2012) Xiaofeng Zhang et al.   MARINE BIOTECHNOLOGY

The genomic basis of adaptive evolution in threespine sticklebacks

(2012) Felicity C. Jones et al.   NATURE

Fast gapped-read alignment with Bowtie 2

(2012) Ben Langmead et al.   NATURE METHODS

Ensembl 2013

(2012) Paul Flicek et al.   NUCLEIC ACIDS RESEARCH

MCScanX: a toolkit for detection and evolutionary analysis of gene synteny and collinearity

(2012) Y. Wang et al.   NUCLEIC ACIDS RESEARCH

Characterization of Common Carp Transcriptome: Sequencing, De Novo Assembly, Annotation and Comparative Genomics

(2012) Peifeng Ji et al.   PLoS One

Genome-Wide SNP Discovery from Transcriptome of Four Common Carp Strains

(2012) Jian Xu et al.   PLoS One

Comparison of the Exomes of Common Carp (Cyprinus carpio) and Zebrafish (Danio rerio)

(2012) Christiaan V. Henkel et al.   Zebrafish

RSEM: accurate transcript quantification from RNA-Seq data with or without a reference genome

(2011) Bo Li et al.   BMC BIOINFORMATICS

Genomic insight into the common carp (Cyprinus carpio) genome by sequencing analysis of BAC-end sequences

(2011) Peng Xu et al.   BMC GENOMICS

MEGA5: Molecular Evolutionary Genetics Analysis Using Maximum Likelihood, Evolutionary Distance, and Maximum Parsimony Methods

(2011) K. Tamura et al.   MOLECULAR BIOLOGY AND EVOLUTION

A genetic linkage map and comparative genome analysis of common carp (Cyprinus carpio L.) using microsatellites and SNPs

(2011) Xianhu Zheng et al.   MOLECULAR GENETICS AND GENOMICS

Construction and Characterization of the BAC Library for Common Carp Cyprinus Carpio L. And Establishment of Microsynteny with Zebrafish Danio Rerio

(2010) Yan Li et al.   MARINE BIOTECHNOLOGY

Genetic Linkage Mapping and Analysis of Muscle Fiber-Related QTLs in Common Carp (Cyprinus carpio L.)

(2010) Yan Zhang et al.   MARINE BIOTECHNOLOGY

Transcript assembly and quantification by RNA-Seq reveals unannotated transcripts and isoform switching during cell differentiation

(2010) Cole Trapnell et al.   NATURE BIOTECHNOLOGY

Aquaculture: global status and trends

(2010) J. Bostock et al.   PHILOSOPHICAL TRANSACTIONS OF THE ROYAL SOCIETY B-BIOLOGICAL SCIENCES

Human hair melanins: what we have learned and have not learned from mouse coat color pigmentation

(2010) Shosuke Ito et al.   Pigment Cell & Melanoma Research

TopHat: discovering splice junctions with RNA-Seq

(2009) Cole Trapnell et al.   BIOINFORMATICS

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

edgeR: a Bioconductor package for differential expression analysis of digital gene expression data

(2009) M. D. Robinson et al.   BIOINFORMATICS

Did genome duplication drive the origin of teleosts? A comparative study of diversification in ray-finned fishes

(2009) Francesco Santini et al.   BMC EVOLUTIONARY BIOLOGY

Duplication of fgfr1 Permits Fgf Signaling to Serve as a Target for Selection during Domestication

(2009) Nicolas Rohner et al.   CURRENT BIOLOGY

De novo assembly of human genomes with massively parallel short read sequencing

(2009) R. Li et al.   GENOME RESEARCH

Circos: An information aesthetic for comparative genomics

(2009) M. Krzywinski et al.   GENOME RESEARCH

Aggressive assembly of pyrosequencing reads with mates

(2008) Jason R. Miller et al.   BIOINFORMATICS

Genomic resources and microarrays for the common carp Cyprinus carpio L.

(2008) D. R. Williams et al.   JOURNAL OF FISH BIOLOGY

Genome evolution trend of common carp (Cyprinus carpio L.) as revealed by the analysis of microsatellite loci in a gynogentic family

(2008) Yan Zhang et al.   Journal of Genetics and Genomics

Differential Evolution of the 13 Atlantic Salmon Hox Clusters

(2008) S. Mungpakdee et al.   MOLECULAR BIOLOGY AND EVOLUTION

Automated eukaryotic gene structure annotation using EVidenceModeler and the Program to Assemble Spliced Alignments

(2008) Brian J Haas et al.   GENOME BIOLOGY