The channel catfish genome sequence provides insights into the evolution of scale formation in teleosts

BMP and RA signaling cooperate to regulate Apolipoprotein C1 expression during embryonic development

(2015) Yang Wang et al.   GENE

Construction of a high-density, high-resolution genetic map and its integration with BAC-based physical map in channel catfish

(2014) Y. Li et al.   DNA RESEARCH

The genome ofCallorhinchusand the fossil record: a new perspective on SCPP gene evolution in gnathostomes

(2014) Bettina Ryll et al.   EVOLUTION & DEVELOPMENT

Elephant shark genome provides unique insights into gnathostome evolution

(2014) Byrappa Venkatesh et al.   NATURE

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

(2014) Peng Xu et al.   NATURE GENETICS

Whole-genome sequence of a flatfish provides insights into ZW sex chromosome evolution and adaptation to a benthic lifestyle

(2014) Songlin Chen et al.   NATURE GENETICS

Identification and Analysis of Genome-Wide SNPs Provide Insight into Signatures of Selection and Domestication in Channel Catfish (Ictalurus punctatus)

(2014) Luyang Sun et al.   PLoS One

Genomic and Phenotypic Characterization of a Wild Medaka Population: Towards the Establishment of an Isogenic Population Genetic Resource in Fish

(2014) Mikhail Spivakov et al.   G3-Genes Genomes Genetics

The MaSuRCA genome assembler

(2013) Aleksey V. Zimin et al.   BIOINFORMATICS

L_RNA_scaffolder: scaffolding genomes with transcripts

(2013) Wei Xue et al.   BMC GENOMICS

SCPP genes in the coelacanth: Tissue mineralization genes shared by sarcopterygians

(2013) Kazuhiko Kawasaki et al.   JOURNAL OF EXPERIMENTAL ZOOLOGY PART B-MOLECULAR AND DEVELOPMENTAL EVOLUTION

Molecular phylogeny of thorny catfishes (Siluriformes: Doradidae)

(2013) Mariangeles Arce H. et al.   MOLECULAR PHYLOGENETICS AND EVOLUTION

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

(2013) Kerstin Howe et al.   NATURE

Reducing assembly complexity of microbial genomes with single-molecule sequencing

(2013) Sergey Koren et al.   GENOME BIOLOGY

STAR: ultrafast universal RNA-seq aligner

(2012) Alexander Dobin et al.   BIOINFORMATICS

Efficient assembly and annotation of the transcriptome of catfish by RNA-Seq analysis of a doubled haploid homozygote

(2012) Shikai Liu et al.   BMC GENOMICS

Transcriptomic signatures of attachment, NF-κB suppression and IFN stimulation in the catfish gill following columnaris bacterial infection

(2012) Fanyue Sun et al.   DEVELOPMENTAL AND COMPARATIVE IMMUNOLOGY

GSP-37, a novel goldfish scale matrix protein: identification, localization and functional analysis

(2012) Kousei Miyabe et al.   FARADAY DISCUSSIONS

RNA-seq analysis of mucosal immune responses reveals signatures of intestinal barrier disruption and pathogen entry following Edwardsiella ictaluri infection in channel catfish, Ictalurus punctatus

(2012) Chao Li et al.   FISH & SHELLFISH IMMUNOLOGY

Genomic and functional characterization of the diverse immunoglobulin domain-containing protein (DICP) family

(2012) Robert N. Haire et al.   GENOMICS

The genomic basis of adaptive evolution in threespine sticklebacks

(2012) Felicity C. Jones et al.   NATURE

Hybrid error correction and de novo assembly of single-molecule sequencing reads

(2012) Sergey Koren et al.   NATURE BIOTECHNOLOGY

Where did bone come from?

(2011) Darja Obradovic Wagner et al.   Acta Orthopaedica

A fast, lock-free approach for efficient parallel counting of occurrences of k-mers

(2011) Guillaume Marçais et al.   BIOINFORMATICS

Ultra-fast sequence clustering from similarity networks with SiLiX

(2011) Vincent Miele et al.   BMC BIOINFORMATICS

Skin healing and scale regeneration in fed and unfed sea bream, Sparus auratus

(2011) Florbela A Vieira et al.   BMC GENOMICS

Generation of genome-scale gene-associated SNPs in catfish for the construction of a high-density SNP array

(2011) Shikai Liu et al.   BMC GENOMICS

The SCPP Gene Family and the Complexity of Hard Tissues in Vertebrates

(2011) Kazuhiko Kawasaki   CELLS TISSUES ORGANS

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

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

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

Inference of human population history from individual whole-genome sequences

(2011) Heng Li et al.   NATURE

The genome sequence of Atlantic cod reveals a unique immune system

(2011) Bastiaan Star et al.   NATURE

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

(2011) Manfred G Grabherr et al.   NATURE BIOTECHNOLOGY

Assembly of 500,000 inter-specific catfish expressed sequence tags and large scale gene-associated marker development for whole genome association studies

(2010) Shaolin Wang et al.   GENOME BIOLOGY

Comparative analysis of catfish BAC end sequences with the zebrafish genome

(2009) Hong Liu et al.   BMC GENOMICS

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

(2009) Nicolas Rohner et al.   CURRENT BIOLOGY

The SCPP gene repertoire in bony vertebrates and graded differences in mineralized tissues

(2009) Kazuhiko Kawasaki   DEVELOPMENT GENES AND EVOLUTION

ABySS: A parallel assembler for short read sequence data

(2009) J. T. Simpson et al.   GENOME RESEARCH

Circos: An information aesthetic for comparative genomics

(2009) M. Krzywinski et al.   GENOME RESEARCH

SCPP Gene Evolution and the Dental Mineralization Continuum

(2009) K. Kawasaki et al.   JOURNAL OF DENTAL RESEARCH

Production of Viable Homozygous, Doubled Haploid Channel Catfish (Ictalurus punctatus)

(2009) Geoffrey C. Waldbieser et al.   MARINE BIOTECHNOLOGY

InParanoid 7: new algorithms and tools for eukaryotic orthology analysis

(2009) G. Ostlund et al.   NUCLEIC ACIDS RESEARCH

Comparison of antimicrobial activity in the epidermal mucus extracts of fish

(2008) Sangeetha Subramanian et al.   COMPARATIVE BIOCHEMISTRY AND PHYSIOLOGY B-BIOCHEMISTRY & MOLECULAR BIOLOGY