Heterosis of growth trait regulated by DNA methylation and miRNA in allotriploid fish

Diverse transcriptional patterns of homoeologous recombinant transcripts in triploid fish (Cyprinidae)

(2021) Li Ren et al.   Science China-Life Sciences

From asymmetrical to balanced genomic diversification during rediploidization: Subgenomic evolution in allotetraploid fish

(2020) Jing Luo et al.   Science Advances

MAVS of triploid hybrid of red crucian carp and allotetraploid possesses the improved antiviral activity compared with the counterparts of its parents

(2019) Jun Xiao et al.   FISH & SHELLFISH IMMUNOLOGY

The allotetraploid origin and asymmetrical genome evolution of the common carp Cyprinus carpio

(2019) Peng Xu et al.   Nature Communications

Combined effects of dosage compensation and incomplete dominance on gene expression in triploid cyprinids

(2019) Li Ren et al.   DNA RESEARCH

Impact of rearing temperature on the innate antiviral immune response of growth hormone transgenic female triploid Atlantic salmon (Salmo salar)

(2019) Eric H. Ignatz et al.   FISH & SHELLFISH IMMUNOLOGY

Whole Genome Incorporation and Epigenetic Stability in a Newly Synthetic Allopolyploid of Gynogenetic Gibel Carp

(2018) Guang-Ming Shao et al.   Genome Biology and Evolution

MicroRNA Alternations in the Testes Related to the Sterility of Triploid Fish

(2018) Min Tao et al.   MARINE BIOTECHNOLOGY

Dosage compensation and DNA methylation landscape of the X chromosome in mouse liver

(2018) Christopher G. Duncan et al.   Scientific Reports

Analyzing homoeolog expression provides insights into the rediploidization event in gynogenetic hybrids of Carassius auratus red var. × Cyprinus carpio

(2017) Li Ren et al.   Scientific Reports

Genomic architecture of heterosis for yield traits in rice

(2016) Xuehui Huang et al.   NATURE

The genome sequence of allopolyploid Brassica juncea and analysis of differential homoeolog gene expression influencing selection

(2016) Jinghua Yang et al.   NATURE GENETICS

Non-coding RNAs as regulators in epigenetics

(2016) Jian-Wei Wei et al.   ONCOLOGY REPORTS

Genomic incompatibilities in the diploid and tetraploid offspring of the goldfish × common carp cross

(2016) Shaojun Liu et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Allele-Specific Transcriptome and Methylome Analysis Reveals Stable Inheritance and Cis-Regulation of DNA Methylation in Nasonia

(2016) Xu Wang et al.   PLOS BIOLOGY

Comparative Analysis of Testis Transcriptomes from Triploid and Fertile Diploid Cyprinid Fish1

(2015) Kang Xu et al.   BIOLOGY OF REPRODUCTION

HTSeq--a Python framework to work with high-throughput sequencing data

(2014) S. Anders et al.   BIOINFORMATICS

Trimmomatic: a flexible trimmer for Illumina sequence data

(2014) Anthony M. Bolger et al.   BIOINFORMATICS

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

(2014) Peng Xu et al.   NATURE GENETICS

MOABS: model based analysis of bisulfite sequencing data

(2014) Deqiang Sun et al.   GENOME BIOLOGY

Genomic dosage effects on heterosis in triploid maize

(2013) H. Yao et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

STAR: ultrafast universal RNA-seq aligner

(2012) Alexander Dobin et al.   BIOINFORMATICS

Genomic expression dominance in allopolyploids

(2012) Ryan A Rapp et al.   BMC BIOLOGY

Elevated expressions of GH/IGF axis genes in triploid crucian carp

(2012) Huan Zhong et al.   GENERAL AND COMPARATIVE ENDOCRINOLOGY

Homoeolog expression bias and expression level dominance in allopolyploid cotton

(2012) M-J Yoo et al.   HEREDITY

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

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

Polyploid organisms

(2012) Can Song et al.   Science China-Life Sciences

Cis- and trans-regulatory divergence between progenitor species determines gene-expression novelty in Arabidopsis allopolyploids

(2012) Xiaoli Shi et al.   Nature Communications

Bismark: a flexible aligner and methylation caller for Bisulfite-Seq applications

(2011) Felix Krueger et al.   BIOINFORMATICS

The Sequence Alignment/Map format and SAMtools

(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

Biological characteristics of an improved triploid crucian carp

(2009) Song Chen et al.   Science in China. Series C, Life sciences / Chinese Academy of Sciences

Ultrafast and memory-efficient alignment of short DNA sequences to the human genome

(2009) Ben Langmead et al.   GENOME BIOLOGY

Dosage Compensation by Gene-Copy Silencing in a Triploid Hybrid Fish

(2008) Irene Pala et al.   CURRENT BIOLOGY