Combination analysis of genome-wide association and transcriptome sequencing of residual feed intake in quality chickens

[1]  J. Buchner,et al.  The HSP90 chaperone machinery , 2017, Nature Reviews Molecular Cell Biology.

[2]  N. Yang,et al.  Genome-wide association studies for feed intake and efficiency in two laying periods of chickens , 2015, Genetics Selection Evolution.

[3]  N. Sellier,et al.  Detection of QTL controlling feed efficiency and excretion in chickens fed a wheat-based diet , 2015, Genetics Selection Evolution.

[4]  Yong Huang,et al.  Weak base pairing in both seed and 3′ regions reduces RNAi off-targets and enhances si/shRNA designs , 2014, Nucleic acids research.

[5]  S. Younkin,et al.  An intronic PICALM polymorphism, rs588076, is associated with allelic expression of a PICALM isoform , 2014, Molecular Neurodegeneration.

[6]  Ole F. Christensen,et al.  Proceedings, 10 World Congress of Genetics Applied to Livestock Production DMU - A Package for Analyzing Multivariate Mixed Models in quantitative Genetics and Genomics , 2014 .

[7]  Yi-Ping Phoebe Chen,et al.  A computationally efficient algorithm for genomic prediction using a Bayesian model , 2014, Genetics Selection Evolution.

[8]  D. Do,et al.  Genome-wide association and systems genetic analyses of residual feed intake, daily feed consumption, backfat and weight gain in pigs , 2014, BMC Genetics.

[9]  José Fernando Garcia,et al.  Genome-wide association analysis of feed intake and residual feed intake in Nellore cattle , 2014, BMC Genetics.

[10]  S. Moore,et al.  Single nucleotide polymorphisms for feed efficiency and performance in crossbred beef cattle , 2014, BMC Genetics.

[11]  M. Goddard,et al.  Detection of quantitative trait loci in Bos indicus and Bos taurus cattle using genome-wide association studies , 2013, Genetics Selection Evolution.

[12]  J. Dekkers,et al.  Whole Genome Association Studies of Residual Feed Intake and Related Traits in the Pig , 2013, PloS one.

[13]  M. Inui,et al.  Regulation of adipocyte differentiation of 3T3-L1 cells by PDZRN3. , 2013, American journal of physiology. Cell physiology.

[14]  Chang-xin Wu,et al.  Androgen Inhibits Abdominal Fat Accumulation and Negatively Regulates the PCK1 Gene in Male Chickens , 2013, PloS one.

[15]  H. Hornshøj,et al.  A genome-wide association scan in pig identifies novel regions associated with feed efficiency trait. , 2013, Journal of animal science.

[16]  D. Burt,et al.  Decreased expression of the satiety signal receptor CCKAR is responsible for increased growth and body weight during the domestication of chickens , 2013, American journal of physiology. Endocrinology and metabolism.

[17]  J. Woolliams,et al.  Edinburgh Research Explorer Development of a high density 600K SNP genotyping array for chicken , 2022 .

[18]  M. Rowe,et al.  Herpesviruses Placating the Unwilling Host: Manipulation of the MHC Class II Antigen Presentation Pathway , 2012, Viruses.

[19]  J. Lee,et al.  Gene expression in breast muscle associated with feed efficiency in a single male broiler line using a chicken 44K oligo microarray. I. Top differentially expressed genes. , 2011, Poultry science.

[20]  C. Gondro,et al.  Global gene expression profiling reveals genes expressed differentially in cattle with high and low residual feed intake. , 2011, Animal genetics.

[21]  B. Hayes,et al.  Variation in residual feed intake in Holstein-Friesian dairy heifers in southern Australia. , 2011, Journal of dairy science.

[22]  H. Laude,et al.  Transcriptomic Analysis Brings New Insight into the Biological Role of the Prion Protein during Mouse Embryogenesis , 2011, PloS one.

[23]  Jonathan M. Mudge,et al.  The Origins, Evolution, and Functional Potential of Alternative Splicing in Vertebrates , 2011, Molecular biology and evolution.

[24]  J. Dekkers,et al.  Genetic analysis of longitudinal measurements of performance traits in selection lines for residual feed intake in Yorkshire swine. , 2011, Journal of animal science.

[25]  H. Hakonarson,et al.  ANNOVAR: functional annotation of genetic variants from high-throughput sequencing data , 2010, Nucleic acids research.

[26]  S. Aggrey,et al.  Genetic properties of feed efficiency parameters in meat-type chickens , 2010, Genetics Selection Evolution.

[27]  M. Puchowicz,et al.  Phosphoenolpyruvate carboxykinase (Pck1) helps regulate the triglyceride/fatty acid cycle and development of insulin resistance in mice[S] , 2010, Journal of Lipid Research.

[28]  M. A. Kelly,et al.  The promoter polymorphism -232C/G of the PCK1 gene is associated with type 2 diabetes in a UK-resident South Asian population , 2009, BMC Medical Genetics.

[29]  M. Goddard,et al.  A Validated Genome Wide Association Study to Breed Cattle Adapted to an Environment Altered by Climate Change , 2009, PloS one.

[30]  Lior Pachter,et al.  Sequence Analysis , 2020, Definitions.

[31]  P. Braun,et al.  Androgen receptor expression in clinically localized prostate cancer: immunohistochemistry study and literature review. , 2008, Asian journal of andrology.

[32]  Xiayi Ke,et al.  Rheumatoid arthritis susceptibility loci at chromosomes 10p15, 12q13 and 22q13 , 2008, Nature Genetics.

[33]  Hidde L. Ploegh,et al.  The known unknowns of antigen processing and presentation , 2008, Nature Reviews Immunology.

[34]  B. Williams,et al.  Mapping and quantifying mammalian transcriptomes by RNA-Seq , 2008, Nature Methods.

[35]  I. Goodhead,et al.  Dynamic repertoire of a eukaryotic transcriptome surveyed at single-nucleotide resolution , 2008, Nature.

[36]  A. Archibald,et al.  The cholecystokinin type A receptor g.179A>G polymorphism affects feeding rate. , 2008, Animal Genetics.

[37]  Yurii S. Aulchenko,et al.  A Genomic Background Based Method for Association Analysis in Related Individuals , 2007, PloS one.

[38]  E. Beale,et al.  PCK1 and PCK2 as candidate diabetes and obesity genes , 2007, Cell Biochemistry and Biophysics.

[39]  M. Schachner,et al.  Reduced reactivity to novelty, impaired social behavior, and enhanced basal synaptic excitatory activity in perforant path projections to the dentate gyrus in young adult mice deficient in the neural cell adhesion molecule CHL1 , 2007, Molecular and Cellular Neuroscience.

[40]  J. Gilbert,et al.  Complement Factor H Variant Increases the Risk of Age-Related Macular Degeneration , 2005, Science.

[41]  J. Ott,et al.  Complement Factor H Polymorphism in Age-Related Macular Degeneration , 2005, Science.

[42]  S. Khosla,et al.  Mechanisms of sex steroid effects on bone. , 2005, Biochemical and biophysical research communications.

[43]  H. Bovenhuis,et al.  Genetic parameters of ascites-related traits in broilers: correlations with feed efficiency and carcase traits , 2005, British poultry science.

[44]  Mark Daly,et al.  Haploview: analysis and visualization of LD and haplotype maps , 2005, Bioinform..

[45]  M. D. de Jong,et al.  Residual feed intake and its effect on Salmonella enteritidis infection in growing layer hens. , 2004, Poultry science.

[46]  C. Steindler,et al.  Jamip1 (Marlin-1) Defines a Family of Proteins Interacting with Janus Kinases and Microtubules* , 2004, Journal of Biological Chemistry.

[47]  D. Burt,et al.  Segregation of QTL for production traits in commercial meat-type chickens. , 2004, Genetical research.

[48]  B. Cullen,et al.  Analysis of the stimulatory effect of splicing on mRNA production and utilization in mammalian cells. , 2003, RNA.

[49]  S. Gabriel,et al.  The Structure of Haplotype Blocks in the Human Genome , 2002, Science.

[50]  J. Archer,et al.  Genetic and phenotypic variance and covariance components for feed intake, feed efficiency, and other postweaning traits in Angus cattle. , 2001, Journal of animal science.

[51]  T. H. E. Meuwissen,et al.  Marker based estimates of between and within population kinships for the conservation of genetic diversity , 2001 .

[52]  S. Guillaumin,et al.  Energy balance of laying hens selected on residual food consumption. , 1998, British poultry science.

[53]  C. Plata-salamán,et al.  Disordered food intake and obesity in rats lacking cholecystokinin A receptors. , 1998, American journal of physiology. Regulatory, integrative and comparative physiology.

[54]  R. Young,et al.  Cholecystokinin Decreases Food Intake in Rats1 , 1997 .

[55]  W. Hel,et al.  Metabolic differences between White Leghorns selected for high and low residual food consumption. , 1991, British poultry science.

[56]  F. C. Gunsett.  Merit of Utilizing the Heritability of a Ratio to Predict the Genetic Change of a Ratio , 1987 .

[57]  G. P. Smith,et al.  Cholecystokinin decreases food intake in rats. , 1973, Journal of comparative and physiological psychology.

[58]  Robert M. Koch,et al.  Efficiency of Feed Use in Beef Cattle , 1963 .

[59]  Xuegong Zhang,et al.  DEGseq: an R package for identifying differentially expressed genes from RNA-seq data , 2010, Bioinform..

[60]  M. Gerstein,et al.  RNA-Seq: a revolutionary tool for transcriptomics , 2009, Nature Reviews Genetics.

[61]  Y. Benjamini,et al.  Controlling the false discovery rate: a practical and powerful approach to multiple testing , 1995 .

[62]  R. Pit,et al.  Fat deposition in a broiler sire strain. 4. Performance of broiler progeny of four differently selected sire lines. , 1988, Poultry science.

[63]  F. Leenstra.  Fat deposition in a broiler sire strain , 1987 .