Using RNA-Seq SNP data to reveal potential causal mutations related to pig production traits and RNA editing

Identification of a putative quantitative trait nucleotide in guanylate binding protein 5 for host response to PRRS virus infection

(2015) James E. Koltes et al.   BMC GENOMICS

The E3 ligase synoviolin controls body weight and mitochondrial biogenesis through negative regulation of PGC-1 

(2015) H. Fujita et al.   EMBO JOURNAL

Intermuscular and perimuscular fat expansion in obesity correlates with skeletal muscle T cell and macrophage infiltration and insulin resistance

(2015) I M Khan et al.   INTERNATIONAL JOURNAL OF OBESITY

Haplotypic diversity of porcine LEP and LEPR genes involved in growth and fatness regulation

(2015) Dafne Pérez-Montarelo et al.   JOURNAL OF APPLIED GENETICS

Genome-Wide Characterization of RNA Editing in Chicken Embryos Reveals Common Features among Vertebrates

(2015) Laure Frésard et al.   PLoS One

Identification of Genes Related to Growth and Lipid Deposition from Transcriptome Profiles of Pig Muscle Tissue

(2015) Zhixiu Wang et al.   PLoS One

Transcriptomic Analysis of Ovaries from Pigs with High And Low Litter Size

(2015) Xiaodong Zhang et al.   PLoS One

Recombination of the porcine X chromosome: a high density linkage map

(2014) Ana I Fernández et al.   BMC GENETICS

CNN3 Is Regulated by microRNA-1 during Muscle Development in Pigs

(2014) Zhonglin Tang et al.   International Journal of Biological Sciences

Palmdelphin, a novel target of p53 with Ser46 phosphorylation, controls cell death in response to DNA damage

(2014) N Dashzeveg et al.   Cell Death & Disease

Human cap methyltransferase (RNMT) N-terminal non-catalytic domain mediates recruitment to transcription initiation sites

(2013) Michael Aregger et al.   BIOCHEMICAL JOURNAL

A-to-I RNA editing does not change with age in the healthy male rat brain

(2013) Andrew P. Holmes et al.   BIOGERONTOLOGY

Identification of genes regulating growth and fatness traits in pig through hypothalamic transcriptome analysis

(2013) Dafne Pérez-Montarelo et al.   PHYSIOLOGICAL GENOMICS

Genome-wide linkage analysis of QTL for growth and body composition employing the PorcineSNP60 BeadChip

(2012) Ana I Fernández et al.   BMC GENETICS

Liver transcriptome profile in pigs with extreme phenotypes of intramuscular fatty acid composition

(2012) Yuliaxis Ramayo-Caldas et al.   BMC GENOMICS

Beyond differential expression: the quest for causal mutations and effector molecules

(2012) Nicholas J Hudson et al.   BMC GENOMICS

MASTR directs MyoD-dependent satellite cell differentiation during skeletal muscle regeneration

(2012) M. H. Mokalled et al.   GENES & DEVELOPMENT

The effects of leptin receptor (LEPR) and melanocortin-4 receptor (MC4R) polymorphisms on fat content, fat distribution and fat composition in a Duroc×Landrace/Large White cross

(2012) A. Galve et al.   Livestock Science

Identification of a mutation in LARS as a novel cause of infantile hepatopathy

(2012) Jillian P. Casey et al.   MOLECULAR GENETICS AND METABOLISM

Spatio-temporal regulation of ADAR editing during development in porcine neural tissues

(2012) Morten Venø et al.   RNA Biology

Diet-Induced Swine Model with Obesity/Leptin Resistance for the Study of Metabolic Syndrome and Type 2 Diabetes

(2012) L. Torres-Rovira et al.   TheScientificWorldJOURNAL

Screening the human exome: a comparison of whole genome and whole transcriptome sequencing

(2012) Elizabeth T Cirulli et al.   GENOME BIOLOGY

High levels of RNA-editing site conservation amongst 15 laboratory mouse strains

(2012) Petr Daneck et al.   GENOME BIOLOGY

Current Status and Future Perspectives for Sequencing Livestock Genomes

(2012) Yongsheng Bai et al.   Journal of Animal Science and Biotechnology

Association analyses of porcine SERPINE1 reveal sex-specific effects on muscling, growth, fat accretion and meat quality

(2011) F. Weisz et al.   ANIMAL GENETICS

Qxpak.5: Old mixed model solutions for new genomics problems

(2011) Miguel Pérez-Enciso et al.   BMC BIOINFORMATICS

Meta-analysis of results from quantitative trait loci mapping studies on pig chromosome 4

(2010) K. M. Silva et al.   ANIMAL GENETICS

When you can’t trust the DNA: RNA editing changes transcript sequences

(2010) Volker Knoop   CELLULAR AND MOLECULAR LIFE SCIENCES

Assessing the effect of the CLPG mutation on the microRNA catalog of skeletal muscle using high-throughput sequencing

(2010) F. Caiment et al.   GENOME RESEARCH

Hypothalamic expression of porcine leptin receptor (LEPR), neuropeptide Y (NPY), and cocaine- and amphetamine-regulated transcript (CART) genes is influenced by LEPR genotype

(2010) Cristina Óvilo et al.   MAMMALIAN GENOME

SNP discovery in the bovine milk transcriptome using RNA-Seq technology

(2010) Angela Cánovas et al.   MAMMALIAN GENOME

Babelomics: an integrative platform for the analysis of transcriptomics, proteomics and genomic data with advanced functional profiling

(2010) Ignacio Medina et al.   NUCLEIC ACIDS RESEARCH

TopHat: discovering splice junctions with RNA-Seq

(2009) Cole Trapnell et al.   BIOINFORMATICS

Increased adiposity in the retinol saturase-knockout mouse

(2009) Alexander R. Moise et al.   FASEB JOURNAL

Investigation of LDHA and COPB1 as candidate genes for muscle development in the MYOD1 region of pig chromosome 2

(2009) Haifang Qiu et al.   MOLECULAR BIOLOGY REPORTS

Mutational evolution in a lobular breast tumour profiled at single nucleotide resolution

(2009) Sohrab P. Shah et al.   NATURE

A crucial role for adipose tissue p53 in the regulation of insulin resistance

(2009) Tohru Minamino et al.   NATURE MEDICINE

Detection of single nucleotide variations in expressed exons of the human genome using RNA-Seq

(2009) Iouri Chepelev et al.   NUCLEIC ACIDS RESEARCH

Retinol saturase promotes adipogenesis and is downregulated in obesity

(2009) M. Schupp et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Transcriptome architecture across tissues in the pig

(2008) André LJ Ferraz et al.   BMC GENOMICS

Quality scores and SNP detection in sequencing-by-synthesis systems

(2008) W. Brockman et al.   GENOME RESEARCH

Mapping and quantifying mammalian transcriptomes by RNA-Seq

(2008) Ali Mortazavi et al.   NATURE METHODS

RNA-Seq: a revolutionary tool for transcriptomics

(2008) Zhong Wang et al.   NATURE REVIEWS GENETICS

Substantial biases in ultra-short read data sets from high-throughput DNA sequencing

(2008) J. C. Dohm et al.   NUCLEIC ACIDS RESEARCH