Constraint and divergence of global gene expression in the mammalian embryo.

PubWeight™: 0.75‹?›

🔗 View Article (PMC 4417935)

Published in Elife on April 14, 2015

Authors

Noah Spies1, Cheryl L Smith1, Jesse M Rodriguez2, Julie C Baker3, Serafim Batzoglou2, Arend Sidow1

Author Affiliations

1: Department of Pathology, Stanford University School of Medicine, Stanford, United States.
2: Department of Computer Science, Stanford University, Stanford, United States.
3: Department of Genetics, Stanford University School of Medicine, Stanford, United States.

Articles cited by this

The human genome browser at UCSC. Genome Res (2002) 168.23

Fast gapped-read alignment with Bowtie 2. Nat Methods (2012) 83.79

Identification and analysis of functional elements in 1% of the human genome by the ENCODE pilot project. Nature (2007) 75.09

An integrated map of genetic variation from 1,092 human genomes. Nature (2012) 59.82

Genetic dissection of transcriptional regulation in budding yeast. Science (2002) 25.01

Genetics of gene expression surveyed in maize, mouse and man. Nature (2003) 22.17

Epigenetic programming by maternal behavior. Nat Neurosci (2004) 20.92

Distribution and intensity of constraint in mammalian genomic sequence. Genome Res (2005) 18.85

Understanding mechanisms underlying human gene expression variation with RNA sequencing. Nature (2010) 16.86

Transcriptome genetics using second generation sequencing in a Caucasian population. Nature (2010) 14.85

Variations in DNA elucidate molecular networks that cause disease. Nature (2008) 12.04

GOrilla: a tool for discovery and visualization of enriched GO terms in ranked gene lists. BMC Bioinformatics (2009) 12.01

Trans-acting regulatory variation in Saccharomyces cerevisiae and the role of transcription factors. Nat Genet (2003) 11.84

Mouse genomic variation and its effect on phenotypes and gene regulation. Nature (2011) 10.66

Identifying a high fraction of the human genome to be under selective constraint using GERP++. PLoS Comput Biol (2010) 8.69

Mapping cis- and trans-regulatory effects across multiple tissues in twins. Nat Genet (2012) 6.97

Tissue-specific expression and regulation of sexually dimorphic genes in mice. Genome Res (2006) 6.45

Evolutionary changes in cis and trans gene regulation. Nature (2004) 6.24

Genomic imprinting in mammalian development: a parental tug-of-war. Trends Genet (1991) 5.95

Angiopoietin-like protein 4 is a potent hyperlipidemia-inducing factor in mice and inhibitor of lipoprotein lipase. J Lipid Res (2002) 4.94

Evolutionary dynamics of gene and isoform regulation in Mammalian tissues. Science (2012) 4.52

WebQTL: web-based complex trait analysis. Neuroinformatics (2003) 4.10

Transgenic angiopoietin-like (angptl)4 overexpression and targeted disruption of angptl4 and angptl3: regulation of triglyceride metabolism. Endocrinology (2005) 3.83

Genetic and genomic analysis of a fat mass trait with complex inheritance reveals marked sex specificity. PLoS Genet (2006) 3.51

Gene expression divergence recapitulates the developmental hourglass model. Nature (2010) 3.20

A phylogenetically based transcriptome age index mirrors ontogenetic divergence patterns. Nature (2010) 3.00

Global survey of genomic imprinting by transcriptome sequencing. Curr Biol (2008) 2.80

Genomic imprinting determines methylation of parental alleles in transgenic mice. Nature (1987) 2.71

Regulatory divergence in Drosophila revealed by mRNA-seq. Genome Res (2010) 2.69

Using probabilistic estimation of expression residuals (PEER) to obtain increased power and interpretability of gene expression analyses. Nat Protoc (2012) 2.14

From expression QTLs to personalized transcriptomics. Nat Rev Genet (2011) 1.94

3'-end sequencing for expression quantification (3SEQ) from archival tumor samples. PLoS One (2010) 1.91

The making of the somite: molecular events in vertebrate segmentation. Nat Rev Genet (2001) 1.88

The effects of genetic variation on gene expression dynamics during development. Nature (2013) 1.75

The architecture of parent-of-origin effects in mice. Cell (2014) 1.68

The role of genomic imprinting in biology and disease: an expanding view. Nat Rev Genet (2014) 1.56

Dysregulation of adipose glutathione peroxidase 3 in obesity contributes to local and systemic oxidative stress. Mol Endocrinol (2008) 1.51

Daddy issues: paternal effects on phenotype. Cell (2012) 1.49

Extensive compensatory cis-trans regulation in the evolution of mouse gene expression. Genome Res (2012) 1.32

The impact of maternal uterine genotype on postnatal growth and adult body size in mice. Genetics (1989) 1.27

Nesting and fitness: lifetime reproductive success in house mice bidirectionally selected for thermoregulatory nest-building behavior. Behav Genet (1997) 1.25

Glutathione peroxidase 3 mediates the antioxidant effect of peroxisome proliferator-activated receptor gamma in human skeletal muscle cells. Mol Cell Biol (2008) 1.20

A survey of tissue-specific genomic imprinting in mammals. Mol Genet Genomics (2012) 1.19

Data-driven assessment of eQTL mapping methods. BMC Genomics (2010) 1.08

Joining the loops: beta-globin gene regulation. IUBMB Life (2008) 1.06

Disentangling prenatal and postnatal maternal genetic effects reveals persistent prenatal effects on offspring growth in mice. Genetics (2011) 0.98

Maternal genotype affects adult offspring lipid, obesity, and diabetes phenotypes in LGXSM recombinant inbred strains. J Lipid Res (2005) 0.98

Angiopoietin-like gene expression in the mouse uterus during implantation and in response to steroids. Cell Tissue Res (2012) 0.78