Transcriptome-wide investigation of genomic imprinting in chicken

Development of a high density 600K SNP genotyping array for chicken

(2013) Andreas Kranis et al.   BMC GENOMICS

The ENCODE project: Missteps overshadowing a success

(2013) Sean R. Eddy   CURRENT BIOLOGY

Analysis of Allele-Specific Expression in Mouse Liver by RNA-Seq: A Comparison With Cis -eQTL Identified Using Genetic Linkage

(2013) Sandrine Lagarrigue et al.   GENETICS

On the Immortality of Television Sets: "Function" in the Human Genome According to the Evolution-Free Gospel of ENCODE

(2013) D. Graur et al.   Genome Biology and Evolution

Genomic imprinting and parent-of-origin effects on complex traits

(2013) Heather A. Lawson et al.   NATURE REVIEWS GENETICS

Paternally expressed genes predominate in the placenta

(2013) X. Wang et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Is junk DNA bunk? A critique of ENCODE

(2013) W. F. Doolittle   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Empirical testing of hypotheses about the evolution of genomic imprinting in mammals

(2013) David G. Ashbrook et al.   Frontiers in Neuroanatomy

Can ENCODE tell us how much junk DNA we carry in our genome?

(2012) Deng-Ke Niu et al.   BIOCHEMICAL AND BIOPHYSICAL RESEARCH COMMUNICATIONS

Convergent and divergent evolution of genomic imprinting in the marsupial Monodelphis domestica

(2012) Radhika Das et al.   BMC GENOMICS

A genome-wide approach reveals novel imprinted genes expressed in the human placenta

(2012) Sandrine Barbaux et al.   Epigenetics

What does our genome encode?

(2012) J. A. Stamatoyannopoulos   GENOME RESEARCH

A survey of tissue-specific genomic imprinting in mammals

(2012) Adam R. Prickett et al.   MOLECULAR GENETICS AND GENOMICS

An integrated encyclopedia of DNA elements in the human genome

(2012)   NATURE

Differential gene and transcript expression analysis of RNA-seq experiments with TopHat and Cufflinks

(2012) Cole Trapnell et al.   Nature Protocols

The origin and evolution of genomic imprinting and viviparity in mammals

(2012) M. B. Renfree et al.   PHILOSOPHICAL TRANSACTIONS OF THE ROYAL SOCIETY B-BIOLOGICAL SCIENCES

Maternal to offspring resource allocation in plants and mammals

(2012) J.F. Gutierrez-Marcos et al.   PLACENTA

Genomic Imprinting Absent in Drosophila melanogaster Adult Females

(2012) Joseph D. Coolon et al.   Cell Reports

Imprinted Genes … and the Number Is?

(2012) Gavin Kelsey et al.   PLoS Genetics

Critical Evaluation of Imprinted Gene Expression by RNA–Seq: A New Perspective

(2012) Brian DeVeale et al.   PLoS Genetics

Is there a genomically imprinted social brain?

(2011) James P. Curley   BIOESSAYS

The development and characterization of a 60K SNP chip for chicken

(2011) Martien AM Groenen et al.   BMC GENOMICS

A Survey for Novel Imprinted Genes in the Mouse Placenta by mRNA-seq

(2011) Xu Wang et al.   GENETICS

Distinct physiological and behavioural functions for parental alleles of imprinted Grb10

(2011) Alastair S. Garfield et al.   NATURE

Mouse genomic variation and its effect on phenotypes and gene regulation

(2011) Thomas M. Keane et al.   NATURE

Genomic imprinting: the emergence of an epigenetic paradigm

(2011) Anne C. Ferguson-Smith   NATURE REVIEWS GENETICS

The allele distribution in next-generation sequencing data sets is accurately described as the result of a stochastic branching process

(2011) Verena Heinrich et al.   NUCLEIC ACIDS RESEARCH

Human imprinted retrogenes exhibit non-canonical imprint chromatin signatures and reside in non-imprinted host genes

(2011) David Monk et al.   NUCLEIC ACIDS RESEARCH

Genome-Wide Mapping of DNA Methylation in Chicken

(2011) Qinghe Li et al.   PLoS One

The Reality of Pervasive Transcription

(2011) Michael B. Clark et al.   PLOS BIOLOGY

Improving RNA-Seq expression estimates by correcting for fragment bias

(2011) Adam Roberts et al.   GENOME BIOLOGY

Deriving the consequences of genomic variants with the Ensembl API and SNP Effect Predictor

(2010) William McLaren et al.   BIOINFORMATICS

WAMIDEX: A web atlas of murine genomic imprinting and differential expression

(2010) Reiner Schulz et al.   Epigenetics

A MODEL FOR GENOMIC IMPRINTING IN THE SOCIAL BRAIN: JUVENILES

(2010) Francisco Úbeda et al.   EVOLUTION

Statistical inference of allelic imbalance from transcriptome data

(2010) Michael Nothnagel et al.   HUMAN MUTATION

Biases in Illumina transcriptome sequencing caused by random hexamer priming

(2010) Kasper D. Hansen et al.   NUCLEIC ACIDS RESEARCH

Cloning of avian Delta-like 1 homolog gene: The biallelic expression of Delta-like 1 homolog in avian species

(2010) S. Shin et al.   POULTRY SCIENCE

High-Resolution Analysis of Parent-of-Origin Allelic Expression in the Mouse Brain

(2010) C. Gregg et al.   SCIENCE

Evolution of Genomic Imprinting: Insights from Marsupials and Monotremes

(2009) Marilyn B. Renfree et al.   Annual Review of Genomics and Human Genetics

Effect of read-mapping biases on detecting allele-specific expression from RNA-sequencing data

(2009) Jacob F. Degner et al.   BIOINFORMATICS

TopHat: discovering splice junctions with RNA-Seq

(2009) Cole Trapnell et al.   BIOINFORMATICS

The Sequence Alignment/Map format and SAMtools

(2009) H. Li et al.   BIOINFORMATICS

Genome-wide analysis of allelic expression imbalance in human primary cells by high-throughput transcriptome resequencing

(2009) Graham A. Heap et al.   HUMAN MOLECULAR GENETICS

Global Survey of Genomic Imprinting by Transcriptome Sequencing

(2008) Tomas Babak et al.   CURRENT BIOLOGY

On the Detection of Imprinted Quantitative Trait Loci in Line Crosses: Effect of Linkage Disequilibrium

(2008) C. Sandor et al.   GENETICS

Imprinted noncoding RNAs

(2008) Jo Peters et al.   MAMMALIAN GENOME

Transcriptome-Wide Identification of Novel Imprinted Genes in Neonatal Mouse Brain

(2008) Xu Wang et al.   PLoS One