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Research

Drosophila CTCF tandemly aligns with other insulator proteins at the borders of H3K27me3 domains" > Drosophila CTCF tandemly aligns with other insulator proteins at the borders of H3K27me3 domains

  • First Published June 21, 2012
Method

Detecting differential usage of exons from RNA-seq data

  • First Published June 21, 2012
Research

cis-regulatory constraints" > Extensive conservation of ancient microsynteny across metazoans due to cis-regulatory constraints

  • First Published June 21, 2012
Resource

Extensive alternative polyadenylation during zebrafish development

  • First Published June 21, 2012
Resource

Strongylocentrotus purpuratus based on transcriptome analysis" > Gene structure in the sea urchin Strongylocentrotus purpuratus based on transcriptome analysis

  • First Published June 18, 2012
Resource

C. elegans" > Long noncoding RNAs in C. elegans

  • First Published June 15, 2012
Research

Genic and nongenic contributions to natural variation of quantitative traits in maize

  • First Published June 14, 2012
Research

Genome-wide genetic variations are highly correlated with proximal DNA methylation patterns

  • First Published June 11, 2012
Research

CBX3 regulates efficient RNA processing genome-wide

  • First Published June 8, 2012
Research

Genome-wide DNA methylation profiles in hematopoietic stem and progenitor cells reveal overrepresentation of ETS transcription factor binding sites

  • First Published June 8, 2012
Research

Dynamic transitions in RNA polymerase II density profiles during transcription termination

  • First Published June 8, 2012
Research

C. elegans" > Effects of ADARs on small RNA processing pathways in C. elegans

  • First Published June 6, 2012
Perspective

Human genomic disease variants: A neutral evolutionary explanation

  • First Published June 4, 2012
Research

Maintaining replication origins in the face of genomic change

  • First Published June 4, 2012
Research

Identifying genomic and metabolic features that can underlie early successional and opportunistic lifestyles of human gut symbionts

  • First Published June 4, 2012
Erratum

Erratum

  • First Published June 1, 2012
Research

Random X inactivation in the mule and horse placenta

  • First Published May 29, 2012
Research

Bacillus cereus sensu lato species: Backdrop to the evolution of Bacillus anthracis" > Genomic characterization of the Bacillus cereus sensu lato species: Backdrop to the evolution of Bacillus anthracis

  • First Published May 29, 2012
Research

A-to-I editing of microRNAs in the mammalian brain increases during development

  • First Published May 29, 2012
Research

cis-regulatory adaptation in the evolution of yeast pathogenicity" > Polygenic cis-regulatory adaptation in the evolution of yeast pathogenicity

  • First Published May 29, 2012
Method

Integrative analysis of genome-wide loss of heterozygosity and monoallelic expression at nucleotide resolution reveals disrupted pathways in triple-negative breast cancer

  • First Published May 25, 2012
Research

Abnormal developmental control of replication-timing domains in pediatric acute lymphoblastic leukemia

  • First Published May 24, 2012
Research

Physical tethering and volume exclusion determine higher-order genome organization in budding yeast

  • First Published May 22, 2012
Research

Genome-scale analysis of DNA methylation in lung adenocarcinoma and integration with mRNA expression

  • First Published May 21, 2012
Method

Observation of dually decoded regions of the human genome using ribosome profiling data

  • First Published May 16, 2012
Resource

Dynamics of enhancer chromatin signatures mark the transition from pluripotency to cell specification during embryogenesis

  • First Published May 16, 2012
Research

Chimeras taking shape: Potential functions of proteins encoded by chimeric RNA transcripts

  • First Published May 15, 2012
Method

Dissection of complex adult traits in a mouse synthetic population

  • First Published May 15, 2012
Method

Copy number variation detection and genotyping from exome sequence data

  • First Published May 14, 2012
Research

V600E remodels the melanocyte transcriptome and induces BANCR to regulate melanoma cell migration" > BRAFV600E remodels the melanocyte transcriptome and induces BANCR to regulate melanoma cell migration

  • First Published May 11, 2012
Method

Mutation mapping and identification by whole-genome sequencing

  • First Published May 3, 2012
Resource

HaploMerger: Reconstructing allelic relationships for polymorphic diploid genome assemblies

  • First Published May 3, 2012
Research

piRNA-mediated transgenerational inheritance of an acquired trait

  • First Published May 3, 2012
Resource

Triplexator: Detecting nucleic acid triple helices in genomic and transcriptomic data

  • First Published May 1, 2012
Research

C. elegans" > Nutritional control of mRNA isoform expression during developmental arrest and recovery in C. elegans

  • First Published April 26, 2012
Research

Exploring the DNA-recognition potential of homeodomains

  • First Published April 26, 2012
Method

Ultrashort and progressive 4sU-tagging reveals key characteristics of RNA processing at nucleotide resolution

  • First Published April 26, 2012
Research

Global analysis reveals multiple pathways for unique regulation of mRNA decay in induced pluripotent stem cells

  • First Published April 25, 2012
Method

Precision genome engineering with programmable DNA-nicking enzymes

  • First Published April 20, 2012
Method

lobSTR: A short tandem repeat profiler for personal genomes

  • First Published April 20, 2012
Research

Drosophila enhancers and promoters" > Genome-wide phosphoacetylation of histone H3 at Drosophila enhancers and promoters

  • First Published April 16, 2012
Research

C. elegans embryo" > Multidimensional regulation of gene expression in the C. elegans embryo

  • First Published April 16, 2012
Research

Differential DNase I hypersensitivity reveals factor-dependent chromatin dynamics

  • First Published April 16, 2012
Research

Drosophila simulans clade" > Genome sequencing reveals complex speciation in the Drosophila simulans clade

  • First Published April 13, 2012
Research

Disentangling the relationship between sex-biased gene expression and X-linkage

  • First Published April 12, 2012
Research

Reorganization of the host epigenome by a viral oncogene

  • First Published April 12, 2012
Research

Arabidopsis thaliana" > Genome-wide analysis of mutations in mutant lineages selected following fast-neutron irradiation mutagenesis of Arabidopsis thaliana

  • First Published April 12, 2012
Method

Systematic identification of edited microRNAs in the human brain

  • First Published April 12, 2012
Resource

Drosophila Synthetic Population Resource" > Genetic dissection of a model complex trait using the Drosophila Synthetic Population Resource

  • First Published April 10, 2012
Research

Drosophila brain" > Deep sequencing the circadian and diurnal transcriptome of Drosophila brain

  • First Published April 3, 2012
Erratum

Errata

  • First Published April 2, 2012
Method

Bisulfite sequencing of chromatin immunoprecipitated DNA (BisChIP-seq) directly informs methylation status of histone-modified DNA

  • First Published March 30, 2012
Method

Ultra-low-input, tagmentation-based whole-genome bisulfite sequencing

  • First Published March 30, 2012
Method

Sequential ChIP-bisulfite sequencing enables direct genome-scale investigation of chromatin and DNA methylation cross-talk

  • First Published March 30, 2012
Method

Comparative dynamic transcriptome analysis (cDTA) reveals mutual feedback between mRNA synthesis and degradation

  • First Published March 30, 2012
Method

Drosophila melanogaster by integrative inference of transcriptional networks" > Predictive regulatory models in Drosophila melanogaster by integrative inference of transcriptional networks

  • First Published March 28, 2012
Research

Impact of microRNA regulation on variation in human gene expression

  • First Published March 28, 2012
Research

A genome-wide analysis of common fragile sites: What features determine chromosomal instability in the human genome?

  • First Published March 28, 2012
Resource

A quantitative atlas of polyadenylation in five mammals

  • First Published March 27, 2012
Method

C. elegans" > RIP-chip-SRM—a new combinatorial large-scale approach identifies a set of translationally regulated bantam/miR-58 targets in C. elegans

  • First Published March 27, 2012
Research

Reconstructing ancient mitochondrial DNA links between Africa and Europe

  • First Published March 27, 2012
Research

Coding exons function as tissue-specific enhancers of nearby genes

  • First Published March 22, 2012
Research

Single-cell sequencing provides clues about the host interactions of segmented filamentous bacteria (SFB)

  • First Published March 20, 2012
Method

Targeted gene addition to a predetermined site in the human genome using a ZFN-based nicking enzyme

  • First Published March 20, 2012
Research

Dictyostelium" > Unusual combinatorial involvement of poly-A/T tracts in organizing genes and chromatin in Dictyostelium

  • First Published March 20, 2012
Research

Chromatin state signatures associated with tissue-specific gene expression and enhancer activity in the embryonic limb

  • First Published March 15, 2012
Research

H2B monoubiquitylation is a 5′-enriched active transcription mark and correlates with exon–intron structure in human cells

  • First Published March 15, 2012
Research

The evolution of African great ape subtelomeric heterochromatin and the fusion of human chromosome 2

  • First Published March 14, 2012
Research

Plasmodium falciparum" > Transcriptional variation in the malaria parasite Plasmodium falciparum

  • First Published March 13, 2012
Research

Genome-wide analysis of long noncoding RNA stability

  • First Published March 9, 2012
Method

Identification of novel causative genes determining the complex trait of high ethanol tolerance in yeast using pooled-segregant whole-genome sequence analysis

  • First Published March 7, 2012
Method

The origin, global distribution, and functional impact of the human 8p23 inversion polymorphism

  • First Published March 7, 2012
Research

A DNA hypermethylation module for the stem/progenitor cell signature of cancer

  • First Published March 5, 2012
Resource

Arabidopsis" > Transcriptome survey reveals increased complexity of the alternative splicing landscape in Arabidopsis

  • First Published March 5, 2012
Research

Identification of copy number variants in horses

  • First Published March 1, 2012
Erratum

Errata

  • First Published March 1, 2012
Research

Human postmeiotic sex chromatin and its impact on sex chromosome evolution

  • First Published February 28, 2012
Method

Genome-wide determination of RNA stability reveals hundreds of short-lived noncoding transcripts in mammals

  • First Published February 27, 2012
Method

Sensitive mapping of recombination hotspots using sequencing-based detection of ssDNA

  • First Published February 24, 2012
Research

Mouse endogenous retroviruses can trigger premature transcriptional termination at a distance

  • First Published February 23, 2012
Research

Global profiling of DNA methylation erasure in mouse primordial germ cells

  • First Published February 22, 2012
Method

Identification of microRNA-regulated gene networks by expression analysis of target genes

  • First Published February 15, 2012
Research

Rapid coastal spread of First Americans: Novel insights from South America's Southern Cone mitochondrial genomes

  • First Published February 14, 2012
Research

Adenosine deaminases that act on RNA induce reproducible changes in abundance and sequence of embryonic miRNAs

  • First Published February 6, 2012
Research

Temporal shifts in the skin microbiome associated with disease flares and treatment in children with atopic dermatitis

  • First Published February 6, 2012
Research

Effects of sequence variation on differential allelic transcription factor occupancy and gene expression

  • First Published February 2, 2012
Resource

Copy number variation of individual cattle genomes using next-generation sequencing

  • First Published February 2, 2012
Resource

VarScan 2: Somatic mutation and copy number alteration discovery in cancer by exome sequencing

  • First Published February 2, 2012
Research

Extension of cortical synaptic development distinguishes humans from chimpanzees and macaques

  • First Published February 2, 2012
Research

Age-associated DNA methylation in pediatric populations

  • First Published February 1, 2012
Resource

A vast collection of microbial genes that are toxic to bacteria

  • First Published February 1, 2012
Commentary

An emerging toolkit for targeted cancer therapies

  • First Published February 1, 2012
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