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Resource

Macaca fascicularis as a model for drug safety assessment" > Genome-based analysis of the nonhuman primate Macaca fascicularis as a model for drug safety assessment

  • First Published August 23, 2011
Research

DNA methylation profiles of human active and inactive X chromosomes

  • First Published August 23, 2011
Method

High-throughput semiquantitative analysis of insertional mutations in heterogeneous tumors

  • First Published August 18, 2011
Research

Analysis of alternative splicing associated with aging and neurodegeneration in the human brain

  • First Published August 16, 2011
Research

Genetic variation in radiation-induced cell death

  • First Published August 15, 2011
Method

Digital gene expression for non-model organisms

  • First Published August 15, 2011
Method

Noncoding RNA gene silencing through genomic integration of RNA destabilizing elements using zinc finger nucleases

  • First Published August 15, 2011
Research

Copy number variation analysis in the great apes reveals species-specific patterns of structural variation

  • First Published August 8, 2011
Resource

The Proteome Folding Project: Proteome-scale prediction of structure and function

  • First Published August 8, 2011
Resource

Synthetic spike-in standards for RNA-seq experiments

  • First Published August 4, 2011
Method

A comprehensively molecular haplotype-resolved genome of a European individual

  • First Published August 3, 2011
Research

Genome-wide depletion of replication initiation events in highly transcribed regions

  • First Published August 3, 2011
Research

Post-transcriptional generation of miRNA variants by multiple nucleotidyl transferases contributes to miRNA transcriptome complexity

  • First Published August 3, 2011
Research

Transcriptome dynamics through alternative polyadenylation in developmental and environmental responses in plants revealed by deep sequencing

  • First Published August 3, 2011
Research

Histone H3 trimethylation at lysine 36 is associated with constitutive and facultative heterochromatin

  • First Published July 29, 2011
Method

True single-molecule DNA sequencing of a pleistocene horse bone

  • First Published July 29, 2011
Research

Regulation of nucleosome landscape and transcription factor targeting at tissue-specific enhancers by BRG1

  • First Published July 27, 2011
Method

Trans genomic capture and sequencing of primate exomes reveals new targets of positive selection" > Trans genomic capture and sequencing of primate exomes reveals new targets of positive selection

  • First Published July 27, 2011
Research

Anopheles gambiae using high-resolution Fourier transform mass spectrometry" > A proteogenomic analysis of Anopheles gambiae using high-resolution Fourier transform mass spectrometry

  • First Published July 27, 2011
Research

Dynamics of the epigenetic landscape during erythroid differentiation after GATA1 restoration

  • First Published July 27, 2011
Method

Phenotypic profiling of the human genome reveals gene products involved in plasma membrane targeting of SRC kinases

  • First Published July 27, 2011
Research

Acetylation of H2A.Z is a key epigenetic modification associated with gene deregulation and epigenetic remodeling in cancer

  • First Published July 25, 2011
Resource

Genome-scale phylogenetic function annotation of large and diverse protein families

  • First Published July 22, 2011
Research

Coevolution of retroelements and tandem zinc finger genes

  • First Published July 22, 2011
Research

Large-scale methylation domains mark a functional subset of neuronally expressed genes

  • First Published July 22, 2011
Method

Accurate and comprehensive sequencing of personal genomes

  • First Published July 19, 2011
Method

BRCA1 mutations" > Single-step capture and sequencing of natural DNA for detection of BRCA1 mutations

  • First Published July 15, 2011
Research

Phylogeny-wide analysis of social amoeba genomes highlights ancient origins for complex intercellular communication

  • First Published July 14, 2011
Method

Application of microdroplet PCR for large-scale targeted bisulfite sequencing

  • First Published July 14, 2011
Research

Assessment of palindromes as platforms for DNA amplification in breast cancer

  • First Published July 13, 2011
Research

Genome-scale analysis of metazoan replication origins reveals their organization in specific but flexible sites defined by conserved features

  • First Published July 12, 2011
Method

Barcoding bias in high-throughput multiplex sequencing of miRNA

  • First Published July 12, 2011
Research

Parallel evolution of transcriptome architecture during genome reorganization

  • First Published July 12, 2011
Research

Coactivation of GR and NFKB alters the repertoire of their binding sites and target genes

  • First Published July 12, 2011
Research

Loss of exon identity is a common mechanism of human inherited disease

  • First Published July 12, 2011
Resource

Open chromatin defined by DNaseI and FAIRE identifies regulatory elements that shape cell-type identity

  • First Published July 12, 2011
Research

Variety of genomic DNA patterns for nucleosome positioning

  • First Published July 12, 2011
Research

Genetic analysis in the Collaborative Cross breeding population

  • First Published July 6, 2011
Erratum

Erratum

  • First Published July 1, 2011
Research

Deep sequencing reveals distinct patterns of DNA methylation in prostate cancer

  • First Published July 1, 2011
Research

Extensive relationship between antisense transcription and alternative splicing in the human genome

  • First Published June 30, 2011
Research

Acromyrmex echinatior suggests key adaptations to advanced social life and fungus farming" > The genome of the leaf-cutting ant Acromyrmex echinatior suggests key adaptations to advanced social life and fungus farming

  • First Published June 30, 2011
Method

Putting genetic interactions in context through a global modular decomposition

  • First Published June 29, 2011
Research

Alternative transcription exceeds alternative splicing in generating the transcriptome diversity of cerebellar development

  • First Published June 28, 2011
Research

High-throughput mapping of the promoters of the mouse olfactory receptor genes reveals a new type of mammalian promoter and provides insight into olfactory receptor gene regulation

  • First Published June 24, 2011
Resource

A probabilistic disease-gene finder for personal genomes

  • First Published June 23, 2011
Resource

Integrative analysis of environmental sequences using MEGAN4

  • First Published June 20, 2011
Research

Gorilla genome structural variation reveals evolutionary parallelisms with chimpanzee

  • First Published June 17, 2011
Research

Unusually effective microRNA targeting within repeat-rich coding regions of mammalian mRNAs

  • First Published June 17, 2011
Research

TCF7L2 expression define its role as a key regulator of glucose metabolism" > Alterations in TCF7L2 expression define its role as a key regulator of glucose metabolism

  • First Published June 14, 2011
Research

E. coli" > Genome-wide detection of novel regulatory RNAs in E. coli

  • First Published June 10, 2011
Resource

Cactus: Algorithms for genome multiple sequence alignment

  • First Published June 10, 2011
Research

Genome-scale analysis of aberrant DNA methylation in colorectal cancer

  • First Published June 9, 2011
Method

Quantitative evaluation of all hexamers as exonic splicing elements

  • First Published June 9, 2011
Method

De novo discovery of mutated driver pathways in cancer

  • First Published June 7, 2011
Research

Temporal uncoupling of the DNA methylome and transcriptional repression during embryogenesis

  • First Published June 2, 2011
Insight/Outlook

Ethical and practical challenges of sharing data from genome-wide association studies: The eMERGE Consortium experience

  • First Published June 1, 2011
Perspective

Reading TE leaves: New approaches to the identification of transposable element insertions

  • First Published June 1, 2011
Erratum

Erratum

  • First Published June 1, 2011
Research

Coassembly of REST and its cofactors at sites of gene repression in embryonic stem cells

  • First Published June 1, 2011
Research

Epigenetic signatures distinguish multiple classes of enhancers with distinct cellular functions

  • First Published June 1, 2011
Research

Cell type–specific DNA methylation at intragenic CpG islands in the immune system

  • First Published May 31, 2011
Method

Genome-wide identification of conserved regulatory function in diverged sequences

  • First Published May 31, 2011
Method

A reduced representation approach to population genetic analyses and applications to human evolution

  • First Published May 31, 2011
Research

Pervasive haplotypic variation in the spliceo-transcriptome of the human major histocompatibility complex

  • First Published May 31, 2011
Method

Discovery and assessment of conserved Pax6 target genes and enhancers

  • First Published May 26, 2011
Resource

A DNA methylation fingerprint of 1628 human samples

  • First Published May 25, 2011
Research

A survey of the genetics of stomach, liver, and adipose gene expression from a morbidly obese cohort

  • First Published May 20, 2011
Method

Unamplified cap analysis of gene expression on a single-molecule sequencer

  • First Published May 19, 2011
Research

A genome-wide perspective on the evolutionary history of enigmatic wolf-like canids

  • First Published May 12, 2011
Research

Zebrafish mRNA sequencing deciphers novelties in transcriptome dynamics during maternal to zygotic transition

  • First Published May 9, 2011
Method

Genome-wide detection of chromosomal rearrangements, indels, and mutations in circular chromosomes by short read sequencing

  • First Published May 9, 2011
Method

Characterization of the single-cell transcriptional landscape by highly multiplex RNA-seq

  • First Published May 4, 2011
Research

Aspergillus niger ATCC 1015 versus enzyme-producing CBS 513.88" > Comparative genomics of citric-acid-producing Aspergillus niger ATCC 1015 versus enzyme-producing CBS 513.88

  • First Published May 4, 2011
Resource

De novo assembly and validation of planaria transcriptome by massive parallel sequencing and shotgun proteomics

  • First Published May 2, 2011
Resource

RNA-sequence analysis of human B-cells

  • First Published May 2, 2011
Method

Transcript amplification from single bacterium for transcriptome analysis

  • First Published May 2, 2011
Erratum

Erratum

  • First Published May 2, 2011
Insight/Outlook

Genomic contributions to Mendelian disease

  • First Published May 2, 2011
Editorial

Scope note

  • First Published May 2, 2011
Method

Prioritizing candidate disease genes by network-based boosting of genome-wide association data

  • First Published May 2, 2011
Research

Combinatorial binding of transcription factors in the pluripotency control regions of the genome

  • First Published April 28, 2011
Research

DNA methylation profiling reveals novel biomarkers and important roles for DNA methyltransferases in prostate cancer

  • First Published April 26, 2011
Method

Association studies for next-generation sequencing

  • First Published April 26, 2011
Method

Distinct DNA methylation patterns associated with active and inactive centromeres of the maize B chromosome

  • First Published April 25, 2011
Research

Human population dispersal “Out of Africa” estimated from linkage disequilibrium and allele frequencies of SNPs

  • First Published April 25, 2011
Research

XIST locus" > Comparative analysis of the primate X-inactivation center region and reconstruction of the ancestral primate XIST locus

  • First Published April 25, 2011
Research

Stable and dynamic nucleosome states during a meiotic developmental process

  • First Published April 22, 2011
Research

Slc35b4, regulates obesity and glucose homeostasis" > Deep congenic analysis identifies many strong, context-dependent QTLs, one of which, Slc35b4, regulates obesity and glucose homeostasis

  • First Published April 19, 2011
Resource

A method for detecting IBD regions simultaneously in multiple individuals—with applications to disease genetics

  • First Published April 14, 2011
Research

Aspergillus fumigatus infection" > Collaborative Cross mice and their power to map host susceptibility to Aspergillus fumigatus infection

  • First Published April 14, 2011
Research

KIF1A in hereditary spastic paraparesis" > Exome sequencing and disease-network analysis of a single family implicate a mutation in KIF1A in hereditary spastic paraparesis

  • First Published April 12, 2011
Resource

ECHO: A reference-free short-read error correction algorithm

  • First Published April 11, 2011
Research

Origin of amphibian and avian chromosomes by fission, fusion, and retention of ancestral chromosomes

  • First Published April 11, 2011
Method

Characterization of metalloproteins by high-throughput X-ray absorption spectroscopy

  • First Published April 11, 2011
Method

Differential genome-wide profiling of tandem 3′ UTRs among human breast cancer and normal cells by high-throughput sequencing

  • First Published April 7, 2011
Method

Calling Cards enable multiplexed identification of the genomic targets of DNA-binding proteins

  • First Published April 6, 2011
Research

Diverse gene reprogramming events occur in the same spatial clusters of distal regulatory elements

  • First Published April 6, 2011
Research

Arabidopsis thaliana" > Genetic architecture of regulatory variation in Arabidopsis thaliana

  • First Published April 5, 2011
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