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Minfi: a flexible and comprehensive Bioconductor package for the analysis of Infinium DNA methylation microarrays
TLDR
MOTIVATION The recently released Infinium HumanMethylation450 array (the '450k' array) provides a high-throughput assay to quantify DNA methylation (DNAm) at ∼450 000 loci across a range of genomic features. Expand
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GUIDE-Seq enables genome-wide profiling of off-target cleavage by CRISPR-Cas nucleases
CRISPR RNA-guided nucleases (RGNs) are widely used genome-editing reagents, but methods to delineate their genome-wide, off-target cleavage activities have been lacking. Here we describe an approachExpand
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Epigenome-wide association data implicate DNA methylation as an intermediary of genetic risk in Rheumatoid Arthritis
Epigenetic mechanisms integrate genetic and environmental causes of disease, but comprehensive genome-wide analyses of epigenetic modifications have not yet demonstrated robust association withExpand
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Engineered CRISPR-Cas9 nucleases with altered PAM specificities
Although CRISPR-Cas9 nucleases are widely used for genome editing, the range of sequences that Cas9 can recognize is constrained by the need for a specific protospacer adjacent motif (PAM). As aExpand
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Differential methylation of tissue- and cancer-specific CpG island shores distinguishes human induced pluripotent stem cells, embryonic stem cells and fibroblasts
Induced pluripotent stem (iPS) cells are derived by epigenetic reprogramming, but their DNA methylation patterns have not yet been analyzed on a genome-wide scale. Here, we find substantialExpand
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Genome-wide specificities of CRISPR-Cas Cpf1 nucleases in human cells
The activities and genome-wide specificities of CRISPR-Cas Cpf1 nucleases are not well defined. We show that two Cpf1 nucleases from Acidaminococcus sp. BV3L6 and Lachnospiraceae bacterium ND2006Expand
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Dimeric CRISPR RNA-guided FokI nucleases for highly specific genome editing
Monomeric CRISPR-Cas9 nucleases are widely used for targeted genome editing but can induce unwanted off-target mutations with high frequencies. Here we describe dimeric RNA-guided FokI nucleasesExpand
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Androgen-induced TOP2B mediated double strand breaks and prostate cancer gene rearrangements
DNA double-strand breaks (DSBs) can lead to the development of genomic rearrangements, which are hallmarks of cancer. Fusions between TMPRSS2, encoding the transmembrane serine protease isoform 2,Expand
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Global Causes of Diarrheal Disease Mortality in Children <5 Years of Age: A Systematic Review
Estimation of pathogen-specific causes of child diarrhea deaths is needed to guide vaccine development and other prevention strategies. We did a systematic review of articles published between 1990Expand
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Diarrhea incidence in low- and middle-income countries in 1990 and 2010: a systematic review
BackgroundDiarrhea is recognized as a leading cause of morbidity and mortality among children under 5 years of age in low- and middle-income countries yet updated estimates of diarrhea incidence byExpand
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