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List of works by Martin J. Aryee

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A comparative risk assessment of burden of disease and injury attributable to 67 risk factors and risk factor clusters in 21 regions, 1990-2010: a systematic analysis for the Global Burden of Disease Study 2010.

scientific article published in December 2012
Minfi: a flexible and comprehensive Bioconductor package for the analysis of Infinium DNA methylation microarrays

scientific article
Differential methylation of tissue- and cancer-specific CpG island shores distinguishes human induced pluripotent stem cells, embryonic stem cells and fibroblasts

scientific article
GUIDE-seq enables genome-wide profiling of off-target cleavage by CRISPR-Cas nucleases

scientific article
Engineered CRISPR-Cas9 nucleases with altered PAM specificities

scientific article
Dimeric CRISPR RNA-guided FokI nucleases for highly specific genome editing

scientific article published on April 25, 2014
Epigenome-wide association data implicate DNA methylation as an intermediary of genetic risk in rheumatoid arthritis

scientific article
Comprehensive methylome map of lineage commitment from haematopoietic progenitors

scientific article
Androgen-induced TOP2B-mediated double-strand breaks and prostate cancer gene rearrangements

scientific article published on 4 July 2010
Donor cell type can influence the epigenome and differentiation potential of human induced pluripotent stem cells

scientific article
Global causes of diarrheal disease mortality in children <5 years of age: a systematic review

scientific article
Genome-wide specificities of CRISPR-Cas Cpf1 nucleases in human cells.

scientific article published on 27 June 2016
Diarrhea incidence in low- and middle-income countries in 1990 and 2010: a systematic review

scientific article published on March 21, 2012
A cell epigenotype specific model for the correction of brain cellular heterogeneity bias and its application to age, brain region and major depression

scientific article published on 20 February 2013
Personalized epigenomic signatures that are stable over time and covary with body mass index

scientific article
DNA methylation alterations exhibit intraindividual stability and interindividual heterogeneity in prostate cancer metastases

scientific article published on January 2013
Reversible switching between epigenetic states in honeybee behavioral subcastes

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

scientific article published on 5 March 2012
EWS-FLI1 utilizes divergent chromatin remodeling mechanisms to directly activate or repress enhancer elements in Ewing sarcoma

scientific article published on 30 October 2014
CIRCLE-seq: a highly sensitive in vitro screen for genome-wide CRISPR-Cas9 nuclease off-targets

scientific article
Epigenome-wide association studies without the need for cell-type composition

scientific article
Coverage recommendations for methylation analysis by whole-genome bisulfite sequencing

scientific article
Transcriptome-wide off-target RNA editing induced by CRISPR-guided DNA base editors

scientific article published on 17 April 2019
Integrated Single-Cell Analysis Maps the Continuous Regulatory Landscape of Human Hematopoietic Differentiation

scientific article published on 25 April 2018
GeMes, clusters of DNA methylation under genetic control, can inform genetic and epigenetic analysis of disease

scientific article published on 20 March 2014
Estimating Diarrhea Mortality among Young Children in Low and Middle Income Countries

scientific article published on January 3, 2012
Genome-Wide DNA Methylation Scan in Major Depressive Disorder

scientific article published on April 12, 2012
An improved empirical bayes approach to estimating differential gene expression in microarray time-course data: BETR (Bayesian Estimation of Temporal Regulation).

scientific article
In vivo CRISPR editing with no detectable genome-wide off-target mutations

scientific article published in Nature
Alterations in nucleolar structure and gene expression programs in prostatic neoplasia are driven by the MYC oncogene

scientific article
Accurate genome-scale percentage DNA methylation estimates from microarray data

scientific article
Engineered CRISPR-Cas12a variants with increased activities and improved targeting ranges for gene, epigenetic and base editing

article
DNA methylation shows genome-wide association of NFIX, RAPGEF2 and MSRB3 with gestational age at birth

scientific article
CRISPR DNA base editors with reduced RNA off-target and self-editing activities

scientific article published on 02 September 2019
Chromosome-wide mapping of DNA methylation patterns in normal and malignant prostate cells reveals pervasive methylation of gene-associated and conserved intergenic sequences

scientific article
Stromal Microenvironment Shapes the Intratumoral Architecture of Pancreatic Cancer

scientific article published on 30 May 2019
Dissecting hematopoietic and renal cell heterogeneity in adult zebrafish at single-cell resolution using RNA sequencing.

scientific article
Lineage Tracing in Humans Enabled by Mitochondrial Mutations and Single-Cell Genomics

scientific article published on 28 February 2019
Subset quantile normalization using negative control features

scientific article
Lysine demethylase KDM4A associates with translation machinery and regulates protein synthesis

scientific article published on 6 January 2015
Activities and specificities of CRISPR/Cas9 and Cas12a nucleases for targeted mutagenesis in maize

scientific article published on 22 July 2018
Droplet-based combinatorial indexing for massive-scale single-cell chromatin accessibility

scientific article published on 24 June 2019
Epigenetic evolution and lineage histories of chronic lymphocytic leukaemia

scientific article published on 15 May 2019
MET Exon 14 Skipping in Non-Small Cell Lung Cancer.

scientific article published on 28 March 2016
Interrogation of human hematopoiesis at single-cell and single-variant resolution

scientific article published on 11 March 2019
Comprehensive high-throughput arrays for relative methylation (CHARM)

scientific article published on 01 April 2010
Open-source guideseq software for analysis of GUIDE-seq data.

scientific article
Response to "Unexpected mutations after CRISPR-Cas9 editing in vivo"

High levels of AAV vector integration into CRISPR-induced DNA breaks

scientific article published on 30 September 2019
Adaptation of the CHARM DNA methylation platform for the rat genome reveals novel brain region-specific differences

scientific article published on November 1, 2011

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