Department of Physiology and Biophysics
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Assessing technical performance in differential gene expression experiments with external spike-in RNA control ratio mixtures.
Nature communications , 2014 | Pubmed ID: 25254650
Identification of tightly regulated groups of genes during Drosophila melanogaster embryogenesis.
Molecular systems biology , 2007 | Pubmed ID: 17224916
Rapid identification of disease-causing mutations using copy number analysis within linkage intervals.
Human mutation Dec, 2007 | Pubmed ID: 17676595
Novel NTRK1 mutations cause hereditary sensory and autonomic neuropathy type IV: demonstration of a founder mutation in the Turkish population.
Neurogenetics May, 2008 | Pubmed ID: 18322713
Genomic analysis of estrogen cascade reveals histone variant H2A.Z associated with breast cancer progression.
Molecular systems biology , 2008 | Pubmed ID: 18414489
Personalized genomic medicine with a patchwork, partially owned genome.
The Yale journal of biology and medicine Dec, 2007 | Pubmed ID: 18449389
RNA-seq: an assessment of technical reproducibility and comparison with gene expression arrays.
Genome research Sep, 2008 | Pubmed ID: 18550803
Developmental stage and level of codon usage bias in Drosophila.
Molecular biology and evolution Nov, 2008 | Pubmed ID: 18755761
Molecular characterization of a patient with 3p deletion syndrome and a review of the literature.
American journal of medical genetics. Part A Nov, 2008 | Pubmed ID: 18837054
Susceptibility loci for intracranial aneurysm in European and Japanese populations.
Nature genetics Dec, 2008 | Pubmed ID: 18997786
Genomic mapping of binding regions for the Ecdysone receptor protein complex.
Genome research Jun, 2009 | Pubmed ID: 19237466
Functional and evolutionary insights into human brain development through global transcriptome analysis.
Neuron May, 2009 | Pubmed ID: 19477152
The syndrome of pachygyria, mental retardation, and arachnoid cysts maps to 11p15.
American journal of medical genetics. Part A Nov, 2009 | Pubmed ID: 19876906
Location analysis for the estrogen receptor-alpha reveals binding to diverse ERE sequences and widespread binding within repetitive DNA elements.
Nucleic acids research Apr, 2010 | Pubmed ID: 20047966
L-histidine decarboxylase and Tourette's syndrome.
The New England journal of medicine May, 2010 | Pubmed ID: 20445167
Standardizing the next generation of bioinformatics software development with BioHDF (HDF5).
Advances in experimental medicine and biology , 2010 | Pubmed ID: 20865556
Multiple recurrent de novo CNVs, including duplications of the 7q11.23 Williams syndrome region, are strongly associated with autism.
Neuron Jun, 2011 | Pubmed ID: 21658581
A genome sequence resource for the aye-aye (Daubentonia madagascariensis), a nocturnal lemur from Madagascar.
Genome biology and evolution , 2012 | Pubmed ID: 22155688
Detecting false-positive signals in exome sequencing.
Human mutation Apr, 2012 | Pubmed ID: 22294350
Faster sequencers, larger datasets, new challenges.
Genome biology , 2012 | Pubmed ID: 22452984
Comprehensive analysis of mRNA methylation reveals enrichment in 3' UTRs and near stop codons.
Cell Jun, 2012 | Pubmed ID: 22608085
Base-pair resolution DNA methylation sequencing reveals profoundly divergent epigenetic landscapes in acute myeloid leukemia.
PLoS genetics , 2012 | Pubmed ID: 22737091
Limitations of the human reference genome for personalized genomics.
PloS one , 2012 | Pubmed ID: 22811759
Recurrent somatic TET2 mutations in normal elderly individuals with clonal hematopoiesis.
Nature genetics Nov, 2012 | Pubmed ID: 23001125
methylKit: a comprehensive R package for the analysis of genome-wide DNA methylation profiles.
Genome biology Oct, 2012 | Pubmed ID: 23034086
The birth of the Epitranscriptome: deciphering the function of RNA modifications.
Genome biology , 2012 | Pubmed ID: 23113984
The non-human primate reference transcriptome resource (NHPRTR) for comparative functional genomics.
Nucleic acids research Jan, 2013 | Pubmed ID: 23203872
Two methods for full-length RNA sequencing for low quantities of cells and single cells.
Proceedings of the National Academy of Sciences of the United States of America Jan, 2013 | Pubmed ID: 23267071
Relapse-specific mutations in NT5C2 in childhood acute lymphoblastic leukemia.
Nature genetics Mar, 2013 | Pubmed ID: 23377183
Novel RNA regulatory mechanisms revealed in the epitranscriptome.
RNA biology Feb, 2013 | Pubmed ID: 23434792
Pervasive sequence patents cover the entire human genome.
Genome medicine , 2013 | Pubmed ID: 23522065
Induction of prolonged early G1 arrest by CDK4/CDK6 inhibition reprograms lymphoma cells for durable PI3Kδ inhibition through PIK3IP1.
Cell cycle (Georgetown, Tex.) Jun, 2013 | Pubmed ID: 23676220
An optimized algorithm for detecting and annotating regional differential methylation.
BMC bioinformatics , 2013 | Pubmed ID: 23735126
Small heat shock proteins Hspb7 and Hspb12 regulate early steps of cardiac morphogenesis.
Developmental biology Sep, 2013 | Pubmed ID: 23850773
A hybrid mechanism of action for BCL6 in B cells defined by formation of functionally distinct complexes at enhancers and promoters.
Cell reports Aug, 2013 | Pubmed ID: 23911289
Comprehensive evaluation of differential gene expression analysis methods for RNA-seq data.
Genome biology , 2013 | Pubmed ID: 24020486
Induction of sarcomas by mutant IDH2.
Genes & development Sep, 2013 | Pubmed ID: 24065766
Crowdfunding genomics and bioinformatics.
Genome biology , 2013 | Pubmed ID: 24079746
Identification of kinase fusion oncogenes in post-Chernobyl radiation-induced thyroid cancers.
The Journal of clinical investigation Nov, 2013 | Pubmed ID: 24135138
Deletion of Asxl1 results in myelodysplasia and severe developmental defects in vivo.
The Journal of experimental medicine Nov, 2013 | Pubmed ID: 24218140
Characterizing multi-omic data in systems biology.
Advances in experimental medicine and biology , 2014 | Pubmed ID: 24292960
A rat RNA-Seq transcriptomic BodyMap across 11 organs and 4 developmental stages.
Nature communications , 2014 | Pubmed ID: 24510058
Assessment and improvement of Indian-origin rhesus macaque and Mauritian-origin cynomolgus macaque genome annotations using deep transcriptome sequencing data.
Journal of medical primatology Oct, 2014 | Pubmed ID: 24810475
The pivotal regulatory landscape of RNA modifications.
Annual review of genomics and human genetics , 2014 | Pubmed ID: 24898039
Cell-cycle reprogramming for PI3K inhibition overrides a relapse-specific C481S BTK mutation revealed by longitudinal functional genomics in mantle cell lymphoma.
Cancer discovery Sep, 2014 | Pubmed ID: 25082755
Multi-platform assessment of transcriptome profiling using RNA-seq in the ABRF next-generation sequencing study.
Nature biotechnology Sep, 2014 | Pubmed ID: 25150835
Detecting and correcting systematic variation in large-scale RNA sequencing data.
Nature biotechnology Sep, 2014 | Pubmed ID: 25150837
Dynamic evolution of clonal epialleles revealed by methclone.
Genome biology Sep, 2014 | Pubmed ID: 25260792
Enabling large-scale next-generation sequence assembly with Blacklight.
Concurrency and computation : practice & experience Sep, 2014 | Pubmed ID: 25294974
Tissue-specific transcriptome sequencing analysis expands the non-human primate reference transcriptome resource (NHPRTR).
Nucleic acids research Jan, 2015 | Pubmed ID: 25392405
genomation: a toolkit to summarize, annotate and visualize genomic intervals.
Bioinformatics (Oxford, England) Nov, 2014 | Pubmed ID: 25417204
DNA hydroxymethylation profiling reveals that WT1 mutations result in loss of TET2 function in acute myeloid leukemia.
Cell reports Dec, 2014 | Pubmed ID: 25482556
An integrative computational approach for prioritization of genomic variants.
PloS one , 2014 | Pubmed ID: 25506935
Comparative exomics of Phalaris cultivars under salt stress.
BMC genomics Oct, 2014 | Pubmed ID: 25573273
MiR-29a maintains mouse hematopoietic stem cell self-renewal by regulating Dnmt3a.
Blood Jan, 2015 | Pubmed ID: 25634742
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