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List of works by Matthew Vaughn

Arabidopsis thaliana chromosome 4 replicates in two phases that correlate with chromatin state.

scientific article

Araport: an application platform for data discovery

Araport: the Arabidopsis information portal

scientific article

Argonaute slicing is required for heterochromatic silencing and spreading

scientific article

CENP-B preserves genome integrity at replication forks paused by retrotransposon LTR.

scientific article

Comparative functional genomics of the fission yeasts

scientific article

Comparing DNA replication programs reveals large timing shifts at centromeres of endocycling cells in maize roots

scientific article published on 14 October 2020

Comprehensive analysis of imprinted genes in maize reveals allelic variation for imprinting and limited conservation with other species

scientific article

Efficient parallel and out of core algorithms for constructing large bi-directed de Bruijn graphs

scientific article

Epigenetic and genetic influences on DNA methylation variation in maize populations

article

Epigenetic natural variation in Arabidopsis thaliana

scientific article

Epigenetic reprogramming and small RNA silencing of transposable elements in pollen

scientific article published on February 2009

Epigenomic consequences of immortalized plant cell suspension culture

scientific article

Examining the Causes and Consequences of Context-Specific Differential DNA Methylation in Maize.

scientific article

Finding the right template: RNA Pol IV, a plant-specific RNA polymerase

scientific article

Genetic perturbation of the maize methylome

scientific article published on 19 December 2014

Genome-Wide Analysis of the Arabidopsis thaliana Replication Timing Program

scientific article published on 4 January 2018

Genome-wide transposon tagging reveals location-dependent effects on transcription and chromatin organization in Arabidopsis

scientific article

Genomic Analysis of the DNA Replication Timing Program during Mitotic S Phase in Maize (Zea mays) Root Tips

scientific article published on 25 August 2017

Genomic distribution of H3K9me2 and DNA methylation in a maize genome

scientific article

Genomic distribution of maize facultative heterochromatin marked by trimethylation of H3K27

article

Heritable epigenetic variation among maize inbreds

scientific article

In vivo mapping of arabidopsis scaffold/matrix attachment regions reveals link to nucleosome-disfavoring poly(dA:dT) tracts

scientific article published on 31 January 2014

It's a small RNA world, after all.

scientific article published in September 2005

Jetstream

Leveraging the national cyberinfrastructure for biomedical research

scientific article (publication date: 2014)

Lid2 is required for coordinating H3K4 and H3K9 methylation of heterochromatin and euchromatin

scientific article published on October 2008

Mapping epigenetic mutations in fission yeast using whole-genome next-generation sequencing

scientific article

MicroRNA-targeted and small interfering RNA-mediated mRNA degradation is regulated by argonaute, dicer, and RNA-dependent RNA polymerase in Arabidopsis.

scientific article

Parent-of-origin effects on gene expression and DNA methylation in the maize endosperm

scientific article published in December 2011

Platform for Automated Real-Time High Performance Analytics on Medical Image Data

scientific article published on 01 March 2018

Protein phosphorylation plays a key role in sucrose-mediated transcriptional regulation of a phloem-specific proton-sucrose symporter.

scientific article published on 14 March 2003

RNA-directed DNA methylation enforces boundaries between heterochromatin and euchromatin in the maize genome

scientific article

Replication, repair, and reactivation.

scientific article

Repliscan: a tool for classifying replication timing regions

scientific article published on 07 August 2017

Role of transposable elements in heterochromatin and epigenetic control

scientific article (publication date: 22 July 2004)

S. pombe LSD1 Homologs Regulate Heterochromatin Propagation and Euchromatic Gene Transcription

article

Spreading of heterochromatin is limited to specific families of maize retrotransposons

scientific article

Subtle Perturbations of the Maize Methylome Reveal Genes and Transposons Silenced by Chromomethylase or RNA-Directed DNA Methylation Pathways.

scientific article

Sucrose-mediated transcriptional regulation of sucrose symporter activity in the phloem

scientific article

ThaleMine: A Warehouse for Arabidopsis Data Integration and Discovery

scientific article

The Arabidopsis Information Portal: An Application Platform for Data Discovery

The B73 Maize Genome: Complexity, Diversity, and Dynamics

scientific article

The Next Generation of Training for Arabidopsis Researchers: Bioinformatics and Quantitative Biology.

scientific article published in December 2017

The development of an Arabidopsis model system for genome-wide analysis of polyploidy effects

scientific article

The fission yeast Jmj2 reverses histone H3 Lysine 4 trimethylation

scientific article

The iPlant Collaborative: Cyberinfrastructure for Enabling Data to Discovery for the Life Sciences

scientific article

The iPlant Collaborative: Cyberinfrastructure for Plant Biology

scientific article published in 2011

Variation in DNA Methylation Patterns is More Common among Maize Inbreds than among Tissues

scientific article published in 2013

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