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List of works by Tyson A Clark

A biphasic epigenetic switch controls immunoevasion, virulence and niche adaptation in non-typeable Haemophilus influenzae

scientific article

A comparative analysis of methylome profiles of Campylobacter jejuni sheep abortion isolate and gastroenteric strains using PacBio data.

scientific article

A genome-wide approach to identify genetic variants that contribute to etoposide-induced cytotoxicity.

scientific article

A random six-phase switch regulates pneumococcal virulence via global epigenetic changes

scientific article

ANOSVA: a statistical method for detecting splice variation from expression data

scientific article

Aberrant alternative splicing and extracellular matrix gene expression in mouse models of myotonic dystrophy.

scientific article

Affy exon tissues: exon levels in normal tissues in human, mouse and rat.

scientific article published on July 2009

Alternative pre-mRNA splicing switches modulate gene expression in late erythropoiesis.

scientific article published on 04 February 2009

Alternative splicing and differential gene expression in colon cancer detected by a whole genome exon array.

scientific article

Alternative splicing regulates mouse embryonic stem cell pluripotency and differentiation

scientific article

Analysis of RNA base modification and structural rearrangement by single-molecule real-time detection of reverse transcription ⬇️

scientific article published on April 3, 2013

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

scientific article

Androgen Receptor Variant AR-V9 Is Coexpressed with AR-V7 in Prostate Cancer Metastases and Predicts Abiraterone Resistance.

scientific article published on 4 May 2017

Characterization of DNA methyltransferase specificities using single-molecule, real-time DNA sequencing

scientific article

Characterization of fusion genes and the significantly expressed fusion isoforms in breast cancer by hybrid sequencing.

scientific article

Comparative Genomics Reveals the Diversity of Restriction-Modification Systems and DNA Methylation Sites in Listeria monocytogenes

scientific article published on 11 November 2016

Comparative genomics of enterohemorrhagic Escherichia coli O145:H28 demonstrates a common evolutionary lineage with Escherichia coli O157:H7

scientific article published on 10 January 2014

Complete Genome Sequence Analysis of Bacillus subtilis T30.

scientific article

Complete Genome Sequence of Moraxella catarrhalis Strain CCRI-195ME, Isolated from the Middle Ear.

scientific article

Complete Genome Sequences of Two Escherichia coli O145:H28 Outbreak Strains of Food Origin.

scientific article

Covalent Modification of Bacteriophage T4 DNA Inhibits CRISPR-Cas9.

scientific article

DNA Methylation Assessed by SMRT Sequencing Is Linked to Mutations in Neisseria meningitidis Isolates.

scientific article published on 11 December 2015

Defining the sequence requirements for the positioning of base J in DNA using SMRT sequencing.

scientific article

Detecting DNA modifications from SMRT sequencing data by modeling sequence context dependence of polymerase kinetic

scientific article

Detection and measurement of alternative splicing using splicing-sensitive microarrays.

scientific article published in December 2005

Direct detection and sequencing of damaged DNA bases

scientific article

Discovery of tissue-specific exons using comprehensive human exon microarrays

scientific article published in 2007

Enhanced 5-methylcytosine detection in single-molecule, real-time sequencing via Tet1 oxidation

scientific article

Evaluation of genetic variation contributing to differences in gene expression between populations

scientific article published on 28 February 2008

Exploring functional relationships between components of the gene expression machinery.

scientific article published on 30 January 2005

Genetic Stabilization of the Drug-Resistant PMEN1 Pneumococcus Lineage by Its Distinctive DpnIII Restriction-Modification System

scientific article

Genome-wide mapping of methylated adenine residues in pathogenic Escherichia coli using single-molecule real-time sequencing

scientific article

Genome-wide methylation patterns in Salmonella enterica Subsp. enterica Serovars

scientific article

Genomic mapping of phosphorothioates reveals partial modification of short consensus sequences

scientific article

Global methylation state at base-pair resolution of the Caulobacter genome throughout the cell cycle

scientific article

HITS-CLIP yields genome-wide insights into brain alternative RNA processing

scientific article

Heritability of alternative splicing in the human genome

scientific article published in August 2007

Human transcriptome array for high-throughput clinical studies.

scientific article

Identification of common genetic variants that account for transcript isoform variation between human populations.

scientific article published on 04 December 2008

Identification of genetic variants contributing to cisplatin-induced cytotoxicity by use of a genomewide approach

scientific article

Identification of restriction-modification systems of Bifidobacterium animalis subsp. lactis CNCM I-2494 by SMRT sequencing and associated methylome analysis

scientific article

Methods for Genome-Wide Methylome Profiling of Campylobacter jejuni.

scientific article published on January 2017

Methylomic and phenotypic analysis of the ModH5 phasevarion of Helicobacter pylori

scientific article published on 23 November 2017

ModM DNA methyltransferase methylome analysis reveals a potential role for Moraxella catarrhalis phasevarions in otitis media.

scientific article

Modeling kinetic rate variation in third generation DNA sequencing data to detect putative modifications to DNA bases

scientific article

Nova regulates brain-specific splicing to shape the synapse

scientific article

Novel m4C modification in type I restriction-modification systems

scientific article published on 31 August 2016

Position-dependent alternative splicing activity revealed by global profiling of alternative splicing events regulated by PTB.

scientific article

RNAmotifs: prediction of multivalent RNA motifs that control alternative splicing

scientific article

Removal of a single alpha-tubulin gene intron suppresses cell cycle arrest phenotypes of splicing factor mutations in Saccharomyces cerevisiae

scientific article published on February 2002

SMRT-Cappable-seq reveals complex operon variants in bacteria

scientific article published in Nature Communications

Sensitive and specific single-molecule sequencing of 5-hydroxymethylcytosine.

scientific article

Simultaneous sequencing of oxidized methylcytosines produced by TET/JBP dioxygenases in Coprinopsis cinerea

scientific article

Specificity of the ModA11, ModA12 and ModD1 epigenetic regulator N(6)-adenine DNA methyltransferases of Neisseria meningitidis.

scientific article

The Epigenomic Landscape of Prokaryotes

scientific article

The methylomes of six bacteria

scientific article

The methylomes of six bacteria

Ultraconserved elements are associated with homeostatic control of splicing regulators by alternative splicing and nonsense-mediated decay

scientific article published on March 2007

Unusual intron conservation near tissue-regulated exons found by splicing microarrays

scientific article

Unveiling the complexity of the maize transcriptome by single-molecule long-read sequencing

scientific article published on 24 June 2016

Whole-genome assembly of Klebsiella pneumoniae coproducing NDM-1 and OXA-232 carbapenemases using single-molecule, real-time sequencing.

scientific article

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