J. Todd Auman
A5060942736- Cancer Genomics and Diagnostics
- Colorectal Cancer Treatments and Studies
- Genetic factors in colorectal cancer
- RNA modifications and cancer
- Cholangiocarcinoma and Gallbladder Cancer Studies
- Lung Cancer Treatments and Mutations
- Receptor Mechanisms and Signaling
- Molecular Biology Techniques and Applications
- Ferroptosis and cancer prognosis
- Neuropeptides and Animal Physiology
- Epigenetics and DNA Methylation
- MicroRNA in disease regulation
- Nicotinic Acetylcholine Receptors Study
- Chromatin Remodeling and Cancer
- DNA Repair Mechanisms
- Pharmacogenetics and Drug Metabolism
- Glioma Diagnosis and Treatment
- Gastric Cancer Management and Outcomes
- Cancer-related molecular mechanisms research
- HER2/EGFR in Cancer Research
- Ovarian cancer diagnosis and treatment
- Cancer therapeutics and mechanisms
- Renal cell carcinoma treatment
- Cancer-related Molecular Pathways
- Cancer, Hypoxia, and Metabolism
University of North Carolina at Chapel Hill
2012-2023
Triangle
2023
Integrated Laboratory Systems, Inc.
2023
UNC Lineberger Comprehensive Cancer Center
2012-2018
Oregon Health & Science University
2012
National Institute of Environmental Health Sciences
2007-2011
National Institutes of Health
2007-2011
Duke Medical Center
1994-2002
Duke University Hospital
1994-2002
Duke University
2000-2002
We analysed primary breast cancers by genomic DNA copy number arrays, methylation, exome sequencing, messenger RNA microRNA sequencing and reverse-phase protein arrays. Our ability to integrate information across platforms provided key insights into previously defined gene expression subtypes demonstrated the existence of four main cancer classes when combining data from five platforms, each which shows significant molecular heterogeneity. Somatic mutations in only three genes (TP53, PIK3CA...
We performed an integrated genomic, transcriptomic and proteomic characterization of 373 endometrial carcinomas using array- sequencing-based technologies. Uterine serous tumours ∼25% high-grade endometrioid had extensive copy number alterations, few DNA methylation changes, low oestrogen receptor/progesterone receptor levels, frequent TP53 mutations. Most alterations or mutations, but mutations in PTEN, CTNNB1, PIK3CA, ARID1A KRAS novel the SWI/SNF chromatin remodelling complex gene ARID5B....
The Cancer Genome Atlas profiled 279 head and neck squamous cell carcinomas (HNSCCs) to provide a comprehensive landscape of somatic genomic alterations. Here we show that human-papillomavirus-associated tumours are dominated by helical domain mutations the oncogene PIK3CA, novel alterations involving loss TRAF3, amplification cycle gene E2F1. Smoking-related HNSCCs demonstrate near universal loss-of-function TP53 CDKN2A inactivation with frequent copy number including 3q26/28 11q13/22. A...
Diffuse low-grade and intermediate-grade gliomas (which together make up the lower-grade gliomas, World Health Organization grades II III) have highly variable clinical behavior that is not adequately predicted on basis of histologic class. Some are indolent; others quickly progress to glioblastoma. The uncertainty compounded by interobserver variability in diagnosis. Mutations IDH, TP53, ATRX codeletion chromosome arms 1p 19q (1p/19q codeletion) been implicated as clinically relevant...
Cholangiocarcinoma (CCA) is an aggressive malignancy of the bile ducts, with poor prognosis and limited treatment options. Here, we describe integrated analysis somatic mutations, RNA expression, copy number, DNA methylation by The Cancer Genome Atlas a set predominantly intrahepatic CCA cases propose molecular classification scheme. We identified IDH mutant-enriched subtype distinct features including low expression chromatin modifiers, elevated mitochondrial genes, increased number....
Significance A significant proportion of head and neck cancer is driven by human papillomavirus (HPV) infection, the expression viral oncogenes involved in development these tumors. However, role HPV integration primary tumors beyond increasing oncoproteins not understood. Here, we describe how impacts host genome amplification disruption tumor suppressors as well driving inter- intrachromosomal rearrangements. Tumors that do have integrants display distinct gene profiles DNA methylation...
Mitochondria are essential cellular organelles that play critical roles in cancer. Here, as part of the International Cancer Genome Consortium/The Atlas Pan-Cancer Analysis Whole Genomes Consortium, which aggregated whole-genome sequencing data from 2,658 cancers across 38 tumor types, we performed a multidimensional, integrated characterization mitochondrial genomes and related RNA data. Our analysis presents most definitive mutational landscape identifies several hypermutated cases....
Highlights•Multi-omics definition of four robust molecular TET subtypes associated with survival•Thymomas have the lowest mutational burden among adult cancers•Enrichment HRAS, NRAS, TP53, and recurrent GTF2I mutations are observed•Expression autoimmune targets aneuploidy links thymoma to myasthenia gravisSummaryThymic epithelial tumors (TETs) one rarest malignancies. Among TETs, is most predominant, characterized by a unique association diseases, followed thymic carcinoma, which less common...
Mechanistic insights into kidney cancer Many clear cell renal carcinomas (ccRCCs) have alterations to the gene encoding von Hippel-Lindau protein (VHL). VHL is a ubiquitin ligase that degrades target proteins when they are prolyl-hydroxylated. Zhang et al. performed genome-wide search for (see Perspective by Sanchez and Simon). They identified ZHX2, with structural motifs indicate DNA binding. ZHX2 has been implicated in tumor suppression. Loss of inhibited signaling through transcription...
Abstract Many primary tumours have low levels of molecular oxygen (hypoxia), and hypoxic respond poorly to therapy. Pan-cancer hallmarks tumour hypoxia remain understood, with limited comprehension its associations specific mutational processes, non-coding driver genes evolutionary features. Here, as part the ICGC/TCGA Pan-Cancer Analysis Whole Genomes (PCAWG) Consortium, which aggregated whole genome sequencing data from 2658 cancers across 38 types, we quantify in 1188 spanning 27 cancer...
Abstract Sex differences have been observed in multiple facets of cancer epidemiology, treatment and biology, most cancers outside the sex organs. Efforts to link these clinical specific molecular features focused on somatic mutations within coding regions genome. Here we report a pan-cancer analysis whole genomes 1983 tumours 28 subtypes as part ICGC/TCGA Pan-Cancer Analysis Whole Genomes (PCAWG) Consortium. We both confirm results exome studies, also uncover previously undescribed...
This report details the standardized experimental design and different data streams that were collected (histopathology, clinical chemistry, hematology gene expression from target tissue (liver) a bio-available (blood)) after treatment with eight known hepatotoxicants (at multiple time points doses biological replicates). The results of study demonstrate classification histopathological differences, likely reflecting differences in mechanisms cell-specific toxicity, using either liver or...
Microarrays have been used to evaluate the expression of thousands genes in various tissues. However, few studies investigated change gene profiles one most easily accessible tissues, whole blood. We utilized an acute inflammation model investigate possibility using a cDNA microarray measure profile cells Blood was collected from male Sprague-Dawley rats at 2 and 6 h after treatment with 5 mg/kg (ip) LPS. Hematology showed marked neutrophilia accompanied by lymphopenia both time points....