A5045117528- Cancer Genomics and Diagnostics
- Genomics and Phylogenetic Studies
- Genomics and Rare Diseases
- Cancer-related molecular mechanisms research
- Nutrition, Genetics, and Disease
- RNA Research and Splicing
- Cancer, Lipids, and Metabolism
- Gene expression and cancer classification
- Chromosomal and Genetic Variations
- Identification and Quantification in Food
- Genetics, Bioinformatics, and Biomedical Research
- BRCA gene mutations in cancer
- Sperm and Testicular Function
- Acute Myeloid Leukemia Research
- Ovarian function and disorders
- Acute Lymphoblastic Leukemia research
- interferon and immune responses
- Evolution and Paleontology Studies
- Biological Research and Disease Studies
- Evolution and Genetic Dynamics
- Diet and metabolism studies
- Genetic Associations and Epidemiology
- Primate Behavior and Ecology
- Adipose Tissue and Metabolism
- Genomic variations and chromosomal abnormalities
Oregon Health & Science University
2016-2023
Oregon National Primate Research Center
2016-2019
National Research Council
2016
University of Oregon
2014
Ingo Braasch, John Postlethwait and colleagues report the genome of spotted gar (Lepisosteus oculatus), whose lineage diverged from teleosts before duplication. Their data provide insights into evolution genes involved in immunity, mineralization development facilitate comparison cis-regulatory elements between humans. To connect human biology to fish biomedical models, we sequenced teleost duplication (TGD). The slowly evolving has conserved content size many entire chromosomes bony...
Abstract The Cancer Genome Atlas (TCGA) and International Consortium (ICGC) curated consensus somatic mutation calls using whole exome sequencing (WES) genome (WGS), respectively. Here, as part of the ICGC/TCGA Pan-Cancer Analysis Whole Genomes (PCAWG) Consortium, which aggregated data from 2,658 cancers across 38 tumour types, we compare WES WGS side-by-side 746 TCGA samples, finding that ~80% mutations overlap in covered exonic regions. We estimate low variant allele fraction (VAF <...
Rhesus macaques are widely used in biomedical research, but the application of genomic information this species to better understand human disease is still its infancy. Whole-genome sequence (WGS) data large pedigreed macaque colonies could provide substantial experimental power for genetic discovery, collection WGS cohorts remains a formidable expense. Here, we describe cost-effective approach that selects most informative pedigree 30X WGS, followed by low-cost genotyping-by-sequencing...
Whereas the metabolic consequences of obesity have been studied extensively in rhesus macaque, corollary genetic studies are nonexistent. This study assessed contributions to spontaneous adiposity this species. Phenotypic variation by age class and sex for BMI, waist height ratio, thigh circumference was 583 macaques. Total sex-specific heritability all traits estimated, including ratio adjusted as well genotypic phenotypic correlations. In addition, functional at BDNF, FTO, LEP, LEPR, MC4R,...
ABSTRACT Background Rhesus macaques are widely used in biomedical research, but the application of genomic information this species to better understand human disease is still undeveloped. Whole-genome sequence (WGS) data pedigreed macaque colonies could provide substantial experimental power, collection WGS large cohorts remains a formidable expense. Here, we describe cost-effective approach that selects most informative pedigree for whole-genome sequencing, and imputes these dense marker...
Recent data indicate that HDL function has effects independent of cholesterol (HDL-C) levels better predict cardiovascular risk. We aimed to characterize sterol efflux across a wide range HDL-C, and identify genetic determinants for both traits in non-human primate model. To do this, we took advantage rhesus macaque families display spontaneous, extreme variation HDL-C (range 13-106 mg/dL), but have total cholesterol, LDL-C, triglyceride considered normal humans. hypothesized regulation...
HDL protein composition and corresponding function may impact cardiovascular disease risk. Identifying genetic variation that influences the proteome reveal modifiable functions this We studied determinants of in a cohort rhesus macaques enriched for extreme cholesterol levels (HDL-c). selected from 2 distinct paternal half-sibships, each comprising 8 half-sib pairs matched age-class sex, but with large differences HDL-c (N=22 genomes). was isolated by ultracentrifugation cargo analyzed mass...