Andrew Brown
A5049834415- Genetic Associations and Epidemiology
- Bioinformatics and Genomic Networks
- Genetic Mapping and Diversity in Plants and Animals
- Gene expression and cancer classification
- Genomics and Chromatin Dynamics
- RNA Research and Splicing
- Genomics and Phylogenetic Studies
- Epigenetics and DNA Methylation
- Genetics and Neurodevelopmental Disorders
- Pancreatic function and diabetes
- RNA modifications and cancer
- Liver Disease Diagnosis and Treatment
- Chromosomal and Genetic Variations
- Functional Brain Connectivity Studies
- Genomic variations and chromosomal abnormalities
- Aortic aneurysm repair treatments
- Archaeology and ancient environmental studies
- Recycling and Waste Management Techniques
- Cancer-related molecular mechanisms research
- Pacific and Southeast Asian Studies
- Bipolar Disorder and Treatment
- Glaucoma and retinal disorders
- Sports injuries and prevention
- Municipal Solid Waste Management
- Metabolism, Diabetes, and Cancer
Genomics (United Kingdom)
2019-2025
University of Dundee
2019-2025
Marshall University
2023-2025
Ninewells Hospital
2021-2024
University of Pennsylvania
2013-2024
Edward Via College of Osteopathic Medicine
2024
Organisation de Coopération et de Développement Economiques
2021-2024
Directorate of Health
2024
Riverside Methodist Hospital
2024
OhioHealth
2024
Characterization of the molecular function human genome and its variation across individuals is essential for identifying cellular mechanisms that underlie genetic traits diseases. The Genotype-Tissue Expression (GTEx) project aims to characterize in gene expression levels diverse tissues body, many which are not easily accessible. Here we describe effects on 44 tissues. We find local affects majority genes, further identify inter-chromosomal 93 genes 112 loci. On basis identified effects,...
The Genotype-Tissue Expression (GTEx) project dissects how genetic variation affects gene expression and splicing.
DNA sequence information underpins genetic research, enabling discoveries of important biological or medical benefit. Sequencing projects have traditionally used long (400–800 base pair) reads, but the existence reference sequences for human and many other genomes makes it possible to develop new, fast approaches re-sequencing, whereby shorter reads are compared a identify intraspecies variation. Here we report an approach that generates several billion bases accurate nucleotide per...
Abstract Scalable, integrative methods to understand mechanisms that link genetic variants with phenotypes are needed. Here we derive a mathematical expression compute PrediXcan (a gene mapping approach) results using summary data (S-PrediXcan) and show its accuracy general robustness misspecified reference sets. We apply this framework 44 GTEx tissues 100+ from GWAS meta-analysis studies, creating growing public catalog of associations seeks capture the effects variation on human...
Summary While many disease-associated variants have been identified through genome-wide association studies, their downstream molecular consequences remain unclear. To identify these effects, we performed cis- and trans-expression quantitative trait locus (eQTL) analysis in blood from 31,684 individuals the eQTLGen Consortium. We observed that cis -eQTLs can be detected for 88% of studied genes, but they a different genetic architecture compared to variants, limiting our ability use pinpoint...
Many complex human phenotypes exhibit sex-differentiated characteristics. However, the molecular mechanisms underlying these differences remain largely unknown. We generated a catalog of sex in gene expression and genetic regulation across 44 tissue sources surveyed by Genotype-Tissue Expression project (GTEx, v8 release). demonstrate that influences levels cellular composition samples body. A total 37% all genes sex-biased at least one tissue. identify cis quantitative trait loci (eQTLs)...
In order to discover quantitative trait loci, multi-dimensional genomic datasets combining DNA-seq and ChiP-/RNA-seq require methods that rapidly correlate tens of thousands molecular phenotypes with millions genetic variants while appropriately controlling for multiple testing.We have developed FastQTL, a method implements popular cis-QTL mapping strategy in user- cluster-friendly tool. FastQTL also proposes an efficient permutation procedure control testing. The outcome permutations is...
Cell type composition, estimated from bulk tissue, maps the cellular specificity of genetic variants.
P- and E-selectins are adhesion molecules mediating the first step in leukocyte extravasation. Because their function is overlapping, we hypothesized that there might be a combined effect of these selectins on development atherosclerotic lesions. We bred E-selectin-double-deficient mice onto low-density lipoprotein receptor (LDLR)-deficient background (LDLR-/- P/E-/-) compared lesion to wild type for both P/E+/+). After 8 wk atherogenic diet, LDLR-/- P/E-/- developed fatty streaks aortic...
Insulators are DNA sequences that control the interactions among genomic regulatory elements and act as chromatin boundaries. A thorough understanding of their location function is necessary to address complexities metazoan gene regulation. We studied by ChIP–chip genome-wide binding sites 6 insulator-associated proteins—dCTCF, CP190, BEAF-32, Su(Hw), Mod(mdg4), GAF—to obtain first comprehensive map insulator in Drosophila embryos. identify over 14,000 putative insulators, including all...
Abstract Population scale studies combining genetic information with molecular phenotypes (for example, gene expression) have become a standard to dissect the effects of variants onto organismal phenotypes. These kinds data sets require powerful, fast and versatile methods able discover Quantitative Trait Loci (molQTL). Here we propose such solution, QTLtools, modular framework that contains multiple new well-established prepare data, proximal distal molQTLs and, finally, integrate them GWAS...
Abstract Background Previous studies have demonstrated that gene expression levels change with age. These changes are hypothesized to influence the aging rate of an individual. We analyzed age in abdominal skin, subcutaneous adipose tissue and lymphoblastoid cell lines 856 female twins range 39-85 years. Additionally, we investigated genotypic variants involved genotype-by-age interactions understand how genomic regulation alters Results Using a linear mixed model, differential was...
Abstract The Genotype-Tissue Expression (GTEx) project was established to characterize genetic effects on the transcriptome across human tissues, and link these regulatory mechanisms trait disease associations. Here, we present analyses of v8 data, based 17,382 RNA-sequencing samples from 54 tissues 948 post-mortem donors. We comprehensively associations for gene expression splicing in cis trans , showing that are found almost all genes, describe underlying molecular their contribution...
Genetic variants in cis-regulatory elements or trans-acting regulators commonly influence the quantity and spatiotemporal distribution of gene transcription. Recent interest expression quantitative trait locus (eQTL) mapping has paralleled adoption genome-wide association studies (GWAS) for analysis complex traits disease humans. Under hypothesis that many GWAS associations tag non-coding SNPs with small effects, these exert phenotypic control by modifying expression, it become common to...