Kane Hadley
A5032870071- Genetic Associations and Epidemiology
- Bioinformatics and Genomic Networks
- RNA Research and Splicing
- Mycobacterium research and diagnosis
- Single-cell and spatial transcriptomics
- vaccines and immunoinformatics approaches
- Tuberculosis Research and Epidemiology
- Genomics and Chromatin Dynamics
- RNA modifications and cancer
- SARS-CoV-2 and COVID-19 Research
- Acute Ischemic Stroke Management
- Genomics and Phylogenetic Studies
- COVID-19 Clinical Research Studies
- Gene expression and cancer classification
- Molecular Biology Techniques and Applications
- Nutrition, Genetics, and Disease
- Advanced Proteomics Techniques and Applications
- Genetic Mapping and Diversity in Plants and Animals
- Cancer-related molecular mechanisms research
- Genetic and Clinical Aspects of Sex Determination and Chromosomal Abnormalities
- Genetics, Aging, and Longevity in Model Organisms
- Telomeres, Telomerase, and Senescence
- Organ Transplantation Techniques and Outcomes
- Genomics and Rare Diseases
- Liver Disease and Transplantation
University of Aberdeen
2023
Thermo Fisher Scientific (Sweden)
2020
Broad Institute
2018
Harvard University
2018
Massachusetts Institute of Technology
2018
Rensselaer Polytechnic Institute
2011-2014
The Genotype-Tissue Expression (GTEx) project dissects how genetic variation affects gene expression and splicing.
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...
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)...
Cell type composition, estimated from bulk tissue, maps the cellular specificity of genetic variants.
Telomere length within an individual varies in a correlated manner across most tissues.
Effective presentation of antigens by human leukocyte antigen (HLA) class I molecules to CD8+ T cells is required for viral elimination and generation long-term immunological memory. In this study, we applied a single-cell, multiomic technology generate unified ex vivo characterization the cell response severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2) across four major HLA alleles. We found that genotype conditions key features epitope specificity, TCRα/β sequence diversity,...
Outliers in the human transcriptome reveal functional effects of rare genetic variants.
Abstract Allele expression (AE) analysis robustly measures cis -regulatory effects. Here, we present and demonstrate the utility of a vast AE resource generated from GTEx v8 release, containing 15,253 samples spanning 54 human tissues for total 431 million measurements at SNP level 153 haplotype level. In addition, develop an extension our tool phASER that allows effect sizes variants to be estimated using haplotype-level data. This is largest date, are able make data publicly available. We...
We develop a novel approach for incorporating expert rules into Bayesian networks classification of Mycobacterium tuberculosis complex (MTBC) clades. The proposed knowledge-based network (KBBN) treats sets as prior distributions on the classes. Unlike support vector machine approaches which require expressed polyhedral sets, KBBN directly incorporates without any modification. uses data to refine rule-based classifiers when rule set is incomplete or ambiguous. predictive model 69 MTBC clades...
Abstract Effective presentation of antigens by HLA class I molecules to CD8 + T cells is required for viral elimination and generation long-term immunological memory. In this study, we applied a single-cell, multi-omic technology generate the first unified ex vivo characterization cell response SARS-CoV-2 across 4 major alleles. We found that genotype conditions key features epitope specificity, TCR α/β sequence diversity, utilization pre-existing reactive memory pools. Single-cell...
We develop a novel knowledge-based Bayesian network (KBBN) that models our knowledge of the Mycobacterium tuberculosis complex (MTBC) obtained from expert-defined rules and large DNA fingerprint databases to classify strains MTBC into fifty-one genetic sublineages. The model uses two high-throughput biomarkers: spacer oligonucleotide types (spoligotypes) mycobacterial interspersed repetitive units (MIRU) represent MTBC, since these are routinely gathered isolates (TB) patients. KBBN provides...
age matched healthy controls who experienced no adverse effects following vaccination.All patients received the Astra-Zeneca vaccine.Methods: Levels of plasmin-antiplasmin (PAP) complexes, plasminogen, and alpha2-anti-plasmin in citrated plasma from 11 with VITT, 9 VTE-noVITT, 27 COVID-19 vaccinated were evaluated by ELISA ( presented as mean+/-SD) and/or western blotting.Fibrinolytic capacity was tested quantitating PAP levels at baseline after ex-vivo stimulation 50nM tissue-type...