A5017881471- Cancer Genomics and Diagnostics
- Gene expression and cancer classification
- Congenital heart defects research
- Epigenetics and DNA Methylation
- Bioinformatics and Genomic Networks
- Mitochondrial Function and Pathology
- Genetics, Bioinformatics, and Biomedical Research
- AI in cancer detection
- Genomics and Rare Diseases
- Machine Learning in Bioinformatics
- Topic Modeling
- Genomics and Phylogenetic Studies
- Pancreatic and Hepatic Oncology Research
- Cancer Cells and Metastasis
- RNA modifications and cancer
- Lung Cancer Treatments and Mutations
- Genomic variations and chromosomal abnormalities
- Evolution and Genetic Dynamics
- Molecular Biology Techniques and Applications
- Gene Regulatory Network Analysis
- Ethics in Clinical Research
- Pharmacological Effects and Toxicity Studies
- Genetics and Neurodevelopmental Disorders
- Folate and B Vitamins Research
- Livestock Farming and Management
Nvidia (United Kingdom)
2024
Cancer Research UK Cambridge Center
2019-2021
Genomics (United Kingdom)
2019-2021
University of Oxford
2015-2019
University of Cambridge
2017-2018
Cancer Research UK
2017-2018
Boehringer Ingelheim (United States)
2016
University of Nottingham
2011-2012
The small East African Shorthorn Zebu (EASZ) is the main indigenous cattle across Africa. A recent genome wide SNP analysis revealed an ancient stable taurine x Asian zebu admixture. Here, we assess presence of candidate signatures positive selection in their genome, with aim to provide qualitative insights about corresponding selective pressures. Four hundred and twenty-five EASZ four reference populations (Holstein-Friesian, Jersey, N'Dama Nellore) were analysed using 46,171 SNPs covering...
Patient-Derived Tumour Xenografts (PDTXs) have emerged as the pre-clinical models that best represent clinical tumour diversity and intra-tumour heterogeneity. The molecular characterization of PDTXs using High-Throughput Sequencing (HTS) is essential; however, presence mouse stroma challenging for HTS data analysis. Indeed, high homology between two genomes results in a proportion reads being mapped human.
Therapies that restore renal cGMP levels are hypothesized to slow the progression of diabetic nephropathy. We investigated effect BI 703704, a soluble guanylate cyclase (sGC) activator, on disease in obese ZSF1 rats. 703704 was administered at doses 0.3, 1, 3, and 10 mg/kg/d male rats for 15 weeks, during which mean arterial pressure (MAP), heart rate (HR), urinary protein excretion (UPE) were determined. Histologic assessment glomerular interstitial lesions also performed. Renal quantified...
The use of genome-wide methylation arrays has proved very informative to investigate both clinical and biological questions in human epigenomics. clustering methods either for exploration these data or compare an a priori grouping, e.g., normal versus disease allows assessment groupings without user bias. However no consensus on the array approaches been reached. To determine most appropriate method analysis illumina data, collection sets was simulated used methods. Both hierarchical...
Summary: We are building the world's first Virtual Child–a computer model of normal and cancerous human development at level each individual cell. The Child will “develop cancer” that we subject to unlimited virtual clinical trials pinpoint, predict, prioritize potential new treatments, bringing forward day when no child dies cancer, giving one opportunity lead a full healthy life.
The cranial sensory ganglia represent populations of neurons with distinct functions, or modalities. production individual from neurogenic placodes different developmental pathways provides a powerful model to investigate the acquisition specific To date there is limited range gene markers available examine molecular underlying this process. Transcriptional profiles were generated for differentiated purified using microdissection in embryonic chicken followed by FAC-sorting and RNAseq. Whole...
Pathology archives with linked clinical data are an invaluable resource for translational research, the limitation that most cancer samples formalin-fixed paraffin-embedded (FFPE) tissues. Therefore, FFPE tissues important genomic profiling studies but under-utilised due to low amount and quality of extracted nucleic acids. We profiled copy number landscape 356 breast patients using DNA by shallow whole genome sequencing. generated a total 491 sequencing libraries from 2 kits obtained 98.4%...
Abstract Autism spectrum disorder (ASD) is a complex neurodevelopmental disease whose underpinning molecular mechanisms and neural substrates are subject to intense scrutiny. Interestingly, the cerebellum has emerged as one of key brain regions affected in ASD. However, genetic that link ASD, particularly during development, remain poorly understood. To gain insight into might we analysed transcriptome dynamics developing cell population highly enriched for Purkinje cells mouse across...
Antiepileptic drugs (AEDs) can lower maternal folate and increase homocysteine levels, which are known to affect the methyl cycle hence DNA methylation levels. The influence of in utero exposure AEDs on fetal was investigated. Genome-wide epigenomic profiles were determined using Infinium 27K BeadArray from Illumina (San Diego, CA, U.S.A.). array measures approximately 27,000 CpG loci associated with 14,496 genes at single-nucleotide resolution. Eighteen cord blood samples (nine babies...
Cancer is first and foremost a disease of the genome. Specific genetic signatures within tumour are prognostic outcome, reflect subclonal architecture intratumour heterogeneity, inform treatment choices predict emergence resistance to targeted therapies. Minimally invasive liquid biopsies can give temporal resolution tumour’s profile allow monitoring response through levels circulating DNA (ctDNA). However, detection ctDNA in repeated currently limited by economic time constraints associated...
Analysis of somatic mutation profiles from cancer patients is essential in the development research. However, low frequency most mutations and varying rates across makes data extremely challenging to statistically analyze as well difficult use classification problems, for clustering, visualization or learning useful information. Thus, creation dimensional representations that hold information about DNA cells will facilitate such applications progress precision medicine. In this paper, we...
The potential benefits of applying machine learning methods to -omics data are becoming increasingly apparent, especially in clinical settings. However, the unique characteristics these not always well suited techniques. These often generated across different technologies labs, and frequently with high dimensionality. In this paper we present a framework for combining sets, handling dimensional data, making research more accessible applications. We demonstrate success through integration...
Artificial Intelligence models encoding biology and chemistry are opening new routes to high-throughput high-quality in-silico drug development. However, their training increasingly relies on computational scale, with recent protein language (pLM) hundreds of graphical processing units (GPUs). We introduce the BioNeMo Framework facilitate AI across GPUs. Its modular design allows integration individual components, such as data loaders, into existing workflows is open community contributions....
Sporadic cancer develops from the accrual of somatic mutations. Out all small-scale aberrations in coding regions, 95% are base substitutions, with 90% being missense While multiple studies focused on importance this mutation type, a machine learning method based number protein–protein interactions (PPIs) has not been fully explored. This study aims to develop an improved computational for driver identification, validation and evaluation (DRIVE), which is compared other methods assessing its...
ABSTRACT Subtyping of tumor transcriptome expression profiles is a routine method used to distinguish heterogeneity. Unsupervised clustering techniques are often combined with survival analysis decipher the relationship between genes and times patients. However, reproducibility these subtyping based studies poor. There multiple reports which have conflicting subtype gene-survival time results. In this study, we introduce issues underlying lack in transcriptomic studies. This problem arises...
ABSTRACT Pathology archives with linked clinical data are an invaluable resource for translational research, the limitation that most cancer samples formalin-fixed paraffin-embedded (FFPE) tissues. Therefore, FFPE tissues important genomic profiling studies but under-utilised due to low amount and quality of extracted nucleic acids. We profiled copy number landscape 356 breast patients using DNA by shallow whole genome sequencing. generated a total 491 sequencing libraries from 2 kits...
Subtyping of tumor transcriptome expression profiles is a routine method used to distinguish heterogeneity. Unsupervised clustering techniques are often combined with survival analysis decipher the relationship between genes and times patients. However, reproducibility these subtyping based studies poor. There multiple reports which have conflicting subtype gene-survival time results. In this study, we introduce issues underlying lack in transcriptomic studies. This problem arises from small...