Daniel Brewer
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View article: Methylation reprogramming associated with aggressive prostate cancer and ancestral disparities
Methylation reprogramming associated with aggressive prostate cancer and ancestral disparities Open
African men are disproportionately impacted by aggressive prostate cancer (PCa). The key to this disparity is both genetic and environmental factors, alluding to epigenetic modifications. However, African-inclusive prostate tumour DNA meth…
View article: Prostate cancer clinicopathological presentation in South-East Africa during the 2010 decade
Prostate cancer clinicopathological presentation in South-East Africa during the 2010 decade Open
Prostate cancer is the leading cause of cancer-associated death among men across Sub-Saharan Africa, with Southern and East Africa ranking first and fifth globally. However, lack of coordinated national cancer registries has biased data to…
View article: Causes of evolutionary divergence in prostate cancer.
Causes of evolutionary divergence in prostate cancer. Open
Cancer progression involves the sequential accumulation of genetic alterations that cumulatively shape the tumour phenotype. In prostate cancer, tumours can follow divergent evolutionary trajectories that lead to distinct subtypes, but the…
View article: Epidemiology of Cholesteatoma in the <scp>UK</scp> Biobank
Epidemiology of Cholesteatoma in the <span>UK</span> Biobank Open
Objectives To identify factors associated with cholesteatoma in a large UK cohort. Although some risk factors are frequently reported (male sex, history of chronic otitis media), other associations require further evidence (deprivation, sm…
View article: Applications of Urinary Extracellular Vesicles in the Diagnosis and Active Surveillance of Prostate Cancer
Applications of Urinary Extracellular Vesicles in the Diagnosis and Active Surveillance of Prostate Cancer Open
Prostate cancer is the most common non-cutaneous cancer among men in the UK, causing significant health and economic burdens. Diagnosis and risk prognostication can be challenging due to the genetic and clinical heterogeneity of prostate c…
View article: Cancer invasion and anaerobic bacteria: new insights into mechanisms
Cancer invasion and anaerobic bacteria: new insights into mechanisms Open
There is growing evidence that altered microbiota abundance of a range of specific anaerobic bacteria are associated with cancer, including Peptoniphilus spp., Porphyromonas spp., Fusobacterium spp., Fenollaria spp., Prevotella spp., Sneat…
View article: The extracellular heparan sulfatase SULF2 limits myeloid IFNβ signaling and Th17 responses in inflammatory arthritis
The extracellular heparan sulfatase SULF2 limits myeloid IFNβ signaling and Th17 responses in inflammatory arthritis Open
Heparan sulfate (HS) proteoglycans are important regulators of cellular responses to soluble mediators such as chemokines, cytokines and growth factors. We profiled changes in expression of genes encoding HS core proteins, biosynthesis enz…
View article: Major data analysis errors invalidate cancer microbiome findings
Major data analysis errors invalidate cancer microbiome findings Open
We re-analyzed the data from a recent large-scale study that reported strong correlations between DNA signatures of microbial organisms and 33 different cancer types and that created machine-learning predictors with near-perfect accuracy a…
View article: Caution regarding the specificities of pan-cancer microbial structure
Caution regarding the specificities of pan-cancer microbial structure Open
Results published in an article by Poore et al . ( Nature . 2020;579:567–574) suggested that machine learning models can almost perfectly distinguish between tumour types based on their microbial composition using machine learning models. …
View article: Major data analysis errors invalidate cancer microbiome findings
Major data analysis errors invalidate cancer microbiome findings Open
We re-analyzed the data from a recent large-scale study that reported strong correlations between microbial organisms and 33 different cancer types, and that created machine learning predictors with near-perfect accuracy at distinguishing …
View article: Data from A Gene Expression–Based Predictor for Myeloma Patients at High Risk of Developing Bone Disease on Bisphosphonate Treatment
Data from A Gene Expression–Based Predictor for Myeloma Patients at High Risk of Developing Bone Disease on Bisphosphonate Treatment Open
Purpose: Myeloma bone disease impairs quality of life and is associated with impaired survival. Even with effective bisphosphonate treatment, a significant proportion of patients still develop skeletal-related events (SRE). Identifying suc…
View article: Supplementary Tables 1-4 from A Gene Expression–Based Predictor for Myeloma Patients at High Risk of Developing Bone Disease on Bisphosphonate Treatment
Supplementary Tables 1-4 from A Gene Expression–Based Predictor for Myeloma Patients at High Risk of Developing Bone Disease on Bisphosphonate Treatment Open
PDF file - 186KB
View article: Supplementary Figure 1 from A Gene Expression–Based Predictor for Myeloma Patients at High Risk of Developing Bone Disease on Bisphosphonate Treatment
Supplementary Figure 1 from A Gene Expression–Based Predictor for Myeloma Patients at High Risk of Developing Bone Disease on Bisphosphonate Treatment Open
PDF file - 28KB
View article: Supplementary Tables 1-4 from A Gene Expression–Based Predictor for Myeloma Patients at High Risk of Developing Bone Disease on Bisphosphonate Treatment
Supplementary Tables 1-4 from A Gene Expression–Based Predictor for Myeloma Patients at High Risk of Developing Bone Disease on Bisphosphonate Treatment Open
PDF file - 186KB
View article: Supplementary Figure 1 from A Gene Expression–Based Predictor for Myeloma Patients at High Risk of Developing Bone Disease on Bisphosphonate Treatment
Supplementary Figure 1 from A Gene Expression–Based Predictor for Myeloma Patients at High Risk of Developing Bone Disease on Bisphosphonate Treatment Open
PDF file - 28KB
View article: Data from A Gene Expression–Based Predictor for Myeloma Patients at High Risk of Developing Bone Disease on Bisphosphonate Treatment
Data from A Gene Expression–Based Predictor for Myeloma Patients at High Risk of Developing Bone Disease on Bisphosphonate Treatment Open
Purpose: Myeloma bone disease impairs quality of life and is associated with impaired survival. Even with effective bisphosphonate treatment, a significant proportion of patients still develop skeletal-related events (SRE). Identifying suc…
View article: Author Correction: The landscape of viral associations in human cancers
Author Correction: The landscape of viral associations in human cancers Open
Correction to: Nature Genetics, published online 05 February 2020. In the published version of this paper, the members of the Pan-Cancer Analysis of Whole Genomes (PCAWG) Consortium were listed in the Supplementary Information; however, th…
View article: Whole exome sequencing study identifies candidate loss of function variants and locus heterogeneity in familial cholesteatoma
Whole exome sequencing study identifies candidate loss of function variants and locus heterogeneity in familial cholesteatoma Open
Cholesteatoma is a rare progressive disease of the middle ear. Most cases are sporadic, but some patients report a positive family history. Identifying functionally important gene variants associated with this disease has the potential to …
View article: Gene-Transcript Expression in Urine Supernatant and Urine Cell-Sediment Are Different but Equally Useful for Detecting Prostate Cancer
Gene-Transcript Expression in Urine Supernatant and Urine Cell-Sediment Are Different but Equally Useful for Detecting Prostate Cancer Open
There is considerable interest in urine as a non-invasive liquid biopsy to detect prostate cancer (PCa). PCa-specific transcripts such as the TMPRSS2:ERG fusion gene can be found in both urine extracellular vesicles (EVs) and urine cell-se…
View article: Caution Regarding the Specificities of Pan-Cancer Microbial Structure
Caution Regarding the Specificities of Pan-Cancer Microbial Structure Open
The results published in Poore and Kopylova et al . 2020[1] revealed the possibility of being able to almost perfectly differentiate between types of tumour based on their microbial composition using machine learning models. Whilst we beli…
View article: Combining Molecular Subtypes with Multivariable Clinical Models Has the Potential to Improve Prediction of Treatment Outcomes in Prostate Cancer at Diagnosis
Combining Molecular Subtypes with Multivariable Clinical Models Has the Potential to Improve Prediction of Treatment Outcomes in Prostate Cancer at Diagnosis Open
Clinical management of prostate cancer is challenging because of its highly variable natural history and so there is a need for improved predictors of outcome in non-metastatic men at the time of diagnosis. In this study we calculated the …
View article: Whole exome sequencing study identifies candidate loss of function variants and locus heterogeneity in familial cholesteatoma
Whole exome sequencing study identifies candidate loss of function variants and locus heterogeneity in familial cholesteatoma Open
Cholesteatoma is a rare progressive disease of the middle ear. Most cases are sporadic, but some patients report a positive family history. Identifying functionally important gene variants associated with this disease has the potential to …
View article: Rare Germline Variants Are Associated with Rapid Biochemical Recurrence After Radical Prostate Cancer Treatment: A Pan Prostate Cancer Group Study
Rare Germline Variants Are Associated with Rapid Biochemical Recurrence After Radical Prostate Cancer Treatment: A Pan Prostate Cancer Group Study Open
Prostate cancer patients with particular genetic mutations have a higher chance of relapsing after initial radical treatment, potentially providing opportunities to identify patients who might need additional treatments earlier.
View article: APOBEC3 mutational signatures are associated with extensive and diverse genomic instability across multiple tumour types
APOBEC3 mutational signatures are associated with extensive and diverse genomic instability across multiple tumour types Open
Background The APOBEC3 (apolipoprotein B mRNA editing enzyme catalytic polypeptide 3) family of cytidine deaminases is responsible for two mutational signatures (SBS2 and SBS13) found in cancer genomes. APOBEC3 enzymes are activated in res…
View article: A Model to Detect Significant Prostate Cancer Integrating Urinary Peptide and Extracellular Vesicle RNA Data
A Model to Detect Significant Prostate Cancer Integrating Urinary Peptide and Extracellular Vesicle RNA Data Open
There is a clinical need to improve assessment of biopsy-naïve patients for the presence of clinically significant prostate cancer (PCa). In this study, we investigated whether the robust integration of expression data from urinary extrace…