Peter A. Stockwell
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View article: Comparing DNA Methylation Landscapes in Peripheral Blood from Myalgic Encephalomyelitis/Chronic Fatigue Syndrome and Long COVID Patients
Comparing DNA Methylation Landscapes in Peripheral Blood from Myalgic Encephalomyelitis/Chronic Fatigue Syndrome and Long COVID Patients Open
Post-viral conditions, Myalgic Encephalomyelitis/Chronic Fatigue Syndrome (ME/CFS) and Long COVID (LC), share > 95% of their symptoms, but the connection between disturbances in their underlying molecular biology is unclear. This study inv…
View article: Comparing DNA Methylation Landscapes in Peripheral Blood from Myalgic Encephalomyelitis/Chronic Fatigue Syndrome and Long COVID Patients
Comparing DNA Methylation Landscapes in Peripheral Blood from Myalgic Encephalomyelitis/Chronic Fatigue Syndrome and Long COVID Patients Open
Post-viral conditions, Myalgic Encephalomyelitis/Chronic Fatigue Syndrome (ME/CFS) and Long COVID (LC), share >95% of their symptoms, but the connection between disturbances in their underlying molecular biology is unclear. This stu…
View article: Pre-treatment DNA methylome and transcriptome profiles correlate with melanoma response to anti-PD1 immunotherapy
Pre-treatment DNA methylome and transcriptome profiles correlate with melanoma response to anti-PD1 immunotherapy Open
Successful immune checkpoint inhibitor (ICI) therapy occurs in only a fraction of melanoma patients, and yet all patients are susceptible to potentially serious ICI-related side-effects. No current biomarkers robustly predict ICI treatment…
View article: DMAP2: A Pipeline for Analysis of Whole‐Genome‐Scale DNA Methylation Sequencing Data
DMAP2: A Pipeline for Analysis of Whole‐Genome‐Scale DNA Methylation Sequencing Data Open
DNA methylation is well‐established as a major epigenetic mechanism that can control gene expression and is involved in both normal development and disease. Analysis of high‐throughput‐sequencing‐based DNA methylation data is a step toward…
View article: DNA Methylome and Transcriptome Maps of Primary Colorectal Cancer and Matched Liver Metastasis
DNA Methylome and Transcriptome Maps of Primary Colorectal Cancer and Matched Liver Metastasis Open
Sequencing-based genome-wide DNA methylation, gene expression studies and associated data on paired colorectal cancer (CRC) primary and liver metastasis are very limited. We have profiled the DNA methylome and transcriptome of matched prim…
View article: The transposable element-derived transcript of LIN28B has a placental origin and is not specific to tumours
The transposable element-derived transcript of LIN28B has a placental origin and is not specific to tumours Open
Transposable elements (TEs) are genetic elements that have evolved as crucial regulators of human development and cancer, functioning as both genes and regulatory elements. When TEs become dysregulated in cancer cells, they can serve as al…
View article: An epigenetic signature of advanced colorectal cancer metastasis
An epigenetic signature of advanced colorectal cancer metastasis Open
Colorectal cancer (CRC) is a leading cause of morbidity and mortality worldwide. The majority of CRC deaths are caused by tumor metastasis, even following treatment. There is strong evidence for epigenetic changes, such as DNA methylation,…
View article: Dynamic Epigenetic Changes during a Relapse and Recovery Cycle in Myalgic Encephalomyelitis/Chronic Fatigue Syndrome
Dynamic Epigenetic Changes during a Relapse and Recovery Cycle in Myalgic Encephalomyelitis/Chronic Fatigue Syndrome Open
Myalgic Encephalomyelitis/Chronic Fatigue Syndrome (ME/CFS) is a complex disease with variable severity. Patients experience frequent relapses where symptoms increase in severity, leaving them with a marked reduction in quality of life. Pr…
View article: Innate immune checkpoint inhibitor resistance is associated with melanoma sub-types exhibiting invasive and de-differentiated gene expression signatures
Innate immune checkpoint inhibitor resistance is associated with melanoma sub-types exhibiting invasive and de-differentiated gene expression signatures Open
Melanoma is a highly aggressive skin cancer, which, although highly immunogenic, frequently escapes the body’s immune defences. Immune checkpoint inhibitors (ICI), such as anti-PD1, anti-PDL1, and anti-CTLA4 antibodies lead to reactivation…
View article: Dynamic Epigenetic Changes during a Relapse and Recovery Cycle in Myalgic Encephalomyelitis/Chronic Fatigue Syndrome
Dynamic Epigenetic Changes during a Relapse and Recovery Cycle in Myalgic Encephalomyelitis/Chronic Fatigue Syndrome Open
Background Myalgic Encephalomyelitis/Chronic Fatigue Syndrome (ME/CFS) is a complex disease with variable severity throughout the ongoing illness. Patients experience relapses where symptoms increase in severity, leaving them with a marked…
View article: The Mouse Papillomavirus Epigenetic Signature Is Characterised by DNA Hypermethylation after Lesion Regression
The Mouse Papillomavirus Epigenetic Signature Is Characterised by DNA Hypermethylation after Lesion Regression Open
Papillomaviruses (PVs) are double-stranded DNA tumour viruses that can infect cutaneous and mucosal epidermis. Human papillomavirus (HPV) types have been linked to the causality of cutaneous squamous cell carcinoma (cSCC); however, HPV DNA…
View article: Transcriptional Reprogramming and Constitutive PD-L1 Expression in Melanoma Are Associated with Dedifferentiation and Activation of Interferon and Tumour Necrosis Factor Signalling Pathways
Transcriptional Reprogramming and Constitutive PD-L1 Expression in Melanoma Are Associated with Dedifferentiation and Activation of Interferon and Tumour Necrosis Factor Signalling Pathways Open
Melanoma is the most aggressive type of skin cancer, with increasing incidence worldwide. Advances in targeted therapy and immunotherapy have improved the survival of melanoma patients experiencing recurrent disease, but unfortunately trea…
View article: Transcriptional reprogramming and constitutive PD-L1 expression in melanoma are associated with dedifferentiation and activation of interferon and tumor necrosis factor signaling pathways
Transcriptional reprogramming and constitutive PD-L1 expression in melanoma are associated with dedifferentiation and activation of interferon and tumor necrosis factor signaling pathways Open
Melanoma is the most aggressive type of skin cancer, with increasing incidence worldwide. Advances in targeted therapy and immunotherapy have improved the survival of melanoma patients experiencing recurrent disease, but unfortunately trea…
View article: Comparison of Global DNA Methylation Patterns in Human Melanoma Tissues and Their Derivative Cell Lines
Comparison of Global DNA Methylation Patterns in Human Melanoma Tissues and Their Derivative Cell Lines Open
DNA methylation is a heritable epigenetic mark that is fundamental to mammalian development. Aberrant DNA methylation is an epigenetic hallmark of cancer cells. Cell lines are a critical in vitro model and very widely used to unravel mecha…
View article: Genome-wide DNA methylation of the liver reveals delayed effects of early-life exposure to 17-α-ethinylestradiol in the self-fertilizing mangrove rivulus
Genome-wide DNA methylation of the liver reveals delayed effects of early-life exposure to 17-α-ethinylestradiol in the self-fertilizing mangrove rivulus Open
Organisms exposed to endocrine disruptors in early life can show altered phenotype later in adulthood. Although the mechanisms underlying these long-term effects remain poorly understood, an increasing body of evidence points towards the p…
View article: The mouse papillomavirus epigenetic signature is characterised by DNA hypermethylation after lesion regression
The mouse papillomavirus epigenetic signature is characterised by DNA hypermethylation after lesion regression Open
The β genus of human papillomaviruses (HPVs) infect cutaneous epidermis. They contribute to the development of cutaneous squamous cell carcinoma (cSCC) in individuals with epidermodysplasia verruciformis, and increase susceptibility to UV-…
View article: Genome-Wide DNA Methylation and RNA Expression Differences Correlate with Invasiveness in Melanoma Cell Lines
Genome-Wide DNA Methylation and RNA Expression Differences Correlate with Invasiveness in Melanoma Cell Lines Open
Aims & objectives: The aim of this study was to investigate the role of DNA methylation in invasiveness in melanoma cells. Materials & methods: The authors carried out genome-wide transcriptome (RNA sequencing) and reduced representation b…
View article: Genome-wide DNA methylation of the liver reveals delayed effects of early-life exposure to 17-α-ethinylestradiol in the self-fertilizing mangrove rivulus
Genome-wide DNA methylation of the liver reveals delayed effects of early-life exposure to 17-α-ethinylestradiol in the self-fertilizing mangrove rivulus Open
Organisms exposed to endocrine disruptors in early life can show altered phenotype later in adulthood. Although the mechanisms underlying these long-term effects remain poorly understood, an increasing body of evidence points towards the p…
View article: High-Quality Assemblies for Three Invasive Social Wasps from the <i>Vespula</i> Genus
High-Quality Assemblies for Three Invasive Social Wasps from the <i>Vespula</i> Genus Open
Social wasps of the genus Vespula have spread to nearly all landmasses worldwide and have become significant pests in their introduced ranges, affecting economies and biodiversity. Comprehensive genome assemblies and annotations for these …
View article: Annotations of three Vespula wasps. Vespula vulgaris, Vespula pensylvanica, Vespula germanica
Annotations of three Vespula wasps. Vespula vulgaris, Vespula pensylvanica, Vespula germanica Open
The annotations of the three wasp genomes, Vespula vulgaris, Vespula germanica, Vespula pensylvanica. These were annotated together based off of RNA-Seq and AUGUSTUS training with Vespula vulgaris which was used to speed up and improve tra…
View article: Annotations of three Vespula wasps. Vespula vulgaris, Vespula pensylvanica, Vespula germanica
Annotations of three Vespula wasps. Vespula vulgaris, Vespula pensylvanica, Vespula germanica Open
The annotations and assemblies of the three wasp genomes, Vespula vulgaris, Vespula germanica, Vespula pensylvanica. These were annotated together based off of RNA-Seq and AUGUSTUS training with Vespula vulgaris which was used to speed up …
View article: Annotations of three Vespula wasps. Vespula vulgaris, Vespula pensylvanica, Vespula germanica
Annotations of three Vespula wasps. Vespula vulgaris, Vespula pensylvanica, Vespula germanica Open
The annotations and assemblies of the three wasp genomes, Vespula vulgaris, Vespula germanica, Vespula pensylvanica. These were annotated together based off of RNA-Seq and AUGUSTUS training with Vespula vulgaris which was used to speed up …
View article: Reawakening the Developmental Origins of Cancer Through Transposable Elements
Reawakening the Developmental Origins of Cancer Through Transposable Elements Open
Transposable elements (TEs) have an established role as important regulators of early human development, functioning as tissue-specific genes and regulatory elements. Functional TEs are highly active during early development, and interact …
View article: Extensive Inter-Cyst DNA Methylation Variation in Autosomal Dominant Polycystic Kidney Disease Revealed by Genome Scale Sequencing
Extensive Inter-Cyst DNA Methylation Variation in Autosomal Dominant Polycystic Kidney Disease Revealed by Genome Scale Sequencing Open
Autosomal dominant polycystic kidney disease (ADPKD) is a heritable disease characterized by bilateral renal enlargement due to the growth of cysts throughout the kidneys. Inheritance of a disease-causing mutation is required to develop AD…