A5039387612- Glioma Diagnosis and Treatment
- Herpesvirus Infections and Treatments
- Cytomegalovirus and herpesvirus research
- interferon and immune responses
- Viral-associated cancers and disorders
- Genomics and Phylogenetic Studies
- Genetic diversity and population structure
- Chromosomal and Genetic Variations
- Cancer-related molecular mechanisms research
- Immune Cell Function and Interaction
- Neuroinflammation and Neurodegeneration Mechanisms
- Immune cells in cancer
- DNA Repair Mechanisms
- Genetic Associations and Epidemiology
- Ferroptosis and cancer prognosis
- Inflammatory Biomarkers in Disease Prognosis
- Diabetes and associated disorders
- Insect-Plant Interactions and Control
- Histone Deacetylase Inhibitors Research
- Advanced Neuroimaging Techniques and Applications
- Pituitary Gland Disorders and Treatments
- Vector-borne infectious diseases
- Polyomavirus and related diseases
- Cancer Genomics and Diagnostics
- HIV Research and Treatment
Neurological Surgery
2021-2025
University of California, San Francisco
2020-2025
City College of San Francisco
2023
University of California, Berkeley
2019-2022
Abstract Background Lifetime exposure to the varicella-zoster virus (VZV) has been consistently inversely associated with glioma risk, however, relationship of VZV survival in adults not investigated. In this study, we analyzed relation their antibody measurements 4 common herpes viral infections, including VZV, measured post-diagnosis. Methods We IgG cytomegalovirus (CMV), simplex 1/2 (HSV), and Epstein-Barr (EBV) collected from 1378 diagnosed between 1991 2010. Blood was obtained a median...
Previous epidemiologic studies have reported an association of serum immunoglobulin E (IgE) levels with reduced glioma risk, but the between IgE and prognosis has not been characterized. This study aimed to examine how sex, tumor subtype, class modulate risk survival.
Temozolomide (TMZ) treatment has demonstrated, but variable, impact on glioma prognosis. This study examines associations of survival with DNA repair gene germline polymorphisms among patients who did and not have TMZ treatment. Identifying genetic markers which sensitize tumor cells to could personalize therapy improve outcomes.
Glioma is a highly fatal and heterogeneous brain tumor with few known risk factors. Our study examines genetically predicted variability in blood cell indices relation to glioma survival 3418 cases 8156 controls. We find that increased platelet lymphocyte ratio (PLR) confers an of (odds (OR) = 1.25, p 0.005), especially tumors isocitrate dehydrogenase (IDH) mutations (OR 1.38, 0.007) IDHmut 1p/19q intact (IDHmut-intact OR 1.53, 0.004) tumors. Genetically inferred counts lymphocytes 0.70,...
Isocitrate dehydrogenase (IDH)-mutant astrocytomas represent the most frequent primary intraparenchymal brain tumor in young adults, which typically arise as low-grade neoplasms that often progress and transform to higher grade despite current therapeutic approaches. However, genetic alterations underlying high-grade transformation disease progression of IDH-mutant remain inadequately defined. Genomic profiling was performed on 205 from 172 patients both initial treatment-naive recurrent...
Abstract Background Polygenic risk scores (PRS) aggregate the contribution of many variants to provide a personalized genetic susceptibility profile. Since sample sizes glioma genome-wide association studies (GWAS) remain modest, there is need efficiently capture using available data. Methods We applied method based on continuous shrinkage priors (PRS-CS) model joint effects over 1 million common disease and compared this an approach (PRS-CT) that only selects limited set independent reach...
The multi-species coalescent (MSC) provides a theoretical foundation for modern phylogenetics and comparative population genetics. Its properties have been heavily studied but there are still aspects of the MSC that largely unknown, including covariances in pairwise coalescence times, which fundamental understanding statistics combine data from multiple species, such as fixation index ( F ST ). major contribution this study is derivation implementation exact expressions times under...
ABSTRACT Background Polygenic risk scores (PRS) aggregate the contribution of many variants to provide a personalized genetic susceptibility profile. Since sample sizes glioma genome-wide association studies (GWAS) remain modest, there is need find efficient ways capturing factors using available germline data. Methods We developed novel PRS (PRS-CS) that uses continuous shrinkage priors model joint effects over 1 million polymorphisms on disease and compared it an approach (PRS-CT) selects...
ABSTRACT Background Previous epidemiologic studies have reported an association of serum immunoglobulin E (IgE) levels with reduced glioma risk, but the between IgE and prognosis has not been characterized. This study aimed to examine how sex, tumor subtype, class modulate risk survival. Methods We conducted a case-control using participants from University California, San Francisco Adult Glioma Study (1997-2010). Serum for total, respiratory food allergy were measured in adults diagnosed...
ABSTRACT Gliomas are highly fatal and heterogeneous brain tumors. Molecular subtyping is critical for accurate diagnosis prediction of patient outcomes, with isocitrate dehydrogenase ( IDH ) mutations being the most informative tumor feature. currently relies on resected samples, highlighting need non-invasive, preoperative biomarkers. We investigated integration glioma polygenic risk scores (PRS) radiomic features mutation status. The elastic net classifier was trained a panel 256 from MRI...
Abstract Background Variations in survival among patients with oligodendroglioma are unexplained by known prognostic factors. To assess the impact of peripheral immune profiles on prognosis, we applied immunomethylomics analyses—DNA methylation archived whole blood samples, to characterize cells. Methods We compared proportions cells from other glioma subtypes and controls. used recursive partitioning analysis (RPA) within oligodendrogliomas correlate survival. Results Patients (141) were...
Abstract Prior epidemiological research shows a correlation between serum immunoglobulin E (IgE) levels and decreased risk of glioma. However, the relationship IgE prognosis glioma remains poorly understood. This study seeks to investigate how factors such as sex, tumor subtype, class influence association with both survival outcomes. METHODS- In this investigation, we conducted case-control utilizing participants enrolled in UCSF Adult Glioma Study from 1997 2010. We measured for total,...
Abstract Gliomas are heterogeneous brain tumors with prognostically-significant subtypes and few risk factors. IDH-wildtype glioblastoma, the most common subtype, carries a dismal prognosis. Using largest GWAS dataset histological (11,304 cases, 304,523 controls) molecular (3,418 8,156 subtypes, we analyzed plasma proteome to uncover proteins associated glioma susceptibility. protein quantitative trait loci (pQTL) for 1,776 in tissue, identified 21 candidate proteins, including 9...
Abstract Glioma is a highly fatal cancer with prognostically significant molecular subtypes and few known risk factors. Multiple studies have implicated infections in glioma susceptibility, but evidence remains inconsistent. Genetic variants the human leukocyte antigen (HLA) region modulate host response to infection been linked risk. In this study we leveraged genetic predictors of antibody 10 viral antigens investigate relationship survival. reactivity scores (GRS) for each were derived...
Journal Article Inherited polymorphisms in the Human Leukocyte Antigen Region modify association between varicella-zoster virus antibody reactivity and glioma prognosis Get access Stephen S Francis, Francis Department of Neurological Surgery, University California San Francisco, California, USADepartment Epidemiology Biostatistics, USAWeill Institute for Neurosciences, USA Corresponding Author: S. MS, PhD, Weill 1450 3rd St, CA 94158USA (Stephen.Francis@ucsf.edu)....
ABSTRACT Glioma is a highly fatal brain tumor comprised of molecular subtypes with distinct clinical trajectories. Observational studies have suggested that variability in immune response may play role glioma etiology. However, their findings been inconsistent and susceptible to reverse causation due treatment effects the immunosuppressive nature glioma. We applied genetic variants associated (p<5×10 −8 ) blood cell traits meta-analysis 3418 cases 8156 controls. Genetically predicted...
Abstract Background Temozolomide (TMZ) treatment has demonstrated, but variable, impact on glioma prognosis. This study examines associations of survival with DNA repair gene germline polymorphisms among patients who did and not have TMZ treatment. Identifying genetic markers which sensitize tumor cells to could personalize therapy improve outcomes. Methods We evaluated TMZ-related pathogenic SNPs genetically predicted transcript levels within 34 genes 1504 from the UCSF Adult Glioma Study...
Abstract BACKGROUND Though patients with oligodendroglioma have improved outcomes versus astrocytomas, there remains marked variability in their survival experience that is unexplained by known prognostic factors. Immunomethylomics uses DNA methylation as a substitute for flow cytometry to characterize immune cells whole blood. METHODS We applied immunomethylomics archived blood samples from enrolled the UCSF Adult Glioma Study including oligodendrogliomas (141); other adult diffuse glioma...
Abstract Antigenic reactivity towards varicella zoster virus (VZV) has shown a consistent reduction in glioma risk across multiple studies on continents. To our knowledge this is the to be robustly associated with reduced of any cancer. Our recent work that high VZV also assumed improved prognosis. Using UKBioBank we have previously germline HLA polymorphism, rs9273325, significantly effects VZV. In study investigate survival association context polymorphisms. METHODS: We measured...
Abstract Immune dysregulation is a known characteristic of glioma, however there little about the peripheral immune status lower-grade (LrGG) glioma patients across course disease. Using immunomethylomic (deconvoluted blood DNA methylation) data from UCSF Profiles Study, we explore changes in patient cell profiles newly diagnosed and recurrent LrGG patients. For receiving radiation (RT) temozolomide (TMZ) (n = 75), collected pre-RT/TMZ, post-RT/TMZ, before, during, after adjuvant TMZ (if...
2 Abstract Genome-scale data are increasingly being used to infer phylogenetic trees. A major challenge in such inferences is that different regions of the genome may have local topologies differ from species tree due incomplete lineage sorting (ILS). Another source gene discrepancies estimation errors arising randomness mutational process during sequence evolution. There two groups methods for estimating whole-genome data: a set full likelihood methods, which model both sources variance,...
Abstract BACKGROUND Meningioma treatments are limited due to incomplete understanding of meningioma biology. To address this, we performed multiplatform molecular profiling on 565 meningiomas with comprehensive clinical data define genomic drivers and identify therapeutic vulnerabilities. METHODS DNA methylation was from UCSF (n=200, discovery) Hong Kong University (n=365, validation). Median follow-up 5.6 years, there were 388/142/35 WHO grade I/II/III meningiomas. Copy number variants...