Minta Thomas
A5050338119- Genetic factors in colorectal cancer
- Colorectal Cancer Screening and Detection
- Genetic Associations and Epidemiology
- BRCA gene mutations in cancer
- Gastric Cancer Management and Outcomes
- Machine Learning in Bioinformatics
- Gene expression and cancer classification
- Genomics and Rare Diseases
- Lipoproteins and Cardiovascular Health
- Colorectal Cancer Treatments and Studies
- Molecular Biology Techniques and Applications
- Cancer, Lipids, and Metabolism
- RNA modifications and cancer
- Cancer Genomics and Diagnostics
- Lipid metabolism and disorders
- Face and Expression Recognition
- Nutritional Studies and Diet
- Genetics, Bioinformatics, and Biomedical Research
- Cryptographic Implementations and Security
- Chaos-based Image/Signal Encryption
- Advanced Malware Detection Techniques
- Nutrition, Genetics, and Disease
- Bioinformatics and Genomic Networks
- Genomics and Chromatin Dynamics
- Global Cancer Incidence and Screening
Fred Hutch Cancer Center
2019-2024
Cape Town HVTN Immunology Laboratory / Hutchinson Centre Research Institute of South Africa
2023
Cancer Research Center
2023
iMinds
2014
KU Leuven
2014
Polygenic risk scores (PRSs) have improved in predictive performance, but several challenges remain to be addressed before PRSs can implemented the clinic, including reduced performance of diverse populations, and interpretation communication genetic results both providers patients. To address these challenges, National Human Genome Research Institute-funded Electronic Medical Records Genomics (eMERGE) Network has developed a framework pipeline for return PRS-based genome-informed assessment...
The incidence of colorectal cancer (CRC) among individuals aged younger than 50 years has been increasing. As screening guidelines lower the recommended age initiation, concerns including burden on capacity and costs have recognized, suggesting that an individualized approach may be warranted. We developed risk prediction models for early-onset CRC incorporate environmental score (ERS), 16 lifestyle factors, a polygenic (PRS) 141 variants.
Abstract Genome-wide association studies (GWAS) have identified more than 200 common genetic variants independently associated with colorectal cancer (CRC) risk, but the causal and target genes are mostly unknown. We sought to fine-map all known CRC risk loci using GWAS data from 100,204 cases 154,587 controls of East Asian European ancestry. Our stepwise conditional analyses revealed 238 independent signals each a set credible (CCVs), which 28 had single CCV. cis-eQTL/mQTL colocalization...
Abstract Polygenic risk scores (PRS) have great potential to guide precision colorectal cancer (CRC) prevention by identifying those at higher undertake targeted screening. However, current PRS using European ancestry data sub-optimal performance in non-European populations, limiting their utility among these populations. Towards addressing this deficiency, we expand development for CRC incorporating Asian (21,731 cases; 47,444 controls) into training datasets (78,473 107,143 controls). The...
Previous studies on the cost-effectiveness of personalized colorectal cancer (CRC) screening were based hypothetical performance CRC risk prediction and did not consider association with competing causes death. In this study, we estimated risk-stratified using real-world data for
Polygenic risk scores (PRS) have improved in predictive performance supporting their use clinical practice. Reduced of PRS diverse populations can exacerbate existing health disparities. The NHGRI-funded eMERGE Network is returning a PRS-based genome-informed assessment to 25,000 adults and children. We assessed performance, medical actionability, potential utility for 23 conditions. Standardized metrics were considered the selection process with additional consideration given strength...
Abstract Background Transcriptome-wide association studies have been successful in identifying candidate susceptibility genes for colorectal cancer (CRC). To strengthen gene discovery, we conducted a large transcriptome-wide study and an alternative splicing CRC using improved genetic prediction models performed in-depth functional investigations. Methods We analyzed RNA-sequencing data from normal colon tissues genotype 423 European descendants to build of expression evaluated model...
DNA microarrays are potentially powerful technology for improving diagnostic classification, treatment selection, and prognostic assessment. The use of this to predict cancer outcome has a history almost decade. Disease class predictors can be designed known disease cases provide confirmation or clarify abnormal cases. main input high dimensional data with many variables few observations. Dimensionality reduction these features set significantly speeds up the prediction task. Feature...
Short Message Service (SMS) is a process of transmission short messages over the network. SMS used in daily life applications including mobile commerce, banking, and so on. It robust communication channel to transmit information. pursue store forward way transmitting messages. The private information like passwords, account number, passport license number are also send through message. traditional messaging service does not provide security message since contained transmits as plain text...
Clinical data, such as patient history, laboratory analysis, ultrasound parameters-which are the basis of day-to-day clinical decision support-are often used to guide management cancer in presence microarray data. Several data fusion techniques available integrate genomics or proteomics but only a few studies have created single prediction model using both gene expression and These remain inconclusive regarding an obtained improvement performance. To improve management, these should be fully...
An important subset of colorectal cancer (CRC) is caused by rare pathogenic variants in more than 20 high-risk genes,1Huyghe J.R. Bien S.A. Harrison T.A. et al.Nat Genet. 2019; 51: 76-87Crossref PubMed Scopus (265) Google Scholar, 2Seifert B.A. McGlaughon J.L. Jackson al.Genet Med. 21: 1507-1516Abstract Full Text PDF (14) 3Belhadj S. Terradas M. Munoz-Torres P.M. al.Hum Mutat. 2020; 41: 1563-1576Crossref (23) Scholar The National Comprehensive Cancer Network clinical practice guidelines...
United States Multi-Society Task Force colonoscopy surveillance intervals are based solely on adenoma characteristics, without accounting for other risk factors. We investigated whether a model including demographic, environmental, and genetic factors could individualize under an "equal management of equal risks" framework.
Abstract Background Whether blood lipids are causally associated with colorectal cancer (CRC) risk remains unclear. Methods Using two-sample Mendelian randomisation (MR), our study examined the associations of genetically-predicted concentrations and lipoproteins (primary: LDL-C, HDL-C, triglycerides, total cholesterol), genetically-proxied inhibition HMGCR, NPC1L1, PCSK9 (which mimic therapeutic effects LDL-lowering drugs), risks CRC its subsites. Genetic were obtained from Global Lipids...
ABSTRACT Colorectal cancer (CRC) is a complex disease with monogenic, polygenic and environmental risk factors. Polygenic scores (PRSs) aim to identify high individuals. Due differences in genetic background, PRS distributions vary by ancestry, necessitating standardization. We compared four post‐hoc methods using the All of Us Research Program Whole Genome Sequence data for transancestry CRC PRS. contrasted results from linear models trained on A. entire or an ancestrally diverse subset AND...
Abstract Background: Polygenic risk scores (PRS) which summarize individuals’ genetic profile may enhance targeted colorectal cancer screening. A critical step towards clinical implementation is rigorous external validations in large community-based cohorts. This study externally validated a PRS-enhanced model comprising 140 known loci to provide comprehensive assessment on prediction performance. Methods: The was developed using 20,338 individuals and cohort (n = 85,221). We predicted...
Abstract Background Colorectal cancer (CRC) is a complex disease with monogenic, polygenic and environmental risk factors. Polygenic scores (PRS) are being developed to identify high individuals. Due differences in genetic background, PRS distributions vary by ancestry, necessitating calibration. Methods We compared four calibration methods using the All of Us Research Program Whole Genome Sequence data for CRC previously participants European East Asian ancestry. The contrasted results from...
We propose a method, maximum likelihood estimation of generalized eigenvalue decomposition (MLGEVD) that employs well known technique relying on the generalization singular value (SVD). The main aim work is to show tight equivalence between MLGEVD and ridge regression. This relationship reveals an important mathematical property GEVD in which second argument act as prior information model. Thus we allows incorporation external knowledge about quantities interest into problem. illustrate...
Abstract Polygenic risk scores (PRS) have great potential to guide precision colorectal cancer (CRC) prevention by identifying those at higher undertake targeted screening. However, current PRS using European ancestry data sub-optimal performance in non-European populations, limiting their utility among these populations. Towards addressing this deficiency, we expanded development for CRC incorporating Asian (21,731 cases; 47,444 controls) into training datasets (78,473 107,143 controls)....
Abstract Background Conventional observational studies have reported conflicting results regarding the association between low density lipoprotein cholesterol (LDL-C) and risk of colorectal cancer (CRC). We conducted a Mendelian randomization analysis to address this association. Methods Single-nucleotide polymorphisms (SNPs) associated with five blood lipids (total cholesterol, HDL-C, high-density [HDL-C], non-HDL-C, triglyceride) were obtained from genome-wide study (GWAS) meta-analysis...