A5064771968- Metabolomics and Mass Spectrometry Studies
- Renal cell carcinoma treatment
- Renal and related cancers
- Ferroptosis and cancer prognosis
- Diet and metabolism studies
- Nutritional Studies and Diet
- Cancer, Lipids, and Metabolism
- Gene expression and cancer classification
- Bacillus and Francisella bacterial research
- Bioinformatics and Genomic Networks
- Epigenetics and DNA Methylation
- Single-cell and spatial transcriptomics
- Cancer Genomics and Diagnostics
- Advanced Proteomics Techniques and Applications
- Molecular Biology Techniques and Applications
- Zoonotic diseases and public health
- Gut microbiota and health
- Plant Genetic and Mutation Studies
- Prostate Cancer Treatment and Research
- Data-Driven Disease Surveillance
- Lymphatic System and Diseases
- Genomics and Phylogenetic Studies
- Gastrointestinal motility and disorders
- Liver Disease Diagnosis and Treatment
- Pediatric health and respiratory diseases
Umeå University
2014-2025
Statistics Sweden
2019
Public Health Agency of Sweden
2014
Abstract Background Amino acid metabolism is dysregulated in colorectal cancer patients; however, it not clear whether pre-diagnostic levels of amino acids are associated with subsequent risk cancer. We investigated circulating relation to the European Prospective Investigation into Cancer and Nutrition (EPIC) UK Biobank cohorts. Methods Concentrations 13-21 were determined baseline fasting plasma or serum samples 654 incident cases matched controls EPIC. following adjustment for false...
Transcriptomics is an important OMICs method that often unavailable in biobank research. Frozen blood samples are routinely collected and stored medical biobanks, but transcriptional studies have been limited due to technical difficulties of extracting high-quality RNA from frozen standard tubes (without preservatives). We aimed determine whether biobanked buffy coat at -80°C for up 23 years could be successfully used mRNA sequencing. a CryoXtract CXT 350 remove sample cores, which were...
The zoonotic disease tularemia is endemic in large areas of the Northern Hemisphere, but research lacking on patterns spatial distribution and connections with ecologic factors. To describe epidemiology identify risk factors for incidence Sweden, we analyzed surveillance data collected over 29 years (1984-2012). A total 4,830 cases were notified, which 3,524 met all study inclusion criteria. From first to second half period, mean increased 10-fold, from 0.26/100,000 persons during 1984-1998...
Abstract Background Epidemiological studies of associations between metabolites and cancer risk have typically focused on specific types separately. Here, we designed a multivariate pan-cancer analysis to identify potentially associated with multiple types, while also allowing the investigation type-specific associations. Methods We analysed targeted metabolomics data available for 5828 matched case-control pairs from cancer-specific breast, colorectal, endometrial, gallbladder, kidney,...
Clustering of gene expression data is widely used to identify novel subtypes cancer. Plenty clustering approaches have been proposed, but there a lack knowledge regarding their relative merits and how characteristics influence the performance. We evaluate cluster analysis choices affect performance by studying four publicly available human cancer sets: breast, brain, kidney stomach In particular, we focus on sample size, distribution heterogeneity performance.In general, increasing size had...
Colorectal cancer (CRC) is a leading cause of cancer-related death worldwide, but if discovered at an early stage, the survival rate high. The aim this study was to identify novel markers predictive future CRC risk using untargeted metabolomics.
Bone metastasis is the lethal end‐stage of prostate cancer (PC), but biology bone metastases poorly understood. The overall aim this study was therefore to explore molecular variability in PC potential importance for therapy. Specifically, genome‐wide expression profiles from untreated patients ( n = 12) and treated with androgen‐deprivation therapy (ADT, 60) were analyzed relation patient outcome morphological characteristics paired primary tumors. Principal component analysis unsupervised...
Pooling metabolomics data across studies is often desirable to increase the statistical power of analysis. However, this can raise methodological challenges as several preanalytical and analytical factors could introduce differences in measured concentrations variability between datasets. Specifically, different may use variable sample types (e.g., serum versus plasma) collected, treated, stored according protocols, assayed laboratories using instruments. To address these issues, a new...
We investigated data-driven and hypothesis-driven dietary patterns their association to plasma metabolite profiles subsequent colorectal cancer (CRC) risk in 680 CRC cases individually matched controls. Dietary were identified from combined exploratory/confirmatory factor analysis. assessed LC-MS metabolic by random forest regression multivariable conditional logistic regression. Principal component analysis was used on features selected reflect exposures. Component scores associated...
Cancer subtype identification is important to facilitate cancer diagnosis and select effective treatments. Clustering of patients based on high-dimensional RNA-sequencing data can be used detect novel subtypes, but only a subset the features (e.g., genes) contains information related subtype. Therefore, it reasonable assume that clustering should set carefully selected rather than all features. Several feature selection methods have been proposed, how when use these are still poorly...
Abstract Background Metabolomics is a promising molecular tool for identifying novel etiological pathways leading to cancer. In an earlier prospective study among pre- and postmenopausal women not using exogenous hormones, we observed higher risk of breast cancer associated with blood concentrations one metabolite (acetylcarnitine) lower seven others (arginine, asparagine, phosphatidylcholines (PCs) aa C36:3, ae C34:2, C36:2, C38:2). Methods To identify determinants these cancer-related...
Abstract Background Metastasized clear cell renal carcinoma (ccRCC) is associated with a poor prognosis. Almost one-third of patients non-metastatic tumors at diagnosis will later progress metastatic disease. These need to be identified already diagnosis, undertake closer follow up and/or adjuvant treatment. Today, clinicopathological variables are used risk classify patients, but molecular biomarkers needed improve classification identify the high-risk which benefit most from modern...
Abstract Background Epidemiological studies of associations between metabolites and cancer risk have typically focused on specific types separately. Here, we designed a multivariate pan-cancer analysis to identify potentially associated with multiple types, while also allowing the investigation type-specific associations. Methods We analyzed targeted metabolomics data available for 5,828 matched case-control pairs from cancer-specific breast, colorectal, endometrial, gallbladder, kidney,...
Abstract Clustering of gene expression data is widely used to identify novel subtypes cancer. Plenty clustering approaches have been proposed, but there a lack knowledge regarding their relative merits and how characteristics influence the performance. We evaluate cluster analysis choices affect performance by studying four publicly available human cancer sets: breast, brain, kidney stomach In particular, we focus on sample size, distribution heterogeneity general, increasing size had...
Abstract Overweight and obesity have been linked to increased risk of several diseases, including colorectal cancer, but the underlying mechanisms are not fully known. An earlier study analyzed metabolically defined body size phenotypes in relation cancer risk, using combinations C-peptide (a marker insulin resistance) mass index (BMI). Higher serum concentrations were associated with higher both overweight normal weight individuals compared low levels weight. The aim present was see if...
Abstract Frozen blood samples are routinely collected and stored in medical biobanks across the world, often for periods of several decades, later used research such as biomarker studies. Some common targets have included DNA alterations, protein or antibody levels metabolomics. However, despite potential importance gene-expression alterations circulating immune cells, transcriptional studies on from been limited due to preanalytical technical difficulties extracting high-quality RNA. In...
Abstract Background: RNA-seq data from tumor samples can be used to identify novel cancer subtypes using cluster analysis. The number of features is often large compared the and different clusters appear in subsets feature space. Feature selection techniques are therefore commonly reduce dimension remove redundant irrelevant before performing An abundance methods have been proposed literature, but it unclear how ability analysis affected by choice method. Method: We evaluated 13 on four...