A5054642558- Cancer-related molecular mechanisms research
- MicroRNA in disease regulation
- Gut microbiota and health
- Molecular Biology Techniques and Applications
- Cervical Cancer and HPV Research
- RNA modifications and cancer
- Salivary Gland Disorders and Functions
- Testicular diseases and treatments
- Colorectal Cancer Screening and Detection
- Circular RNAs in diseases
- Genomics and Phylogenetic Studies
- Epigenetics and DNA Methylation
- Oral microbiology and periodontitis research
- Mycobacterium research and diagnosis
- Obesity, Physical Activity, Diet
- Bacteriophages and microbial interactions
- Nutritional Studies and Diet
- Microbial Community Ecology and Physiology
- Cancer Genomics and Diagnostics
- Genital Health and Disease
- Cholangiocarcinoma and Gallbladder Cancer Studies
- Sarcoma Diagnosis and Treatment
- Extracellular vesicles in disease
- Protist diversity and phylogeny
- Aquatic Ecosystems and Phytoplankton Dynamics
Cancer Registry of Norway
2016-2025
University of Oslo
2012-2025
Norwegian Institute of Public Health
2024-2025
Oslo University Hospital
2023-2024
Akershus University Hospital
2021
Folkhälsans Forskningscentrum
2016-2020
University of Helsinki
2017-2020
Atlantic cod (Gadus morhua) is a large, cold-adapted teleost that sustains long-standing commercial fisheries and incipient aquaculture. Here we present the genome sequence of cod, showing evidence for complex thermal adaptations in its haemoglobin gene cluster an unusual immune architecture compared to other sequenced vertebrates. The assembly was obtained exclusively by 454 sequencing shotgun paired-end libraries, automated annotation identified 22,154 genes. major histocompatibility (MHC)...
The mycobiome, representing the fungal component of microbial communities, is increasingly acknowledged as an integral part gut microbiome. However, research in this area remains relatively limited. characterization mycobiome taxa from metagenomic data heavily reliant on quality software and databases. In study, we evaluated feasibility profiling using existing bioinformatics tools simulated data. We identified seven claiming to perform taxonomic assignment shotgun sequences. One these was...
Non-coding RNA (ncRNA) molecules have fundamental roles in cells and many are also stable body fluids as extracellular RNAs. In this study, we used sequencing (RNA-seq) to investigate the profile of small non-coding (sncRNA) human serum. We analyzed 10 billion Illumina reads from 477 serum samples, included Norwegian population-based Janus Serum Bank (JSB). found that core repertoire includes 258 micro RNAs (miRNA), 441 piwi-interacting (piRNA), 411 transfer (tRNA), 24 nucleolar (snoRNA),...
Accumulating evidence has related the gut microbiota to colorectal cancer (CRC). Fusobacterium nucleatum repeatedly been linked tumorigenesis. The aim of this study was investigate microbial composition in different sampling sites, order profile dynamics with CRC progression. Further, we characterized tumor-associated F. subspecies. Here, conducted Illumina Miseq next-generation sequencing 16S rRNA V4 region biopsy samples, alterations patients, patients adenomatous polyp, and healthy...
Cyanobacteria often produce several different oligopeptides, with unknown biological functions, by nonribosomal peptide synthetases (NRPS). Although some cyanobacterial NRPS gene cluster types are well described, the entire genomic content within a single strain has never been investigated. Here we have combined genome-wide analysis using massive parallel pyrosequencing ("454") and mass spectrometry screening of oligopeptides produced in Planktothrix rubescens NIVA CYA 98 order to identify...
Objective: The human intestinal microbiota likely play an important role in the development of overweight and obesity. However, associations between saliva body mass index (BMI) have been sparsely studied. aim this study was to identify size Finnish children. Methods: 900 children, aged 11-14 years with measured height weight, characterized using 16S rRNA (V3-V4) sequencing. Results: core consisted 14 genera that were present more than 95% profiles gender-specific higher alpha-diversity boys...
The annotation of microRNAs depends on the availability transcriptomics data and expert knowledge. This has led to a gap between novel genomes high-quality microRNA complements. Using >16,000 from manually curated gene database MirGeneDB, we generated trained covariance models for all conserved families. These are available in our tool MirMachine, which annotates within genomes. We successfully applied MirMachine range animal species, including those with large genome duplications extinct...
The inhibitory effect of barley straw (Hordeum vulgare) on cyanobacteria has been observed in many field and laboratory studies for over 30 years, although the compounds responsible this anti-cyanobacterial have remained unknown. In study, a pair chiral flavonolignans were isolated from extract using bioassay-guided isolation procedure against Microcystis sp. structures allelopathic elucidated by NMR (nuclear magnetic resonance) HPLC-MS (high performance liquid chromatography-mass...
Small non-coding RNAs play essential roles in gene regulation, however, the interplay between RNA groups, their expression levels and deregulations tumorigenesis requires additional exploration. In particular, a comprehensive analysis of microRNA (miRNA), PIWI-interacting (piRNAs), tRNA-derived small human testis testicular germ cell tumor (TGCT) is lacking. We performed sequencing on 22 TGCT samples from 5 histological subtypes, 3 carcinoma situ, 12 normal samples. miRNA was most common...
Genome-wide association (GWA) studies have reported 19 distinct susceptibility loci for testicular germ cell tumor (TGCT). A GWA study TGCT was performed by genotyping 610 240 single-nucleotide polymorphisms (SNPs) in 1326 cases and 6687 controls from Sweden Norway. No novel genome-wide significant associations were observed this discovery stage. We put forward 27 SNPs 15 regions 12 previously reported, replication 710 case-parent triads 289 290 controls. Predefined biological pathways...
Lung cancer (LC) prognosis is closely linked to the stage of disease when diagnosed. We investigated biomarker potential serum RNAs for early detection LC in smokers at different prediagnostic time intervals and histological subtypes. In total, 1061 samples from 925 individuals were analyzed. RNA sequencing with an average 18 million reads per sample was performed. generated machine learning models using normalized levels found that later diagnosed 10 years can be robustly separated healthy...
Shotgun metagenome sequencing data obtained from a host environment will usually be contaminated with sequences the organism. Host should removed before further analysis to avoid biases, reduce downstream computational load, or ensure privacy in case of human host. The tools that we identified, as designed specifically perform contamination sequence removal, were either outdated, not maintained, complicated use. Consequently, have developed HoCoRT, fast and user-friendly tool implements...
Stool samples for fecal immunochemical tests (FIT) are collected in large numbers worldwide as part of colorectal cancer screening programs. Employing FIT from 1034 CRCbiome participants, recruited a Norwegian study, we identify, annotate and characterize more than 18000 DNA viruses, using shotgun metagenome sequencing. Only six percent them assigned to known taxonomic family, with Microviridae being the most prevalent viral family. Linking individual profiles comprehensive lifestyle...
The major cyclic peptide cyanopeptolin 1138, produced by Planktothrix strain NIVA CYA 116, was characterized and shown to be structurally very close the earlier-characterized oscillapeptin E. A gene cluster likely encode corresponding synthetase sequenced from same strain. 30-kb oci contains two novel domains previously not detected in nonribosomal clusters (a putative glyceric acid-activating domain a sulfotransferase domain), addition seven modules. Unlike described Anabaena Microcystis,...
An increasing number of studies propose circulating microRNAs (miRNAs) as biomarkers for a large human diseases including cancer, cardiovascular diseases, neurologic pathologies and others. To further validate miRNA it is indispensable to understand the variability miRNAs in healthy individuals. We determined longitudinal miRNomes 90 serum samples from Janus Serum Bank Norway, which have been stored between 23 40 y at -25 °Celsius. profiled 3 with microarrays 30 individuals, each. For each...
We aimed to identify different eating habits among Finnish children and evaluate their association with meal patterns, breakfast consumption, socio-demographic characteristics in a large, nationwide cohort of children. evaluated 10,569 aged 9–14 years into the Health Teens cross-sectional design. The hierarchical K-means method was used groups habits, based on five factors obtained through factor analysis 10 food items. Multiple correspondence show associations between gender, age, language...
Abstract Small non-coding RNAs (sncRNA) are regulators of cell functions and circulating sncRNAs from the majority RNA classes potential non-invasive biomarkers. Understanding how common traits influence ncRNA expression is essential for assessing their biomarker potential. In this study, we identify associations between sncRNA (sex, age, self-reported smoking, body mass, physical activity). We used RNAseq data 526 serum samples Janus Serum Bank health examination surveys. Ageing showed...
Background and Aims Gallbladder cancer (GBC) is a highly aggressive malignancy of the biliary tract. Most cases GBC are diagnosed in low‐income middle‐income countries, research into this disease has long been limited. In study we therefore investigate epigenetic changes along model carcinogenesis represented by sequence gallstone → dysplasia Chile, country with highest incidence worldwide. Approach Results To perform epigenome‐wide methylation profiling, genomic DNA extracted from sections...
Colorectal cancer (CRC) screening reduces CRC incidence and mortality. However, current methods are either hampered by invasiveness or suboptimal performance, limiting their effectiveness as primary methods. To aid in the development of a non-invasive test with improved sensitivity specificity, we have initiated prospective biomarker study (CRCbiome), nested within large randomized trial Norway. We aim to develop microbiome-based classification algorithm identify advanced colorectal lesions...
ABSTRACT Horizontal gene transfer is common in cyanobacteria, and of large clusters may lead to acquisition new functions conceivably niche adaption. In the present study, we demonstrate that horizontal between closely related Planktothrix strains can explain production same oligopeptide isoforms by different colors. Comparison genomes eight revealed producing are related, regardless color. We have investigated genes involved synthesis photosynthetic pigments phycocyanin phycoerythrin, which...
Abstract Background: The impacts of long-term storage and varying preanalytical factors on the quality quantity DNA miRNA from archived serum have not been fully assessed. Preanalytical analytical variations degradation may introduce bias in representation result loss or corruption quantitative data. Methods: We evaluated quantity, quality, variability samples stored up to 40 years using one oldest prospective collections world, Janus Serumbank, a biorepository dedicated cancer research....
This study assesses the validity of home-measured height, weight and waist circumference among Finnish adolescents from Fin-HIT cohort. The were measured by fieldworkers, instructed to measure themselves at home with an adult’s assistance. Paired t-test was used for statistical analyses. Home-measured mean slightly higher, but BMI lower than fieldworker. difference in means statistically significant (0.51 kg) (1.6 cm), not height BMI. weight, are sufficiently accurate be epidemiologic studies.
Human papillomaviruses (HPVs) co-evolve slowly with the human host and each HPV genotype displays epithelial tropisms. We assessed evolution of intra variants within samples, their association to anogenital site, cervical cytology HIV status. Variability in L1 gene 35 genotypes was characterized phylogenetically using maximum likelihood, portrayed by phenotype. Up a thousand unique were identified individual samples. In-depth analyses most prevalent genotypes, HPV16, HPV18 HPV52, revealed...
Background The microbiome has been implicated in the initiation and progression of colorectal cancer (CRC) cross-sectional studies. However, there is a lack studies using prospectively collected samples. Methods From Norwegian Colorectal Cancer Prevention (NORCCAP) trial, we analyzed 144 archived fecal samples from participants who were diagnosed with CRC or high-risk adenoma (HRA) at screening remained cancer-free during 17 years follow-up. We performed 16S rRNA sequencing all metagenome on...