Silje Nord
A5057174825- Cancer Genomics and Diagnostics
- Breast Cancer Treatment Studies
- Genomics and Chromatin Dynamics
- Pancreatic and Hepatic Oncology Research
- BRCA gene mutations in cancer
- Cancer Cells and Metastasis
- Genomic variations and chromosomal abnormalities
- Genetic Associations and Epidemiology
- Gene expression and cancer classification
- Epigenetics and DNA Methylation
- Bioinformatics and Genomic Networks
- Cancer Treatment and Pharmacology
- RNA modifications and cancer
- Genetic factors in colorectal cancer
- Cancer-related Molecular Pathways
- Cholangiocarcinoma and Gallbladder Cancer Studies
- Ferroptosis and cancer prognosis
- Radiopharmaceutical Chemistry and Applications
- Drug Transport and Resistance Mechanisms
- Cancer Immunotherapy and Biomarkers
- Renal cell carcinoma treatment
- Estrogen and related hormone effects
- Phagocytosis and Immune Regulation
- Colorectal Cancer Treatments and Studies
- Monoclonal and Polyclonal Antibodies Research
Oslo University Hospital
2013-2024
Cancer Genetics (United States)
2022
Norwegian Cancer Society
2005-2020
University of Oslo
2003-2017
KU Leuven
2009-2015
Karolinska Institutet
2015
Stanford Medicine
2015
Breast Cancer Research Foundation
2013-2015
UNC Lineberger Comprehensive Cancer Center
2009-2010
University of North Carolina at Chapel Hill
2009-2010
We present an allele-specific copy number analysis of the in vivo breast cancer genome. describe a unique bioinformatics approach, ASCAT (allele-specific tumors), to accurately dissect solid tumors, simultaneously estimating and adjusting for both tumor ploidy nonaberrant cell admixture. This allows calculation “ASCAT profiles” (genome-wide copy-number profiles) from which gains, losses, number-neutral events, loss heterozygosity (LOH) can be determined. In early-stage carcinoma series, we...
Breast cancer is a heterogeneous disease with known expression-defined tumor subtypes. DNA copy number studies have suggested that tumors within gene expression subtypes share similar Copy aberrations (CNA) and CNA can be used to further sub-divide classes. To gain insights into the etiologies of intrinsic subtypes, we classified according subtype next identified subtype-associated using novel method called SWITCHdna, training set 180 validation 359 tumors. Fisher's exact tests, Chi-square...
Data for multiple common susceptibility alleles breast cancer may be combined to identify women at different levels of risk. Such stratification could guide preventive and screening strategies. However, empirical evidence genetic risk is lacking. We investigated the value using 77 cancer-associated single nucleotide polymorphisms (SNPs) stratification, in a study 33 673 cases 381 control European origin. tested all possible pair-wise multiplicative interactions constructed 77-SNP polygenic...
Abstract In the preceding decades, molecular characterization has revolutionized breast cancer (BC) research and therapeutic approaches. Presented herein, an unbiased analysis of tumor proteomes, inclusive 9995 proteins quantified across all tumors, for first time recapitulates BC subtypes. Additionally, poor-prognosis basal-like luminal B tumors are further subdivided by immune component infiltration, suggesting current classification is incomplete. Proteome-based networks distinguish...
We use an integrated approach to understand breast cancer heterogeneity by modeling mRNA, copy number alterations, microRNAs, and methylation in a pathway context utilizing the recognition algorithm using data integration on genomic models (PARADIGM). demonstrate that combining mRNA expression DNA classified patients groups provide best predictive value with respect prognosis identified key molecular stromal signatures. A chronic inflammatory signature, which promotes development and/or...
MicroRNAs (miRNAs) are endogenous non-coding RNAs, which play an essential role in the regulation of gene expression during carcinogenesis. The miRNAs breast cancer has been thoroughly investigated, and although many identified as related, little is known about their involvement benign tumors. In this study, we investigated miRNA profiles two most common types human tumors (fibroadenoma/fibroadenomatosis) malignant explored oncomirs tumor suppressor miRNAs. Here, 33 with similar deregulated...
Abstract Common variants in 94 loci have been associated with breast cancer including 15 genome-wide significant associations ( P <5 × 10 −8 ) oestrogen receptor (ER)-negative and BRCA1 -associated risk. In this study, to identify new ER-negative susceptibility loci, we performed a meta-analysis of 11 association studies (GWAS) consisting 4,939 cases 14,352 controls, combined 7,333 42,468 controls 15,252 mutation carriers genotyped on the iCOGS array. We four previously unidentified two...
Breast cancer is a heterogeneous disease at the clinical and molecular level. In this study we integrate classifications extracted from five different levels in order to identify integrated subtypes. Tumor tissue 425 patients with primary breast Oslo2 was cut blended, divided into fractions for DNA, RNA protein isolation metabolomics, allowing acquisition of representative comparable data. Patients were stratified groups based on their tumor characteristics levels, using various clustering...
Homozygous deletions are rare in cancers and often target tumour suppressor genes. Here, we build a compendium of 2218 primary tumours across 12 human cancer types systematically screen for homozygous deletions, aiming to identify suppressors. Our analysis defines 96 genomic regions recurrently targeted by deletions. These recurrent occur either over suppressors or fragile sites, increased instability. We construct statistical model that separates sites from showing signatures positive...
We propose a statistical framework, named genoCN, to simultaneously dissect copy number states and genotypes using high-density SNP (single nucleotide polymorphism) arrays. There are at least two types of genomic DNA differences: variations (CNVs) aberrations (CNAs). While CNVs naturally occurring inheritable, CNAs acquired somatic alterations most often observed in tumor tissues only. tend be short more sparsely located the genome compared with CNAs. GenoCN consists components, genoCNV...
Abstract Breast carcinomas are characterized by DNA copy number alterations (CNAs) with biological and clinical significance. This explorative study integrated CNA, expression, germline genotype data of 112 early‐stage breast cancer patients. Recurrent CNAs differed substantially between tumor subtypes classified according to expression pattern. Deletion 16q was overrepresented in Luminal A, a predictor good prognosis, both overall for the nonluminal A subgroups. The deleted region most...
Genome-wide association studies (GWASs) have revealed increased breast cancer risk associated with multiple genetic variants at 5p12. Here, we report the fine mapping of this locus using data from 104,660 subjects 50 case-control in Breast Cancer Association Consortium (BCAC). With for 3,365 genotyped and imputed SNPs across a 1 Mb region (positions 44,394,495–45,364,167; NCBI build 37), found evidence least three independent signals: strongest signal, consisting single SNP rs10941679, was...
Single-cell micro-metastases of solid tumors often occur in the bone marrow. These disseminated tumor cells (DTCs) may resist therapy and lay dormant or progress to cause overt visceral metastases. The molecular nature DTCs remains elusive, as well when from where they originate. Here, we apply single-cell sequencing identify trace origin breast cancer. We sequence genomes 63 single isolated six non-metastatic cancer patients. By comparing cells' DNA copy number aberration (CNA) landscapes...
Abstract Peroxiredoxins (Prx) are thiol-dependent antioxidants containing one (1-cysteine [-Cys]) or two (2-Cys) conserved Cys residues that protect lipids, enzymes, and DNA against reactive oxygen species. In plants, the 1-Cys Prxs highly expressed during late seed development, expression pattern is dormancy related in mature seeds. We have Arabidopsis Prx AtPER1 Escherichia coli show this protein has antioxidant activity vitro protects E. vivo toxic oxidant cumene hydroperoxide. Although...
We recently identified a novel susceptibility variant, rs865686, for estrogen-receptor positive breast cancer at 9q31.2. Here, we report fine-mapping analysis of the 9q31.2 locus using 43 160 cases and 42 600 controls European ancestry ascertained from 52 studies further 5795 6624 Asian nine studies. Single nucleotide polymorphism (SNP) rs676256 was most strongly associated with risk in Europeans (odds ratios [OR] = 0.90 [0.88–0.92]; P-value 1.58 × 10−25). This SNP is one cluster highly...
Purpose: Chemotherapy-induced alterations to gene expression are due transcriptional reprogramming of tumor cells or subclonal adaptations treatment. The effect on whole-transcriptome mRNA was investigated in a randomized phase II clinical trial assess the neoadjuvant chemotherapy with addition bevacizumab.Experimental Design: Tumor biopsies and profiles were obtained at three fixed time points 66 patients each arm. Altogether, 358 specimens from 132 available, representing state before...
Abstract Despite advances in diagnostics, less than 5% of patients with periampullary tumors experience an overall survival five years or more. Periampullary are neoplasms that arise the vicinity ampulla Vater, enlargement liver and pancreas ducts where they join enter small intestine. In this study, we analyzed copy number aberrations using Affymetrix SNP 6.0 arrays 60 adenocarcinomas from Oslo University Hospital to identify genome-wide aberrations, putative driver genes, deregulated...
Breast cancer is characterized by great molecular heterogeneity demonstrated, e.g. the intrinsic subtypes. Administration of post-mastectomy radiotherapy (PMRT) does, however, not reflect this heterogeneity. A gene profile (DBCG-RT profile) has recently been developed and validated, shown prognostic impact in terms loco-regional failure predictive for PMRT. Reports have also value benefit PMRT from subtypes derived approximations. The aim study was to examine: 1) agreement between various...