All publications from the centre as generated by Publika:
Publications 2024
Novel drug resistance mechanisms and drug targets in BRAF-mutated peritoneal metastasis from colorectal cancer
J Transl Med, 22 (1), 646
DOI 10.1186/s12967-024-05467-2, PubMed 38982444
Detection of colorectal-cancer-associated bacterial taxa in fecal samples using next-generation sequencing and 19 newly established qPCR assays
Mol Oncol (in press)
DOI 10.1002/1878-0261.13700, PubMed 38970464
Genomic insights into the shared and distinct genetic architecture of cognitive function and schizophrenia
Sci Rep, 14 (1), 15356
DOI 10.1038/s41598-024-66085-y, PubMed 38961113
DNA ploidy and PTEN as biomarkers for predicting aggressive disease in prostate cancer patients under active surveillance
Br J Cancer (in press)
DOI 10.1038/s41416-024-02780-x, PubMed 38961192
hictk: blazing fast toolkit to work with .hic and .cool files
Bioinformatics, 40 (7)
DOI 10.1093/bioinformatics/btae408, PubMed 38913844
GRIN3A: A biomarker associated with a cribriform pattern and poor prognosis in prostate cancer
Neoplasia, 55, 101023
DOI 10.1016/j.neo.2024.101023, PubMed 38944914
Validation of miRNA signatures for ovarian cancer earlier detection in the pre-diagnosis setting using machine learning approaches
Front Oncol, 14, 1389066
DOI 10.3389/fonc.2024.1389066, PubMed 38983926
Partitioning variance in cortical morphometry into genetic, environmental, and subject-specific components
Cereb Cortex, 34 (6)
DOI 10.1093/cercor/bhae234, PubMed 38850213
Improved functional mapping of complex trait heritability with GSA-MiXeR implicates biologically specific gene sets
Nat Genet, 56 (6), 1310-1318
DOI 10.1038/s41588-024-01771-1, PubMed 38831010
Linguistics-based formalization of the antibody language as a basis for antibody language models
Nat Comput Sci, 4 (6), 412-422
DOI 10.1038/s43588-024-00642-3, PubMed 38877120
Dissecting the Shared Genetic Architecture of Common Epilepsies With Cortical Brain Morphology
Neurol Genet, 10 (3), e200143
DOI 10.1212/NXG.0000000000200143, PubMed 38817246
Altered Genome-Wide DNA Methylation in the Duodenum of Common Variable Immunodeficiency Patients
J Clin Immunol, 44 (6), 133
DOI 10.1007/s10875-024-01726-5, PubMed 38780872
Identification of Transcripts with Shared Roles in the Pathogenesis of Postmenopausal Osteoporosis and Cardiovascular Disease
Int J Mol Sci, 25 (10)
DOI 10.3390/ijms25105554, PubMed 38791593
Copy number alterations: a catastrophic orchestration of the breast cancer genome
Trends Mol Med (in press)
DOI 10.1016/j.molmed.2024.04.017, PubMed 38772764
Incidences of colorectal adenomas and cancers under colonoscopy surveillance suggest an accelerated "Big Bang" pathway to CRC in three of the four Lynch syndromes
Hered Cancer Clin Pract, 22 (1), 6
DOI 10.1186/s13053-024-00279-3, PubMed 38741120
Differential levels of circulating RNAs prior to endometrial cancer diagnosis
Int J Cancer, 155 (5), 946-956
DOI 10.1002/ijc.34951, PubMed 38733362
COSGAP: COntainerized Statistical Genetics Analysis Pipelines
Bioinform Adv, 4 (1), vbae067
DOI 10.1093/bioadv/vbae067, PubMed 38808072
Effect of Drug Monitoring on Adherence and Blood Pressure: A Multicenter Randomized Clinical Trial
Am J Hypertens (in press)
DOI 10.1093/ajh/hpae059, PubMed 38713475
Preoperative profiles of plasma amino acids and derivatives distinguish periampullary cancer and benign disease
BMC Cancer, 24 (1), 555
DOI 10.1186/s12885-024-12320-8, PubMed 38702616
High-throughput molecular assays for inclusion in personalised oncology trials - State-of-the-art and beyond
J Intern Med, 295 (6), 785-803
DOI 10.1111/joim.13785, PubMed 38698538
Topology-guided polar ordering of collective cell migration
Sci Adv, 10 (16), eadk4825
DOI 10.1126/sciadv.adk4825, PubMed 38630812
Identification of Novel Genomic Loci for Anxiety and Extensive Genetic Overlap with Psychiatric Disorders
medRxiv
DOI 10.1101/2023.09.01.23294920, PubMed 37693403
Assessing the feasibility of statistical inference using synthetic antibody-antigen datasets
Stat Appl Genet Mol Biol, 23 (1)
DOI 10.1515/sagmb-2023-0027, PubMed 38563699
Unraveling the shared genetics of common epilepsies and general cognitive ability
medRxiv
DOI 10.1101/2024.03.25.24304773, PubMed 38585944
Biopsy Proteome Scoring to Determine Mucosal Remodeling in Celiac Disease
Gastroenterology (in press)
DOI 10.1053/j.gastro.2024.03.006, PubMed 38467384
Roadmap for a European cancer data management and precision medicine infrastructure
Nat Cancer, 5 (3), 367-372
DOI 10.1038/s43018-023-00717-6, PubMed 38321342
Exploring the gut DNA virome in fecal immunochemical test stool samples reveals associations with lifestyle in a large population-based study
Nat Commun, 15 (1), 1791
DOI 10.1038/s41467-024-46033-0, PubMed 38424056
Dissecting the genetic overlap between three complex phenotypes with trivariate MiXeR
medRxiv
DOI 10.1101/2024.02.23.24303236, PubMed 38464132
TrajPy: empowering feature engineering for trajectory analysis across domains
Bioinform Adv, 4 (1), vbae026
DOI 10.1093/bioadv/vbae026, PubMed 38645716
Corrigendum to "Cross-trait genome-wide association analysis of C-reactive protein level and psychiatric disorders" [Psychoneuroendocrinology 157 (2023) 106368]
Psychoneuroendocrinology, 162, 106980
DOI 10.1016/j.psyneuen.2024.106980, PubMed 38336601
FEMA: Fast and efficient mixed-effects algorithm for large sample whole-brain imaging data
Hum Brain Mapp, 45 (2), e26579
DOI 10.1002/hbm.26579, PubMed 38339910
Prostate cancer: Molecular aspects, consequences, and opportunities of the multifocal nature
Biochim Biophys Acta Rev Cancer, 1879 (2), 189080
DOI 10.1016/j.bbcan.2024.189080, PubMed 38272101
Ipilimumab and nivolumab combined with anthracycline-based chemotherapy in metastatic hormone receptor-positive breast cancer: a randomized phase 2b trial
J Immunother Cancer, 12 (1)
DOI 10.1136/jitc-2023-007990, PubMed 38242720
JASPAR 2024: 20th anniversary of the open-access database of transcription factor binding profiles
Nucleic Acids Res, 52 (D1), D174-D182
DOI 10.1093/nar/gkad1059, PubMed 37962376
Evolutionary mode and timing of dissemination of high-grade serous carcinomas
JCI Insight, 9 (3)
DOI 10.1172/jci.insight.170423, PubMed 38175731
Distinct biological signature and modifiable risk factors underlie the comorbidity between major depressive disorder and cardiovascular disease
Nat Cardiovasc Res, 3 (6), 754-769
DOI 10.1038/s44161-024-00488-y, PubMed 38898929
Publications 2023
Histology independent drug development - Is this the future for cancer drugs?
Cancer Treat Rev, 123, 102674
DOI 10.1016/j.ctrv.2023.102674, PubMed 38176220
Identification of Novel Loci and Cross-Disorder Pleiotropy Through Multi-Ancestry Genome-Wide Analysis of Alcohol Use Disorder in Over One Million Individuals
Res Sq
DOI 10.21203/rs.3.rs-3755915/v1, PubMed 38196616
Machine learning-driven development of a disease risk score for COVID-19 hospitalization and mortality: a Swedish and Norwegian register-based study
Front Public Health, 11, 1258840
DOI 10.3389/fpubh.2023.1258840, PubMed 38146473
Variants in the CETP gene affect levels of HDL cholesterol by reducing the amount, and not the specific lipid transfer activity, of secreted CETP
PLoS One, 18 (12), e0294764
DOI 10.1371/journal.pone.0294764, PubMed 38039300
Genome-wide Association Analysis of Schizophrenia and Vitamin D Levels Shows Shared Genetic Architecture and Identifies Novel Risk Loci
Schizophr Bull, 49 (6), 1654-1664
DOI 10.1093/schbul/sbad063, PubMed 37163672
Multi-level 3D genome organization deteriorates during breast cancer progression
bioRxiv
DOI 10.1101/2023.11.26.568711, PubMed 38076897
FAIR+E pathogen data for surveillance and research: lessons from COVID-19
Front Public Health, 11, 1289945
DOI 10.3389/fpubh.2023.1289945, PubMed 38074768
Genomic Insights into the Shared and Distinct Genetic Architecture of Cognitive Function and Schizophrenia
medRxiv
DOI 10.1101/2023.11.13.23298348, PubMed 38014326
ANDA: an open-source tool for automated image analysis of in vitro neuronal cells
BMC Neurosci, 24 (1), 56
DOI 10.1186/s12868-023-00826-z, PubMed 37875799
Transcriptomic subtyping of malignant peripheral nerve sheath tumours highlights immune signatures, genomic profiles, patient survival and therapeutic targets
EBioMedicine, 97, 104829
DOI 10.1016/j.ebiom.2023.104829, PubMed 37837931
Dominantly inherited micro-satellite instable cancer - the four Lynch syndromes - an EHTG, PLSD position statement
Hered Cancer Clin Pract, 21 (1), 19
DOI 10.1186/s13053-023-00263-3, PubMed 37821984
Profiling small RNAs in fecal immunochemical tests: is it possible?
Mol Cancer, 22 (1), 161
DOI 10.1186/s12943-023-01869-w, PubMed 37789383
Adjustment of spurious correlations in co-expression measurements from RNA-Sequencing data
Bioinformatics, 39 (10)
DOI 10.1093/bioinformatics/btad610, PubMed 37802917
Teleost genomic repeat landscapes in light of diversification rates and ecology
Mob DNA, 14 (1), 14
DOI 10.1186/s13100-023-00302-9, PubMed 37789366
HoCoRT: host contamination removal tool
BMC Bioinformatics, 24 (1), 371
DOI 10.1186/s12859-023-05492-w, PubMed 37784008
Psychiatric disorders and brain white matter exhibit genetic overlap implicating developmental and neural cell biology
Mol Psychiatry, 28 (11), 4924-4932
DOI 10.1038/s41380-023-02264-z, PubMed 37759039
Characterizing the Shared Genetic Underpinnings of Schizophrenia and Cardiovascular Disease Risk Factors
Am J Psychiatry, 180 (11), 815-826
DOI 10.1176/appi.ajp.20220660, PubMed 37752828
The shared genetic risk architecture of neurological and psychiatric disorders: a genome-wide analysis
medRxiv
DOI 10.1101/2023.07.21.23292993, PubMed 37503175
The shape of chromatin: insights from computational recognition of geometric patterns in Hi-C data
Brief Bioinform, 24 (5)
DOI 10.1093/bib/bbad302, PubMed 37646128
Bidirectional genetic overlap between autism spectrum disorder and cognitive traits
Transl Psychiatry, 13 (1), 295
DOI 10.1038/s41398-023-02563-7, PubMed 37709755
Gene expression and copy number profiling of follicular lymphoma biopsies from patients treated with first-line rituximab without chemotherapy
Leuk Lymphoma, 64 (12), 1927-1937
DOI 10.1080/10428194.2023.2240462, PubMed 37683053
Shared Genetic Loci Between Schizophrenia and White Blood Cell Counts Suggest Genetically Determined Systemic Immune Abnormalities
Schizophr Bull, 49 (5), 1345-1354
DOI 10.1093/schbul/sbad082, PubMed 37319439
Chromosomal instability and a deregulated cell cycle are intrinsic features of high-risk gastrointestinal stromal tumours with a metastatic potential
Mol Oncol, 17 (11), 2432-2450
DOI 10.1002/1878-0261.13514, PubMed 37622176
Beyond the Global Brain Differences: Intraindividual Variability Differences in 1q21.1 Distal and 15q11.2 BP1-BP2 Deletion Carriers
Biol Psychiatry, 95 (2), 147-160
DOI 10.1016/j.biopsych.2023.08.018, PubMed 37661008
The Geriatric Prognostic Index: a clinical prediction model for survival of older diffuse large B-cell lymphoma patients treated with standard immunochemotherapy
Haematologica, 108 (9), 2454-2466
DOI 10.3324/haematol.2022.282289, PubMed 36861406
Cross-trait genome-wide association analysis of C-reactive protein level and psychiatric disorders
Psychoneuroendocrinology, 157, 106368
DOI 10.1016/j.psyneuen.2023.106368, PubMed 37659117
A Breast Cancer Polygenic Risk Score Is Feasible for Risk Stratification in the Norwegian Population
Cancers (Basel), 15 (16)
DOI 10.3390/cancers15164124, PubMed 37627152
Comprehensive interrogation of gene lists from genome-scale cancer screens with oncoEnrichR
Int J Cancer, 153 (10), 1819-1828
DOI 10.1002/ijc.34666, PubMed 37551617
Shared genetic architecture between irritable bowel syndrome and psychiatric disorders reveals molecular pathways of the gut-brain axis
Genome Med, 15 (1), 60
DOI 10.1186/s13073-023-01212-4, PubMed 37528461
'High proliferative cribriform prostate cancer' defines a patient subgroup with an inferior prognosis
Histopathology, 83 (6), 853-869
DOI 10.1111/his.15012, PubMed 37501635
Preoperative versus postoperative survival in patients with univentricular heart: a nationwide, retrospective study of patients born in 1990-2015
BMJ Open, 13 (7), e069531
DOI 10.1136/bmjopen-2022-069531, PubMed 37491095
Polycomb proteins translate histone methylation to chromatin folding
J Biol Chem, 299 (9), 105080
DOI 10.1016/j.jbc.2023.105080, PubMed 37499944
hGSuite HyperBrowser: A web-based toolkit for hierarchical metadata-informed analysis of genomic tracks
PLoS One, 18 (7), e0286330
DOI 10.1371/journal.pone.0286330, PubMed 37467208
Correction: Self-collected and clinician-collected anal swabs show modest agreement for HPV genotyping
PLoS One, 18 (7), e0288418
DOI 10.1371/journal.pone.0288418, PubMed 37418482
Publisher Correction: Deficit of homozygosity among 1.52 million individuals and genetic causes of recessive lethality
Nat Commun, 14 (1), 3923
DOI 10.1038/s41467-023-39492-4, PubMed 37400429
Associations Between Symptoms of Premenstrual Disorders and Polygenic Liability for Major Psychiatric Disorders
JAMA Psychiatry, 80 (7), 738-742
DOI 10.1001/jamapsychiatry.2023.1137, PubMed 37163253
The Genetic Architecture of Amygdala Nuclei
Biol Psychiatry, 95 (1), 72-84
DOI 10.1016/j.biopsych.2023.06.022, PubMed 37391117
Multivariate genetic analysis of personality and cognitive traits reveals abundant pleiotropy
Nat Hum Behav, 7 (9), 1584-1600
DOI 10.1038/s41562-023-01630-9, PubMed 37365406
Middle-Aged and Older Patients With Left Ventricular Hypertrophy: Higher Mortality With Drug Treated Systolic Blood Pressure Below 130 mm Hg
Hypertension, 80 (8), 1739-1748
DOI 10.1161/HYPERTENSIONAHA.123.21454, PubMed 37350267
Accurate microRNA annotation of animal genomes using trained covariance models of curated microRNA complements in MirMachine
Cell Genom, 3 (8), 100348
DOI 10.1016/j.xgen.2023.100348, PubMed 37601971
Artificial intelligence-driven prediction of COVID-19-related hospitalization and death: a systematic review
Front Public Health, 11, 1183725
DOI 10.3389/fpubh.2023.1183725, PubMed 37408750
Deficit of homozygosity among 1.52 million individuals and genetic causes of recessive lethality
Nat Commun, 14 (1), 3453
DOI 10.1038/s41467-023-38951-2, PubMed 37301908
Shared genetic loci between Alzheimer's disease and multiple sclerosis: Crossroads between neurodegeneration and immune system
Neurobiol Dis, 183, 106174
DOI 10.1016/j.nbd.2023.106174, PubMed 37286172
The relationship between cannabis use, schizophrenia, and bipolar disorder: a genetically informed study
Lancet Psychiatry, 10 (6), 441-451
DOI 10.1016/S2215-0366(23)00143-8, PubMed 37208114
Associations of the 2018 World Cancer Research Fund/American Institute of Cancer Research (WCRF/AICR) cancer prevention recommendations with stages of colorectal carcinogenesis
Cancer Med, 12 (13), 14806-14819
DOI 10.1002/cam4.6119, PubMed 37212529
Effects of prenatal exposure to (es)citalopram and maternal depression during pregnancy on DNA methylation and child neurodevelopment
Transl Psychiatry, 13 (1), 149
DOI 10.1038/s41398-023-02441-2, PubMed 37147306
Improved multimodal prediction of progression from MCI to Alzheimer's disease combining genetics with quantitative brain MRI and cognitive measures
Alzheimers Dement, 19 (11), 5151-5158
DOI 10.1002/alz.13112, PubMed 37132098
ANDA: An open-source tool for automated image analysis of neuronal differentiation
bioRxiv
DOI 10.1101/2023.04.27.538564, PubMed 37162841
Long-term follow-up of colorectal cancer screening attendees identifies differences in Phascolarctobacterium spp. using 16S rRNA and metagenome sequencing
Front Oncol, 13, 1183039
DOI 10.3389/fonc.2023.1183039, PubMed 37182146
Polygenic overlap with body-mass index improves prediction of treatment-resistant schizophrenia
Psychiatry Res, 325, 115217
DOI 10.1016/j.psychres.2023.115217, PubMed 37146461
DagSim: Combining DAG-based model structure with unconstrained data types and relations for flexible, transparent, and modularized data simulation
PLoS One, 18 (4), e0284443
DOI 10.1371/journal.pone.0284443, PubMed 37058511
Heritability Estimation of Cognitive Phenotypes in the ABCD Study® Using Mixed Models
Behav Genet, 53 (3), 169-188
DOI 10.1007/s10519-023-10141-2, PubMed 37024669
Mortality by age, gene and gender in carriers of pathogenic mismatch repair gene variants receiving surveillance for early cancer diagnosis and treatment: a report from the prospective Lynch syndrome database
EClinicalMedicine, 58, 101909
DOI 10.1016/j.eclinm.2023.101909, PubMed 37181409
Larger cerebral cortex is genetically correlated with greater frontal area and dorsal thickness
Proc Natl Acad Sci U S A, 120 (11), e2214834120
DOI 10.1073/pnas.2214834120, PubMed 36893272
TaME-seq2: tagmentation-assisted multiplex PCR enrichment sequencing for viral genomic profiling
Virol J, 20 (1), 44
DOI 10.1186/s12985-023-02002-5, PubMed 36890572
No signs of neurodegenerative effects in 15q11.2 BP1-BP2 copy number variant carriers in the UK Biobank
Transl Psychiatry, 13 (1), 61
DOI 10.1038/s41398-023-02358-w, PubMed 36807331
New insights from the last decade of research in psychiatric genetics: discoveries, challenges and clinical implications
World Psychiatry, 22 (1), 4-24
DOI 10.1002/wps.21034, PubMed 36640404
Deviating Alternative Splicing as a Molecular Subtype of Microsatellite Stable Colorectal Cancer
JCO Clin Cancer Inform, 7, e2200159
DOI 10.1200/CCI.22.00159, PubMed 36821799
A multicenter randomized trial for quality of life evaluation by non-invasive intelligent tools during post-curative treatment follow-up for head and neck cancer: Clinical study protocol
Front Oncol, 13, 1048593
DOI 10.3389/fonc.2023.1048593, PubMed 36798825
Microbial dynamics with CRC progression: a study of the mucosal microbiota at multiple sites in cancers, adenomatous polyps, and healthy controls
Eur J Clin Microbiol Infect Dis, 42 (3), 305-322
DOI 10.1007/s10096-023-04551-7, PubMed 36703031
Identification of gluten T cell epitopes driving celiac disease
Sci Adv, 9 (4), eade5800
DOI 10.1126/sciadv.ade5800, PubMed 36696493
Transvenous lead extractions in a single high-volume center over a 24-year period: High success rate and low complication rate
Heart Rhythm O2, 4 (4), 232-240
DOI 10.1016/j.hroo.2023.01.003, PubMed 37124554
The genetic history of Scandinavia from the Roman Iron Age to the present
Cell, 186 (1), 32-46.e19
DOI 10.1016/j.cell.2022.11.024, PubMed 36608656
Dynamic and static circulating cancer microRNA biomarkers - a validation study
RNA Biol, 20 (1), 1-9
DOI 10.1080/15476286.2022.2154470, PubMed 36511578
screenwerk: a modular tool for the design and analysis of drug combination screens
Bioinformatics, 39 (1)
DOI 10.1093/bioinformatics/btac840, PubMed 36573326
Missense mutation Q384K in the APOB gene affecting the large lipid transfer module of apoB reduces the secretion of apoB-100 in the liver without reducing the secretion of apoB-48 in the intestine
J Clin Lipidol, 17 (6), 800-807
DOI 10.1016/j.jacl.2023.08.009, PubMed 37718180
Publications 2022
T cell receptor repertoire sequencing reveals chemotherapy-driven clonal expansion in colorectal liver metastases
Gigascience, 12
DOI 10.1093/gigascience/giad032, PubMed 37161965
simAIRR: simulation of adaptive immune repertoires with realistic receptor sequence sharing for benchmarking of immune state prediction methods
Gigascience, 12
DOI 10.1093/gigascience/giad074, PubMed 37848619
Re: Spatially Resolved Clonal Copy Number Alterations in Benign and Malignant Tissue
Eur Urol, 83 (2), 183
DOI 10.1016/j.eururo.2022.11.013, PubMed 36464529
Unconstrained generation of synthetic antibody-antigen structures to guide machine learning methodology for antibody specificity prediction
Nat Comput Sci, 2 (12), 845-865
DOI 10.1038/s43588-022-00372-4, PubMed 38177393
MoDLE: high-performance stochastic modeling of DNA loop extrusion interactions
Genome Biol, 23 (1), 247
DOI 10.1186/s13059-022-02815-7, PubMed 36451166
Mutational analysis and protein profiling predict drug sensitivity in multiple myeloma cell lines
Front Oncol, 12, 1040730
DOI 10.3389/fonc.2022.1040730, PubMed 36523963
Cis-regulatory mutations associate with transcriptional and post-transcriptional deregulation of gene regulatory programs in cancers
Nucleic Acids Res, 50 (21), 12131-12148
DOI 10.1093/nar/gkac1143, PubMed 36477895
The link between liver fat and cardiometabolic diseases is highlighted by genome-wide association study of MRI-derived measures of body composition
Commun Biol, 5 (1), 1271
DOI 10.1038/s42003-022-04237-4, PubMed 36402844
Genetic Characterization in High-Risk Individuals from a Low-Resource City of Peru
Cancers (Basel), 14 (22)
DOI 10.3390/cancers14225603, PubMed 36428697
Access to ground truth at unconstrained size makes simulated data as indispensable as experimental data for bioinformatics methods development and benchmarking
Bioinformatics, 38 (21), 4994-4996
DOI 10.1093/bioinformatics/btac612, PubMed 36073940
Cooperative induction of receptor tyrosine kinases contributes to adaptive MAPK drug resistance in melanoma through the PI3K pathway
Cancer Rep (Hoboken), 6 (2), e1736
DOI 10.1002/cnr2.1736, PubMed 36251678
A whole genome sequencing approach to anterior cruciate ligament rupture-a twin study in two unrelated families
PLoS One, 17 (10), e0274354
DOI 10.1371/journal.pone.0274354, PubMed 36201451
KAGE: fast alignment-free graph-based genotyping of SNPs and short indels
Genome Biol, 23 (1), 209
DOI 10.1186/s13059-022-02771-2, PubMed 36195962
Colorectal cancer incidences in Lynch syndrome: a comparison of results from the prospective lynch syndrome database and the international mismatch repair consortium
Hered Cancer Clin Pract, 20 (1), 36
DOI 10.1186/s13053-022-00241-1, PubMed 36182917
The population genomic legacy of the second plague pandemic
Curr Biol, 32 (21), 4743-4751.e6
DOI 10.1016/j.cub.2022.09.023, PubMed 36182700
Functional precision cancer medicine: drug sensitivity screening enabled by cell culture models
Trends Pharmacol Sci, 43 (11), 973-985
DOI 10.1016/j.tips.2022.08.009, PubMed 36163057
Craniofacial, dental, and molecular features of Pyle disease in a South African child
BDJ Open, 8 (1), 28
DOI 10.1038/s41405-022-00120-w, PubMed 36138002
Generalization of cortical MOSTest genome-wide associations within and across samples
Neuroimage, 263, 119632
DOI 10.1016/j.neuroimage.2022.119632, PubMed 36115590
Characterization of the T cell receptor repertoire and melanoma tumor microenvironment upon combined treatment with ipilimumab and hTERT vaccination
J Transl Med, 20 (1), 419
DOI 10.1186/s12967-022-03624-z, PubMed 36089578
Differences in integration frequencies and APOBEC3 profiles of five high-risk HPV types adheres to phylogeny
Tumour Virus Res, 14, 200247
DOI 10.1016/j.tvr.2022.200247, PubMed 36100161
Charting the Landscape of Genetic Overlap Between Mental Disorders and Related Traits Beyond Genetic Correlation
Am J Psychiatry, 179 (11), 833-843
DOI 10.1176/appi.ajp.21101051, PubMed 36069018
Associations of red and processed meat intake with screen-detected colorectal lesions
Br J Nutr, 129 (12), 1-11 (in press)
DOI 10.1017/S0007114522002860, PubMed 36069337
CompAIRR: ultra-fast comparison of adaptive immune receptor repertoires by exact and approximate sequence matching
Bioinformatics, 38 (17), 4230-4232
DOI 10.1093/bioinformatics/btac505, PubMed 35852318
Association Study between Polymorphisms in DNA Methylation-Related Genes and Testicular Germ Cell Tumor Risk
Cancer Epidemiol Biomarkers Prev, 31 (9), 1769-1779
DOI 10.1158/1055-9965.EPI-22-0123, PubMed 35700037
Whole exome sequencing of high-risk neuroblastoma identifies novel non-synonymous variants
PLoS One, 17 (8), e0273280
DOI 10.1371/journal.pone.0273280, PubMed 36037157
PHLPP1 regulates CFTR activity and lumen expansion through AMPK
Development, 149 (20)
DOI 10.1242/dev.200955, PubMed 35997536
Reference-based comparison of adaptive immune receptor repertoires
Cell Rep Methods, 2 (8), 100269
DOI 10.1016/j.crmeth.2022.100269, PubMed 36046619
Genetic overlap between mood instability and alcohol-related phenotypes suggests shared biological underpinnings
Neuropsychopharmacology, 47 (11), 1883-1891
DOI 10.1038/s41386-022-01401-6, PubMed 35953530
A clinical decision support system optimising adjuvant chemotherapy for colorectal cancers by integrating deep learning and pathological staging markers: a development and validation study
Lancet Oncol, 23 (9), 1221-1232
DOI 10.1016/S1470-2045(22)00391-6, PubMed 35964620
Clonal evolution in primary breast cancers under sequential epirubicin and docetaxel monotherapy
Genome Med, 14 (1), 86
DOI 10.1186/s13073-022-01090-2, PubMed 35948919
Somatic mutations reveal complex metastatic seeding from multifocal primary prostate cancer
Int J Cancer, 152 (5), 945-951
DOI 10.1002/ijc.34226, PubMed 35880692
Left ventricular shape predicts arrhythmic risk in fibrotic dilated cardiomyopathy
Europace, 24 (7), 1137-1147
DOI 10.1093/europace/euab306, PubMed 34907426
Correction to: Improving public cancer care by implementing precision medicine in Norway: IMPRESS-Norway
J Transl Med, 20 (1), 317
DOI 10.1186/s12967-022-03518-0, PubMed 35841045
The shared genetic basis of mood instability and psychiatric disorders: A cross-trait genome-wide association analysis
Am J Med Genet B Neuropsychiatr Genet, 189 (6), 207-218
DOI 10.1002/ajmg.b.32907, PubMed 35841185
Low reliability of DNA methylation across Illumina Infinium platforms in cord blood: implications for replication studies and meta-analyses of prenatal exposures
Clin Epigenetics, 14 (1), 80
DOI 10.1186/s13148-022-01299-3, PubMed 35765087
Dissecting Generalizability and Actionability of Disease-Associated Genes From 20 Worldwide Ethnolinguistic Cultural Groups
Front Genet, 13, 835713
DOI 10.3389/fgene.2022.835713, PubMed 35812734
In situ expression of ERG protein in the context of tumor heterogeneity identifies prostate cancer patients with inferior prognosis
Mol Oncol, 16 (15), 2810-2822
DOI 10.1002/1878-0261.13225, PubMed 35574900
Distributed genetic architecture across the hippocampal formation implies common neuropathology across brain disorders
Nat Commun, 13 (1), 3436
DOI 10.1038/s41467-022-31086-w, PubMed 35705537
A Role of the TEX101 Interactome in the Common Aetiology Behind Male Subfertility and Testicular Germ Cell Tumor
Front Oncol, 12, 892043
DOI 10.3389/fonc.2022.892043, PubMed 35774118
Proteome Analysis of Pancreatic Tumors Implicates Extracellular Matrix in Patient Outcome
Cancer Res Commun, 2 (6), 434-446
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Clonal evolution after treatment pressure in multiple myeloma: heterogenous genomic aberrations and transcriptomic convergence
Leukemia, 36 (7), 1887-1897
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Profiling the baseline performance and limits of machine learning models for adaptive immune receptor repertoire classification
Gigascience, 11
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Improving public cancer care by implementing precision medicine in Norway: IMPRESS-Norway
J Transl Med, 20 (1), 225
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Shared genetic loci between depression and cardiometabolic traits
PLoS Genet, 18 (5), e1010161
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Multivariate genome-wide association study on tissue-sensitive diffusion metrics highlights pathways that shape the human brain
Nat Commun, 13 (1), 2423
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Durable and dynamic hTERT immune responses following vaccination with the long-peptide cancer vaccine UV1: long-term follow-up of three phase I clinical trials
J Immunother Cancer, 10 (5)
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A national precision cancer medicine implementation initiative for Norway
Nat Med, 28 (5), 885-887
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Prognostic Significance of the Loss of Heterozygosity of KRAS in Early-Stage Lung Adenocarcinoma
Front Oncol, 12, 873532
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Multiomics analysis of rheumatoid arthritis yields sequence variants that have large effects on risk of the seropositive subset
Ann Rheum Dis, 81 (8), 1085-1095
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NRF2 drives an oxidative stress response predictive of breast cancer
Free Radic Biol Med, 184, 170-184
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Mapping genomic loci implicates genes and synaptic biology in schizophrenia
Nature, 604 (7906), 502-508
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Dissecting the shared genetic basis of migraine and mental disorders using novel statistical tools
Brain, 145 (1), 142-153
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Effects of Perchlorate and Other Groundwater Inorganic Co-Contaminants on Aerobic RDX Degradation
Microorganisms, 10 (3)
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TCRpower: quantifying the detection power of T-cell receptor sequencing with a novel computational pipeline calibrated by spike-in sequences
Brief Bioinform, 23 (2)
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When should we (not) use the mean magnitude of relative error (MMRE) as an error measure in software development effort estimation?
Inf. Softw. Technol., 143, 106784
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Collision tumors revealed by prospectively assessing subtype-defining molecular alterations in 904 individual prostate cancer foci
JCI Insight, 7 (4)
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Expressed prognostic biomarkers for primary prostate cancer independent of multifocality and transcriptome heterogeneity
Cancer Gene Ther, 29 (8-9), 1276-1284
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Boosting Schizophrenia Genetics by Utilizing Genetic Overlap With Brain Morphology
Biol Psychiatry, 92 (4), 291-298
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Serum RNAs can predict lung cancer up to 10 years prior to diagnosis
Elife, 11
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Identification of Circulating lncRNAs Associated with Gallbladder Cancer Risk by Tissue-Based Preselection, Cis-eQTL Validation, and Analysis of Association with Genotype-Based Expression
Cancers (Basel), 14 (3)
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A comprehensive framework for analysis of microRNA sequencing data in metastatic colorectal cancer
NAR Cancer, 4 (1), zcab051
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Re: Fibroblast Growth Factor Receptor 1 Drives the Metastatic Progression of Prostate Cancer
Eur Urol, 81 (4), 431
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MirGeneDB 2.1: toward a complete sampling of all major animal phyla
Nucleic Acids Res, 50 (D1), D204-D210
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In silico proof of principle of machine learning-based antibody design at unconstrained scale
MAbs, 14 (1), 2031482
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Modeling the 3D Genome Using Hi-C and Nuclear Lamin-Genome Contacts
Methods Mol Biol, 2301, 337-352
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Using Polygenic Hazard Scores to Predict Age at Onset of Alzheimer's Disease in Nordic Populations
J Alzheimers Dis, 88 (4), 1533-1544
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Publications 2021
Swarm v3: towards tera-scale amplicon clustering
Bioinformatics, 38 (1), 267-269
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The genetic architecture of human cortical folding
Sci Adv, 7 (51), eabj9446
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Sample Preparation Approach Influences PAM50 Risk of Recurrence Score in Early Breast Cancer
Cancers (Basel), 13 (23)
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Relations Between Effort Estimates, Skill Indicators, and Measured Programming Skill
IEEE Trans. Softw. Eng., 47 (12), 2892-2906
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Quantitative analysis of neuronal mitochondrial movement reveals patterns resulting from neurotoxicity of rotenone and 6-hydroxydopamine
FASEB J, 35 (12), e22024
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Individualized VDJ recombination predisposes the available Ig sequence space
Genome Res, 31 (12), 2209-2224
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A simplified frailty score predicts survival and can aid treatment-intensity decisions in older patients with DLBCL
Blood Adv, 5 (22), 4771-4782
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The immuneML ecosystem for machine learning analysis of adaptive immune receptor repertoires
Nat Mach Intell, 3 (11), 936-944
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Analytical Investigation of Long-Time Diffusion Dynamics in a Synaptic Channel With Glial Cells
IEEE Commun. Lett., 25 (11), 3444-3448
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The Oslo Ischaemia Study: cohort profile
BMJ Open, 11 (10), e049111
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Whole genome copy number analyses reveal a highly aberrant genome in TP53 mutant lung adenocarcinoma tumors
BMC Cancer, 21 (1), 1089
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Differential expression profile of gluten-specific T cells identified by single-cell RNA-seq
PLoS One, 16 (10), e0258029
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Genetic Stratification of Age-Dependent Parkinson's Disease Risk by Polygenic Hazard Score
Mov Disord, 37 (1), 62-69
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Genome-wide analysis reveals genetic overlap between alcohol use behaviours, schizophrenia and bipolar disorder and identifies novel shared risk loci
Addiction, 117 (3), 600-610
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Novel insights into stroke risk beyond resting and maximal bicycle exercise systolic blood pressure
J Hypertens, 39 (10), 2022-2029
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Characterising the shared genetic determinants of bipolar disorder, schizophrenia and risk-taking
Transl Psychiatry, 11 (1), 466
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The expressed mutational landscape of microsatellite stable colorectal cancers
Genome Med, 13 (1), 142
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The CRCbiome study: a large prospective cohort study examining the role of lifestyle and the gut microbiome in colorectal cancer screening participants
BMC Cancer, 21 (1), 930
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Cancer Predisposition Sequencing Reporter (CPSR): A flexible variant report engine for high-throughput germline screening in cancer
Int J Cancer, 149 (11), 1955-1960
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Extensive bidirectional genetic overlap between bipolar disorder and cardiovascular disease phenotypes
Transl Psychiatry, 11 (1), 407
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Identification of 22 susceptibility loci associated with testicular germ cell tumors
Nat Commun, 12 (1), 4487
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Detection of Nonadherence to Antihypertensive Treatment by Measurements of Serum Drug Concentrations
Hypertension, 78 (3), 617-628
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Breast cancer metastasis: immune profiling of lymph nodes reveals exhaustion of effector T cells and immunosuppression
Mol Oncol, 16 (1), 88-103
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Genetic Overlap Between Alzheimer's Disease and Depression Mapped Onto the Brain
Front Neurosci, 15, 653130
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Telomerase as a Target for Therapeutic Cancer Vaccines and Considerations for Optimizing Their Clinical Potential
Front Immunol, 12, 682492
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TAD cliques predict key features of chromatin organization
BMC Genomics, 22 (1), 499
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No Difference in Penetrance between Truncating and Missense/Aberrant Splicing Pathogenic Variants in MLH1 and MSH2: A Prospective Lynch Syndrome Database Study
J Clin Med, 10 (13)
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HPV16 and HPV18 type-specific APOBEC3 and integration profiles in different diagnostic categories of cervical samples
Tumour Virus Res, 12, 200221
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Erratum to: The genetic architecture of human complex phenotypes is modulated by linkage disequilibrium and heterozygosity
Genetics, 218 (2)
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Shared genetic architecture between neuroticism, coronary artery disease and cardiovascular risk factors
Transl Psychiatry, 11 (1), 368
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Equilibrium Signaling in Spatially Inhomogeneous Diffusion and External Forces
IEEE T. Mol. Biol. Multi-Scale Commun., 7 (2), 106-110
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High expression of SCHLAP1 in primary prostate cancer is an independent predictor of biochemical recurrence, despite substantial heterogeneity
Neoplasia, 23 (6), 634-641
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Epigenome-Wide Analysis of Methylation Changes in the Sequence of Gallstone Disease, Dysplasia, and Gallbladder Cancer
Hepatology, 73 (6), 2293-2310
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Proteomic analyses identify major vault protein as a prognostic biomarker for fatal prostate cancer
Carcinogenesis, 42 (5), 685-693
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Clinicopathological factors associated with tumour-specific mutation detection in plasma of patients with RAS-mutated or BRAF-mutated metastatic colorectal cancer
Int J Cancer, 149 (6), 1385-1397
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Exploring the role of the multiple sclerosis susceptibility gene CLEC16A in T cells
Scand J Immunol, 94 (1), e13050
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Population-based body-brain mapping links brain morphology with anthropometrics and body composition
Transl Psychiatry, 11 (1), 295
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The genetic architecture of the human thalamus and its overlap with ten common brain disorders
Nat Commun, 12 (1), 2909
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The genetic structure of Norway
Eur J Hum Genet, 29 (11), 1710-1718
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Ultralow amounts of DNA from long-term archived serum samples produce high-quality methylomes
Clin Epigenetics, 13 (1), 107
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Combining a Universal Telomerase Based Cancer Vaccine With Ipilimumab in Patients With Metastatic Melanoma - Five-Year Follow Up of a Phase I/IIa Trial
Front Immunol, 12, 663865
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Chromatin occupancy and target genes of the haematopoietic master transcription factor MYB
Sci Rep, 11 (1), 9008
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Self-collected and clinician-collected anal swabs show modest agreement for HPV genotyping
PLoS One, 16 (4), e0250426
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The Quandary of DNA-Based Treatment Assessment in De Novo Metastatic Prostate Cancer in the Era of Precision Oncology
J Pers Med, 11 (5)
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Comprehensive Analysis of CDR3 Sequences in Gluten-Specific T-Cell Receptors Reveals a Dominant R-Motif and Several New Minor Motifs
Front Immunol, 12, 639672
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Recommendations for the FAIRification of genomic track metadata
F1000Res, 10
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Molecular Communication for Equilibrium State Estimation in Biochemical Processes on a Lab-on-a-Chip
IEEE Trans Nanobioscience, 20 (2), 193-201
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Fast qualitY conTrol meThod foR derIved diffUsion Metrics (YTTRIUM) in big data analysis: U.K. Biobank 18,608 example
Hum Brain Mapp, 42 (10), 3141-3155
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Reduced metagenome sequencing for strain-resolution taxonomic profiles
Microbiome, 9 (1), 79
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Uptake of hysterectomy and bilateral salpingo-oophorectomy in carriers of pathogenic mismatch repair variants: a Prospective Lynch Syndrome Database report
Eur J Cancer, 148, 124-133
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A compact vocabulary of paratope-epitope interactions enables predictability of antibody-antigen binding
Cell Rep, 34 (11), 108856
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Ten simple rules for quick and dirty scientific programming
PLoS Comput Biol, 17 (3), e1008549
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A heterozygous germline CD100 mutation in a family with primary sclerosing cholangitis
Sci Transl Med, 13 (582)
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Equilibrium Signaling: Molecular Communication Robust to Geometry Uncertainties
IEEE Trans. Commun., 69 (2), 752-765
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Designing deep learning studies in cancer diagnostics
Nat Rev Cancer, 21 (3), 199-211
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Protein Signature Predicts Response to Neoadjuvant Treatment With Chemotherapy and Bevacizumab in HER2-Negative Breast Cancers
JCO Precis Oncol, 5
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Editorial: Genomic Colocalization and Enrichment Analyses
Front Genet, 11, 617876
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Deep learning and cancer biomarkers: recognising lead-time bias - Authors' reply
Lancet, 397 (10270), 194-195
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Erratum: The uracil-DNA glycosylase UNG protects the fitness of normal and cancer B cells expressing AID
NAR Cancer, 3 (1), zcaa045
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Polygenic overlap and shared genetic loci between loneliness, severe mental disorders, and cardiovascular disease risk factors suggest shared molecular mechanisms
Transl Psychiatry, 11 (1), 3
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Learning Realistic Patterns from Visually Unrealistic Stimuli: Generalization and Data Anonymization
J. Artif. Intell. Res., 72, 1163-1214
Publications 2020
A Systemic Protein Deviation Score Linked to PD-1+ CD8+ T Cell Expansion That Predicts Overall Survival in Diffuse Large B Cell Lymphoma
Med, 2 (2), 180-195.e5
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Risk-reducing hysterectomy and bilateral salpingo-oophorectomy in female heterozygotes of pathogenic mismatch repair variants: a Prospective Lynch Syndrome Database report
Genet Med, 23 (4), 705-712
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4D nucleome modeling
Curr Opin Genet Dev, 67, 25-32
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Accuracy and efficiency of germline variant calling pipelines for human genome data
Sci Rep, 10 (1), 20222
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T cell receptor repertoire as a potential diagnostic marker for celiac disease
Clin Immunol, 222, 108621
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Late-Gadolinium Enhancement Interface Area and Electrophysiological Simulations Predict Arrhythmic Events in Patients With Nonischemic Dilated Cardiomyopathy
JACC Clin Electrophysiol, 7 (2), 238-249
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Serum RNA Profiling in the 10-Years Period Prior to Diagnosis of Testicular Germ Cell Tumor
Front Oncol, 10, 574977
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The ELIXIR Human Copy Number Variations Community: building bioinformatics infrastructure for research
F1000Res, 9
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HMST-Seq-Analyzer: A new python tool for differential methylation and hydroxymethylation analysis in various DNA methylation sequencing data
Comput Struct Biotechnol J, 18, 2877-2889
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Beware the Jaccard: the choice of similarity measure is important and non-trivial in genomic colocalisation analysis
Brief Bioinform, 21 (5), 1523-1530
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Lifetime antimicrobial use is associated with weight status in early adolescence-A register-based cohort study
Pediatr Obes, 16 (3), e12727
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Phenotype-specific differences in polygenicity and effect size distribution across functional annotation categories revealed by AI-MiXeR
Bioinformatics, 36 (18), 4749-4756
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Ten quick tips for teaching with participatory live coding
PLoS Comput Biol, 16 (9), e1008090
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[Ten-year prediction of cardiovascular disease in healthy Norwegian men, based on NORRISK-2]
Tidsskr Nor Laegeforen, 140 (12)
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RNA Sequencing of Hepatobiliary Cancer Cell Lines: Data and Applications to Mutational and Transcriptomic Profiling
Cancers (Basel), 12 (9)
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Frequent copy number gains of SLC2A3 and ETV1 in testicular embryonal carcinomas
Endocr Relat Cancer, 27 (9), 457-468
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The uracil-DNA glycosylase UNG protects the fitness of normal and cancer B cells expressing AID
NAR Cancer, 2 (3), zcaa019
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Antimicrobial drug use in the first decade of life influences saliva microbiota diversity and composition
Microbiome, 8 (1), 121
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A framework to assess the quality and impact of bioinformatics training across ELIXIR
PLoS Comput Biol, 16 (7), e1007976
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Risk-Reducing Gynecological Surgery in Lynch Syndrome: Results of an International Survey from the Prospective Lynch Syndrome Database
J Clin Med, 9 (7)
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Understanding the genetic determinants of the brain with MOSTest
Nat Commun, 11 (1), 3512
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National Early Warning Score 2 (NEWS2) on admission predicts severe disease and in-hospital mortality from Covid-19 - a prospective cohort study
Scand J Trauma Resusc Emerg Med, 28 (1), 66
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A computational investigation into rate-dependant vectorcardiogram changes due to specific fibrosis patterns in non-ischæmic dilated cardiomyopathy
Comput Biol Med, 123, 103895
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Dysregulation of MITF Leads to Transformation in MC1R-Defective Melanocytes
Cancers (Basel), 12 (7)
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Immune phenotype of tumor microenvironment predicts response to bevacizumab in neoadjuvant treatment of ER-positive breast cancer
Int J Cancer, 147 (9), 2515-2525
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Loss of Snord116 impacts lateral hypothalamus, sleep, and food-related behaviors
JCI Insight, 5 (12)
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Competitive learning suggests circulating miRNA profiles for cancers decades prior to diagnosis
RNA Biol, 17 (10), 1416-1426
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immuneSIM: tunable multi-feature simulation of B- and T-cell receptor repertoires for immunoinformatics benchmarking
Bioinformatics, 36 (11), 3594-3596
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LXRα Regulates ChREBPα Transactivity in a Target Gene-Specific Manner through an Agonist-Modulated LBD-LID Interaction
Cells, 9 (5)
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Mutational dynamics and immune evasion in diffuse large B-cell lymphoma explored in a relapse-enriched patient series
Blood Adv, 4 (9), 1859-1866
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Patients with high-risk DLBCL benefit from dose-dense immunochemotherapy combined with early systemic CNS prophylaxis
Blood Adv, 4 (9), 1906-1915
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Sex differences and higher upper normal limits for left atrial end-systolic volume in individuals in their mid-60s: data from the ACE 1950 Study
Eur Heart J Cardiovasc Imaging, 21 (5), 501-507
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Blood Pressure-Lowering Profiles and Clinical Effects of Angiotensin Receptor Blockers Versus Calcium Channel Blockers
Hypertension, 75 (6), 1584-1592
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Plasma linoleic acid levels and cardiovascular risk factors: results from the Norwegian ACE 1950 Study
Eur J Clin Nutr, 74 (12), 1707-1717
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Meal Regularity Plays a Role in Shaping the Saliva Microbiota
Front Microbiol, 11, 757
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Tankyrase inhibition sensitizes melanoma to PD-1 immune checkpoint blockade in syngeneic mouse models
Commun Biol, 3 (1), 196
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Change in Body Weight and Long-Term Risk of Stroke and Death in Healthy Men
Stroke, 51 (5), 1435-1441
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Assessing graph-based read mappers against a baseline approach highlights strengths and weaknesses of current methods
BMC Genomics, 21 (1), 282
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3D Electrophysiological Modeling of Interstitial Fibrosis Networks and Their Role in Ventricular Arrhythmias in Non-Ischemic Cardiomyopathy
IEEE Trans Biomed Eng, 67 (11), 3125-3133
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DNA copy number motifs are strong and independent predictors of survival in breast cancer
Commun Biol, 3 (1), 153
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Author Correction: Human somatic cell mutagenesis creates genetically tractable sarcomas
Nat Genet, 52 (4), 464
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Structural basis for substrate and product recognition in human phosphoglucomutase-1 (PGM1) isoform 2, a member of the α-D-phosphohexomutase superfamily
Sci Rep, 10 (1), 5656
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Molecularly matched therapy in the context of sensitivity, resistance, and safety; patient outcomes in end-stage cancer - the MetAction study
Acta Oncol, 59 (7), 733-740
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NucBreak: location of structural errors in a genome assembly by using paired-end Illumina reads
BMC Bioinformatics, 21 (1), 66
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Cancers (Basel), 12 (2)
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B cell tolerance and antibody production to the celiac disease autoantigen transglutaminase 2
J Exp Med, 217 (2)
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Deep learning for prediction of colorectal cancer outcome: a discovery and validation study
Lancet, 395 (10221), 350-360
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ScaR-a tool for sensitive detection of known fusion transcripts: establishing prevalence of fusions in testicular germ cell tumors
NAR Genom Bioinform, 2 (1), lqz025
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A 10-year prediagnostic follow-up study shows that serum RNA signals are highly dynamic in lung carcinogenesis
Mol Oncol, 14 (2), 235-247
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MirGeneDB 2.0: the metazoan microRNA complement
Nucleic Acids Res, 48 (D1), D1172
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MirGeneDB 2.0: the metazoan microRNA complement
Nucleic Acids Res, 48 (D1), D132-D141
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Augmenting Physiological Time Series Data: A Case Study for Sleep Apnea Detection
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Publications 2019
Results of multigene panel testing in familial cancer cases without genetic cause demonstrated by single gene testing
Sci Rep, 9 (1), 18555
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