Nikolai Kirkby

ORCID: 0000-0001-7498-2738
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About
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Research Areas
  • SARS-CoV-2 detection and testing
  • Cytomegalovirus and herpesvirus research
  • SARS-CoV-2 and COVID-19 Research
  • Herpesvirus Infections and Treatments
  • Respiratory viral infections research
  • Oral microbiology and periodontitis research
  • Biosensors and Analytical Detection
  • Salivary Gland Disorders and Functions
  • Hepatitis C virus research
  • Hepatitis B Virus Studies
  • Polyomavirus and related diseases
  • Influenza Virus Research Studies
  • COVID-19 diagnosis using AI
  • Dental Health and Care Utilization
  • Animal Virus Infections Studies
  • Pneumonia and Respiratory Infections
  • Bacterial biofilms and quorum sensing
  • Parvovirus B19 Infection Studies
  • Antimicrobial Resistance in Staphylococcus
  • HIV-related health complications and treatments
  • Antibiotic Resistance in Bacteria
  • Hepatitis Viruses Studies and Epidemiology
  • Viral gastroenteritis research and epidemiology
  • Chronic Lymphocytic Leukemia Research
  • Vaccine Coverage and Hesitancy

Rigshospitalet
2015-2025

Copenhagen University Hospital
2014-2025

University of Copenhagen
1995-2023

Statens Serum Institut
1998-2022

Delta Air Lines (United States)
2022

Imperial College London
2022

Nordsjællands Hospital
2022

Omron (Japan)
2022

Czech Academy of Sciences, Institute of Microbiology
2021

Serological assays for severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2) are needed to support clinical diagnosis and epidemiological investigations. Recently, large-scale detection of total antibodies (Ab), immunoglobulin G (IgG), IgM against SARS-CoV-2 antigens have been developed, but there limited data on the diagnostic accuracy these assays. This study was a Danish national collaboration evaluated 15 commercial one in-house anti-SARS-CoV-2 in 16 laboratories. Sensitivity...

10.1128/jcm.02596-20 article EN Journal of Clinical Microbiology 2021-02-12

Background and objectiveThe bacterial profile of saliva is composed bacteria from different oral surfaces. The objective this study was to determine whether diet intake, lifestyle, or socioeconomic status associated with characteristic profiles.DesignStimulated samples 292 participants low levels dental caries periodontitis, enrolled in the Danish Health Examination Survey (DANHES), were analyzed for presence approximately 300 species by means Human Oral Microbe Identification Microarray...

10.3402/jom.v6.23609 article EN cc-by-nc Journal of Oral Microbiology 2014-01-01

Periodontitis is a multifactorial disease in which subgingival bacteria play an important role the pathogenesis of disease. The objective this study was to determine if periodontitis associated with characteristic salivary bacterial profile. This accomplished by comparing profile saliva from subjects chronic that control cohort.Stimulated samples 139 patients and 447 cohort were analysed using Human Oral Microbe Identification Microarray (HOMIM). Frequency levels (mean HOMIM-value) around...

10.1111/jcpe.12190 article EN Journal Of Clinical Periodontology 2013-11-06

The purpose of this study was to characterize and compare subgingival salivary microbiotas before after periodontal treatment learn if any changes the microbiota were reflected in saliva. We tested hypothesis that levels specific periopathogens correlate with corresponding treatment.Twenty-five patients generalized chronic periodontitis completed study. Stimulated saliva samples plaque collected at baseline 2, 6, 12 weeks nonsurgical therapy. Subgingival processed by means Human Oral Microbe...

10.1002/jper.17-0377 article EN Journal of Periodontology 2018-02-21
Frederik Plesner Lyngse Kåre Mølbak Robert Skov Lasse Engbo Christiansen Laust Hvas Mortensen and 95 more Mads Albertsen Camilla Holten Møller Tyra Grove Krause Morten Rasmussen Thomas Yssing Michaelsen Marianne Voldstedlund Jannik Fonager Nina R. Steenhard Jakob Brandt Simon Knuttson Emil A. Sørensen Thomas Bygh Nymann Jensen Trine Sørensen Celine Petersen Clarisse Chiche-Lapierre Frederik T. Hansen Emilio F. Collados Amalie Berg Susanne R. Bielidt Sebastian Mølvang Dall Erika Dvarionaite Susan Hove Hansen Vibeke Børsholt Rudkjøbing Trine B. Nicolajsen Wagma Saei Stine Karstenskov Østergaard Thomas Yssing Michaelsen Vang Quy Le Mantas Sereika Rasmus Hansen Kirkegaard Kasper Skytte Andersen Martin Hjorth Andersen Karsten Kryger Hansen Mads Boye Mads P. Bach Peter Dissing Anton Drastrup-Fjordbak Michael Collin Finn Büttner Susanne Andersen L. Otte Martin Bøgsted Rasmus Froberg Brøndum Katja Hose Tomer Sagi Miroslav Pakanec Anders Fomsgaard Søren Michael Karst Vithiagaran Gunlan Marc Bennedbæk Raphael N. Sieber Kirsten Ellegaard Anna Cäcilia Ingham Thor Bech Johannesen Martín Basterrechea Berit Lilje Kim Lee Ng Sofie Marie Edslev Sharmin Baig Marc Stegger Povilas Matusevicius Lars Christoffersen Man-Hung Eric Tang Christina Wiid Svarrer Nour Saad Al-Tamimi Marie Bækvad‐Hansen Jonas Byberg-Grauholm Mette T. Christiansen Karen Mare Jørgensen Nicolai Balle Larsen Arieh S. Cohen Henrik Krarup David Fuglsang-Damgaard Mette Mølvadgaard Marc T. K. Nielsen Kristian Schønning Martin Schou Pedersen Rasmus L. Marvig Nikolai Kirkby Uffe Vest Schneider José Alfredo Samaniego Castruita Nana G. Jacobsen Christian Østergaard Andersen Mette T. Christiansen Ole Halfdan Larsen Kristian Alsbjerg Skipper Søren Vang Kurt Handberg Carl M. Kobel Camilla Andersen Irene Harder Tarpgaard Svend Ellermann‐Eriksen Marianne Nielsine Skov Thomas Vognbjerg Sydenham Lene Nielsen

New lineages of SARS-CoV-2 are potential concern due to higher transmissibility, risk severe outcomes, and/or escape from neutralizing antibodies. Lineage B.1.1.7 (the Alpha variant) became dominant in early 2021, but the association between transmissibility and factors, such as age primary case viral load remains poorly understood. Here, we used comprehensive administrative data Denmark, comprising full population (January 11 February 7, 2021), estimate household transmissibility. This...

10.1038/s41467-021-27202-x article EN cc-by Nature Communications 2021-12-13

The chronic Pseudomonas aeruginosa infection of the lungs cystic fibrosis (CF) patients is characterized by biofilm mode growth and inflammation dominated polymorphonuclear leukocytes (PMNs). A high percentage P. strains show frequencies mutations (hypermutators [HP]). exposed to oxygen radicals, both those generated its own metabolism especially released a large number PMNs in response CF lung infection. Our work therefore focused on role DNA oxidative repair system development HP...

10.1128/aac.00428-08 article EN Antimicrobial Agents and Chemotherapy 2009-03-31

Objectives The purpose of this study was to compare microbial profiles saliva, pooled and site-specific subgingival samples in patients with periodontitis. We tested the hypotheses that saliva can be an alternative samples, when screening for presence periopathogens. Design Site specific plaque (n = 54), 18) stimulated were collected from 18 generalized chronic Subgingival salivary microbiotas characterized by means HOMINGS (Human Oral Microbe Identification using Next Generation Sequencing)...

10.1371/journal.pone.0182992 article EN public-domain PLoS ONE 2017-08-11

This study compared salivary bacterial profiles in two groups having a 10-fold difference levels of caries experience, as it was hypothesized that the composition microbiota might associate with experience.Bacterial stimulated saliva samples from 85 individuals low experience (healthy group) and 79 high (caries were analyzed by means Human Oral Microbiome Identification Next Generation Sequencing (HOMINGS) technique. Subsequently, caries-free healthy group (n = 57) 31) compared.A...

10.1080/20002297.2016.1270614 article EN cc-by Journal of Oral Microbiology 2017-01-01

Recently, reports of severe thromboses, thrombocytopenia, and hemorrhage in persons vaccinated with the chimpanzee adenovirus-vectored vaccine (ChAdOx1 nCoV-19, AZD1222, Vaxzevria; Oxford/AstraZeneca) against acute respiratory syndrome coronavirus 2 have emerged. We describe an otherwise healthy 30-year-old woman who developed ecchymosis, portal vein thrombosis, cerebral venous sinus thrombosis second week after she received ChAdOx1 nCoV-19 vaccine. Extensive diagnostic workup for...

10.1182/bloodadvances.2021004904 article EN cc-by-nc-nd Blood Advances 2021-06-17
Thomas Yssing Michaelsen Marc Bennedbæk Lasse Engbo Christiansen Mia S. F. Jørgensen Camilla Holten Møller and 84 more Emil A. Sørensen Simon Knutsson Jakob Brandt Thomas Bygh Nymann Jensen Clarisse Chiche-Lapierre Emilio F. Collados Trine Sørensen Celine Petersen Vang Quy Le Mantas Sereika Frederik T. Hansen Morten Rasmussen Jannik Fonager Søren Michael Karst Rasmus L. Marvig Marc Stegger Raphael N. Sieber Robert Skov Rebecca Legarth Tyra Grove Krause Anders Fomsgaard Kasper Skytte Andersen Martin Hjorth Andersen Amalie Berg Susanne R. Bielidt Sebastian Mølvang Dall Erika Dvarionaite Susan Hove Hansen Vibeke Børsholt Rudkjøbing Rasmus Hansen Kirkegaard Wagma Saei Trine B. Nicolajsen Stine Karstenskov Østergaard Rasmus Froberg Brøndum Martin Bøgsted Katja Hose Tomer Sagi Miroslaw Pakanec David Fuglsang-Damgaard Mette Mølvadgaard Henrik Krarup Christina Wiid Svarrer Mette T. Christiansen Anna Cäcilia Ingham Thor Bech Johannesen Martín Basterrechea Berit Lilje Kirsten Ellegaard Povilas Matusevicius Lars Christoffersen Man-Hung Eric Tang Kim Lee Ng Sofie Marie Edslev Sharmin Baig Ole Halfdan Larsen Kristian Alsbjerg Skipper Søren Vang Kurt Handberg Marc T. K. Nielsen Carl M. Kobel Camilla Andersen Irene Harder Tarpgaard Svend Ellermann‐Eriksen José Alfredo Samaniego Castruita Uffe Vest Schneider Nana G. Jacobsen Christian Østergaard Andersen Martin Schou Pedersen Kristian Schønning Nikolai Kirkby Lene Nielsen Line Nilsson Martin Barfred Friis Thomas Sundelin Thomas Arn Hansen Marianne Nielsine Skov Thomas Vognbjerg Sydenham Xiaohui Chen Nielsen Christian Højte Schouw Anders Møller Jensen Ea S. Marmolin John Coia Dorte Terp Andersen Mads Albertsen

Abstract Background In early 2021, the SARS-CoV-2 lineage B.1.1.7 (Alpha variant) became dominant across large parts of world. Denmark, comprehensive and real-time test, contact-tracing, sequencing efforts were applied to sustain epidemic control. Here, we use these data investigate transmissibility, introduction, onward transmission in Denmark. Methods We analyzed a set 60,178 genomes generated from high-throughput by Danish COVID-19 Genome Consortium, representing 34% all positive cases...

10.1186/s13073-022-01045-7 article EN cc-by Genome Medicine 2022-05-03

Measles is a highly contagious viral disease. Vaccinated mothers transfer fewer antibodies during pregnancy, resulting in shortened infant immunity. Earlier primary vaccination might avert the gap protection.

10.1016/j.eclinm.2023.102421 article EN cc-by-nc-nd EClinicalMedicine 2024-01-12

Cerebral malaria (CM) is an acute encephalopathy with increased pro-inflammatory cytokines, sequestration of parasitized erythrocytes and localized ischaemia. In children CM induces cognitive impairment in about 10% the survivors. Erythropoietin (Epo) has - besides its well known haematopoietic properties significant anti-inflammatory, antioxidant anti-apoptotic effects various brain disorders. The neurobiological responses to exogenously injected Epo during murine were examined.Female...

10.1186/1475-2875-7-3 article EN cc-by Malaria Journal 2008-01-07

The aim of this study was to learn whether presence caries in an adult population associated with a salivary bacterial profile different from that individuals without untreated caries. Stimulated saliva samples 621 participants the Danish Health Examination Survey were analyzed using Human Oral Microbe Identification Microarray technology. Samples 174 dental and 447 control cohort compared frequency levels identified taxa/clusters as endpoints. Differences at taxon/cluster level...

10.1159/000357502 article EN Caries Research 2014-01-01

Abstract Chronic wounds are presumed to persist in the inflammatory state, preventing healing. Emerging evidence indicates a clinical impact of bacterial biofilms soft tissues, including P seudomonas aeruginosa ( PA ) biofilms. To further investigate this, we developed chronic biofilm wound infection model C 3 H / e N and BALB /c mice. The was established by an injection seaweed alginate‐embedded . PAO 1 beneath third‐degree thermal lesion providing full thickness skin necrosis, as human...

10.1111/wrr.12016 article EN Wound Repair and Regeneration 2013-02-25

The diagnostic yield for cytomegalovirus (CMV) polymerase chain reaction (PCR) viral load in bronchoalveolar lavage (BAL) or plasma to diagnose CMV pneumonia lung transplant recipients remains uncertain and was investigated a large cohort of consecutive recipients.Bronchoscopies within the first year transplantation with detectable BAL by PCR (ie, load, ≥273 IU/mL) were included (66 recipients; 145 bronchoscopies); at each bronchoscopy episode, 2 independent experts reviewed clinical...

10.1097/tp.0000000000001927 article EN Transplantation 2017-08-25

Background: Estimates of the severity emerging Omicron variant (lineage B.1.1.529) are critical to assess public health impact associated with its rapid global dissemination. We estimated risk SARS-CoV-2-related hospitalizations after infection compared Delta overall and stratified by vaccination status in Denmark, a country high mRNA coverage an extensive free-of-charge PCR test capacity.Methods: Observational cohort study all RT-PCR SARS-CoV-2 positive individuals Denmark between 21...

10.2139/ssrn.4008930 article EN SSRN Electronic Journal 2022-01-01

Abstract Background and Aims A high prevalence of hepatitis delta virus (HDV) infection, the most severe form viral hepatitis, has been reported among persons living with HIV (PLWH) in Europe. We analysed data from a large cohort collaboration to characterize HDV epidemiological trends across Europe, as well its impact on clinical outcomes. Methods All PLWH positive B surface antigen (HBsAg) Swiss Cohort Study EuroSIDA between 1988 2019 were tested for anti‐HDV antibodies and, if positive,...

10.1111/liv.15519 article EN cc-by-nc-nd Liver International 2023-01-10

Importance Self- or health care worker (HCW)–collected nasal swab specimens are the preferred sampling method to perform rapid antigen testing for COVID-19, but it is debated whether throat can improve test sensitivity. Objective To compare diagnostic accuracy of self- and HCW-collected vs COVID-19 testing. Design, Setting, Participants This per-protocol multicenter randomized clinical trial was conducted from February 15 through March 25, 2022. The participants, individuals aged 16 years...

10.1001/jamanetworkopen.2023.44295 article EN cc-by-nc-nd JAMA Network Open 2023-12-06

Finding the focus of bacterial infections can be challenging, especially for hospitalised patients. Conventional microbiological diagnostic methods are either time consuming, expensive, or difficult to interpret due contamination. The aim this study was apply machine learning (ML) reliably predict infections. This utilised a dataset including samples from 10,153 patients, collected November 1, 2019 June 3, 2023 at Rigshospitalet, Denmark. contains findings, biochemical data, and vital...

10.1101/2025.01.21.25320878 preprint EN cc-by medRxiv (Cold Spring Harbor Laboratory) 2025-01-28

People with HIV (PWH) have a high risk of coronary artery disease (CAD). Cytomegalovirus (CMV) co-infection is very common in PWH, but little known about its association CAD. We aimed to investigate if CMV IgG serostatus and concentrations are associated CAD PWH. From the Copenhagen Comorbidity Infection (COCOMO) Study we included PWH CT angiography (CCTA) quantitative concentration measurements. measured stenosis grades plaque volumes vessels. Using multivariable regressions adjusted for...

10.3390/v17020231 article EN cc-by Viruses 2025-02-07

Respiratory tract infections (RTIs) are a leading cause of morbidity and mortality in children worldwide. Aetiologic virus bacteria vary geographically. To date, no systematic data on RTI aetiologies have been published from Kyrgyzstan, country with high under-five lower RTIs widespread overuse antibiotics. We aimed to identify the Kyrgyzstan assess pneumococcal conjugate vaccine (PCV) vaccination rate correlation detection Streptococcus pneumoniae our population. collected samples aged 6...

10.1186/s12879-025-10668-1 article EN cc-by-nc-nd BMC Infectious Diseases 2025-02-26

Phenotypic and genotypic diversifications of Pseudomonas aeruginosa in the airways patients with cystic fibrosis (CF) promote long-term survival bacteria during chronic lung infection. Twelve clonally related, sequential mucoid non-mucoid paired P. isolates obtained from three Danish CF were investigated. The vitro biofilm formation capacity was studied under static flow through conditions global gene expression profiles investigated by Affymetrix GeneChip. Regulatory genes alginate...

10.1111/j.1600-0463.2011.02726.x article EN Apmis 2011-02-24

The purpose of the present study was to characterize and compare supragingival salivary microbiotas during a 10-d period oral hygiene discontinuation. We tested hypothesis that composition microbiota will reflect local microbial changes associated with accumulated biofilm formation maturation. Pooled plaque (n = 145) stimulated saliva samples were collected gingival indices recorded from 29 orally healthy individuals at baseline, discontinuation (days 4, 7, 10), 14 d after resumption...

10.1177/2380084417723625 article EN cc-by-nc JDR Clinical & Translational Research 2017-07-31
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