Ville Pimenoff

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About me

Metagenomics and phylodynamic of microbiomes and pathogen exposure in humans.
Senior Research fellow, Karolinska Institutet, 2020-present.
•Metagenomic bioinformatics, Bayesian inference
•Teaching: Microbiology, Infectious diseases, Pathogen genomics
•Consult: COVID-19 pandemic (Prime Minister's Office, Finland)
•Postdoc in Charité Universitätsmedizin (Germany), Catalan Institute of Oncology (Spain),
University of Antioquia (Colombia)
and Bellvitge Biomedical Research Institute (Spain).
Geo von Krohn Award of $2, 500 for the best presented work by the
International Papillomavirus Society.
PhD in Genetics (2008), University of Helsinki, Finland.

Articles

Article: CELL HOST & MICROBE. 2023;31(11):1921-1929.e3

Ecological diversity profiles of non-vaccine-targeted HPVs after gender-based community vaccination efforts.

Pimenoff VN; Gray P; Louvanto K; Eriksson T; Lagheden C; Söderlund-Strand A; Dillner J; Lehtinen M
Article: VIRUSES-BASEL. 2023;15(2):299

Biophysical Properties of Bifunctional Phage-Biosensor.

Juusti V; Kulpakko J; Cudjoe E; Pimenoff VN; Hänninen P
Article: JOURNAL OF INFECTIOUS DISEASES. 2022;226(7):1195-1199

Head-to-Head Comparison of Bi- and Nonavalent Human Papillomavirus Vaccine-Induced Antibody Responses.

Arroyo Mühr LS; Eklund C; Lagheden C; Eriksson T; Pimenoff VN; Gray P; Lehtinen M; Dillner J
Article: CANCERS. 2022;14(17):4214

Meta-Analysis and Validation of a Colorectal Cancer Risk Prediction Model Using Deep Sequenced Fecal Metagenomes.

Obón-Santacana M; Mas-Lloret J; Bars-Cortina D; Criado-Mesas L; Carreras-Torres R; Díez-Villanueva A; Moratalla-Navarro F; Guinó E; Ibáñez-Sanz G; Rodríguez-Alonso L; Mulet-Margalef N; Mata A; García-Rodríguez A; Duell EJ; Pimenoff VN; Moreno V
Article: FRONTIERS IN ONCOLOGY. 2022;12:965182

Drug-induced tumor-specific cytotoxicity in a whole tissue ex vivo model of human pancreatic ductal adenocarcinoma.

Moro CF; Selvam AK; Ghaderi M; Pimenoff VN; Gerling M; Bozóky B; Elduayen SP; Dillner J; Björnstedt M
Article: ENVIRONMENTAL EPIDEMIOLOGY. 2021;5(6):e182

Human exposome assessment platform.

Merino Martinez R; Müller H; Negru S; Ormenisan A; Arroyo Mühr LS; Zhang X; Trier Møller F; Clements MS; Kozlakidis Z; Pimenoff VN; Wilkowski B; Boeckhout M; Öhman H; Chong S; Holzinger A; Lehtinen M; van Veen E-B; Bała P; Widschwendter M; Dowling J; Törnroos J; Snyder MP; Dillner J
Article: PREVENTIVE MEDICINE REPORTS. 2021;24:101518

Differences in risk for SARS-CoV-2 infection among healthcare workers.

Elfström KM; Blomqvist J; Nilsson P; Hober S; Pin E; Månberg A; Pimenoff VN; Arroyo Mühr LS; Lundgren KC; Dillner J
Article: INTERNATIONAL JOURNAL OF INFECTIOUS DISEASES. 2021;110:433-435

Severe features during outbreak but low mortality observed immediately before and after a March-May 2020 COVID-19 outbreak in Stockholm, Sweden.

Pimenoff VN; Björnstedt M; Dillner J
Article: JOURNAL OF INFECTIOUS DISEASES. 2021;224(1):14-20

High Amounts of SARS-CoV-2 Precede Sickness Among Asymptomatic Health Care Workers.

Dillner J; Elfström KM; Blomqvist J; Engstrand L; Uhlén M; Eklund C; Boulund F; Lagheden C; Hamsten M; Nordqvist-Kleppe S; Seifert M; Hellström C; Olofsson J; Andersson E; Falk AJ; Bergström S; Hultin E; Pin E; Pimenoff VN; Hassan S; Månberg A; Nilsson P; Hedhammar M; Hober S; Mattsson J; Arroyo Mühr LS; Lundgren KC
Article: CLINICAL INFECTIOUS DISEASES. 2021;72(11):e890-e892

Estimating Total Excess Mortality During a Coronavirus Disease 2019 Outbreak in Stockholm, Sweden.

Pimenoff VN; Elfström M; Baussano I; Björnstedt M; Dillner J
Article: PLOS MEDICINE. 2021;18(6):e1003588

Human papillomavirus seroprevalence in pregnant women following gender-neutral and girls-only vaccination programs in Finland: A cross-sectional cohort analysis following a cluster randomized trial.

Gray P; Kann H; Pimenoff VN; Eriksson T; Luostarinen T; Vänskä S; Surcel H-M; Faust H; Dillner J; Lehtinen M
Article: PLOS ONE. 2021;16(12):e0260453

Potential SARS-CoV-2 infectiousness among asymptomatic healthcare workers.

Pimenoff VN; Elfström M; Conneryd Lundgren K; Klevebro S; Melen E; Dillner J
Article: PLOS ONE. 2021;16(9):e0257854

Risk for SARS-CoV-2 infection in healthcare workers outside hospitals: A real-life immuno-virological study during the first wave of the COVID-19 epidemic.

Fröberg M; Hassan SS; Pimenoff VN; Akterin S; Conneryd Lundgren K; Elfström KM; Dillner J
Article: INTERNATIONAL JOURNAL OF CANCER. 2020;147(12):3511-3522

Long-term follow-up of human papillomavirus type replacement among young pregnant Finnish females before and after a community-randomised HPV vaccination trial with moderate coverage.

Gray P; Kann H; Pimenoff VN; Adhikari I; Eriksson T; Surcel H-M; Vänskä S; Dillner J; Faust H; Lehtinen M
Article: JOURNAL OF INFECTIOUS DISEASES. 2020;222(6):948-956

Vaccination With Moderate Coverage Eradicates Oncogenic Human Papillomaviruses If a Gender-Neutral Strategy Is Applied.

Vänskä S; Luostarinen T; Baussano I; Apter D; Eriksson T; Natunen K; Nieminen P; Paavonen J; Pimenoff VN; Pukkala E; Söderlund-Strand A; Dubin G; Garnett G; Dillner J; Lehtinen M
Article: SCIENTIFIC DATA. 2020;7(1):92

Gut microbiome diversity detected by high-coverage 16S and shotgun sequencing of paired stool and colon sample.

Mas-Lloret J; Obón-Santacana M; Ibáñez-Sanz G; Guinó E; Pato ML; Rodriguez-Moranta F; Mata A; García-Rodríguez A; Moreno V; Pimenoff VN
Article: INTERNATIONAL JOURNAL OF CANCER. 2019;145(3):785-796

Occurrence of human papillomavirus (HPV) type replacement by sexual risk-taking behaviour group: Post-hoc analysis of a community randomized clinical trial up to 9 years after vaccination (IV).

Gray P; Luostarinen T; Vänskä S; Eriksson T; Lagheden C; Man I; Palmroth J; Pimenoff VN; Söderlund-Strand A; Dillner J; Lehtinen M
Article: INTERNATIONAL JOURNAL OF CANCER. 2019;144(10):2478-2488

Distinct geographic clustering of oncogenic human papillomaviruses multiple infections in cervical cancers: Results from a worldwide cross-sectional study.

Pimenoff VN; Tous S; Benavente Y; Alemany L; Quint W; Bosch FX; Bravo IG; de Sanjosé S
Article: GENOME BIOLOGY. 2019;20(1):77

Whole-genome sequence analysis of a Pan African set of samples reveals archaic gene flow from an extinct basal population of modern humans into sub-Saharan populations.

Lorente-Galdos B; Lao O; Serra-Vidal G; Santpere G; Kuderna LFK; Arauna LR; Fadhlaoui-Zid K; Pimenoff VN; Soodyall H; Zalloua P; Marques-Bonet T; Comas D
Article: INTERNATIONAL JOURNAL OF CANCER. 2018;142(12):2491-2500

Evaluation of HPV type-replacement in unvaccinated and vaccinated adolescent females-Post-hoc analysis of a community-randomized clinical trial (II).

Gray P; Palmroth J; Luostarinen T; Apter D; Dubin G; Garnett G; Eriksson T; Natunen K; Merikukka M; Pimenoff V; Söderlund-Strand A; Vänskä S; Paavonen J; Pukkala E; Dillner J; Lehtinen M
Article: PAPILLOMAVIRUS RESEARCH. 2017;3:11-17

Squamous intraepithelial lesions of the anal squamocolumnar junction: Histopathological classification and HPV genotyping.

Clavero O; McCloskey J; Molina VM; Quirós B; Bravo IG; de Sanjosé S; Bosch FX; Pimenoff VN
Article: MOLECULAR BIOLOGY AND EVOLUTION. 2017;34(1):4-19

Transmission between Archaic and Modern Human Ancestors during the Evolution of the Oncogenic Human Papillomavirus 16.

Pimenoff VN; de Oliveira CM; Bravo IG
Article: CANCER MEDICINE. 2016;5(10):2909-2919

HPV16 variants distribution in invasive cancers of the cervix, vulva, vagina, penis, and anus.

Nicolás-Párraga S; Gandini C; Pimenoff VN; Alemany L; de Sanjosé S; Xavier Bosch F; Bravo IG; RIS HPV TT and HPV VVAP study groups
Article: CLINICAL MICROBIOLOGY AND INFECTION. 2015;21(6):605.e11-605.e19

Disagreement in high-grade/low-grade intraepithelial neoplasia and high-risk/low-risk HPV infection: clinical implications for anal cancer precursor lesions in HIV-positive and HIV-negative MSM.

Pimenoff VN; Félez-Sánchez M; Tous S; Clavero O; Godínez JM; Klaustermeier J; Saunier M; Molijn A; Alemany L; Quint W; Bosch FX; de Sanjosé S; McCloskey J; Bravo IG
Article: CLINICAL MICROBIOLOGY AND INFECTION. 2014;20(6):O406-O413

Phylogenetically related, clinically different: human papillomaviruses 6 and 11 variants distribution in genital warts and in laryngeal papillomatosis.

Godínez JM; Nicolás-Párraga S; Pimenoff VN; Mengual-Chuliá B; Muñoz N; Bosch FX; Sánchez GI; McCloskey J; Bravo IG
Article: PHARMACOGENETICS AND GENOMICS. 2012;22(12):846-857

Similarity in recombination rate and linkage disequilibrium at CYP2C and CYP2D cytochrome P450 gene regions among Europeans indicates signs of selection and no advantage of using tagSNPs in population isolates.

Pimenoff VN; Laval G; Comas D; Palo JU; Gut I; Cann H; Excoffier L; Sajantila A
Article: EUROPEAN JOURNAL OF HUMAN GENETICS. 2008;16(10):1254-1264

Northwest Siberian Khanty and Mansi in the junction of West and East Eurasian gene pools as revealed by uniparental markers.

Pimenoff VN; Comas D; Palo JU; Vershubsky G; Kozlov A; Sajantila A
Article: FORENSIC SCIENCE INTERNATIONAL. 2007;172(2-3):171-178

Finnish mitochondrial DNA HVS-I and HVS-II population data.

Hedman M; Brandstätter A; Pimenoff V; Sistonen P; Palo JU; Parson W; Sajantila A
Article: AMERICAN JOURNAL OF HUMAN GENETICS. 2007;81(3):615-625

Evidence of still-ongoing convergence evolution of the lactase persistence T-13910 alleles in humans.

Enattah NS; Trudeau A; Pimenoff V; Maiuri L; Auricchio S; Greco L; Rossi M; Lentze M; Seo JK; Rahgozar S; Khalil I; Alifrangis M; Natah S; Groop L; Shaat N; Kozlov A; Verschubskaya G; Comas D; Bulayeva K; Mehdi SQ; Terwilliger JD; Sahi T; Savilahti E; Perola M; Sajantila A; Järvelä I; Peltonen L
Journal article: JOURNAL OF FORENSIC SCIENCES. 2005;50(5):1239-1242

Assessment of HV1 and HV2 mtDNA variation for forensic purposes in an Uruguayan population sample.

Pagano S; Sans M; Pimenoff V; Cantera AM; Alvarez JC; Lorente JA; Peco JM; Mones P; Sajantila A
Article: FORENSIC SCIENCE INTERNATIONAL. 2004;142(1):37-43

Analysis of 16 Y STR loci in the Finnish population reveals a local reduction in the diversity of male lineages.

Hedman M; Pimenoff V; Lukka M; Sistonen P; Sajantila A
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Letter: INTERNATIONAL JOURNAL OF CANCER. 2023;153(6):1313-1315

HPV16 E6-antibody associated risk of oropharyngeal cancer increases by calendar-time: A nested case-control study.

Lehtinen M; Butt J; Gray P; Brenner N; Eriksson T; Lehtinen T; Luostarinen T; Schroeder L; Surcel H-M; Mäkitie A; Pimenoff VN; Waterboer T
Review: INTERNATIONAL JOURNAL OF CANCER. 2023;152(6):1060-1068

Assessing the risk of cervical neoplasia in the post-HPV vaccination era.

Lehtinen M; Pimenoff VN; Nedjai B; Louvanto K; Verhoef L; Heideman DAM; El-Zein M; Widschwendter M; Dillner J
Conference publication: EUROPEAN BIOPHYSICS JOURNAL WITH BIOPHYSICS LETTERS. 2023;52(SUPPL 1):S187

Liquid Crystalline Behavior of Bifunctional Phage-Biosensor in Biomedical Detection

Juusti V; Kulpakko J; Cudjoe E; Amoah LE; Pimenoff VN; Hanninen P
Editorial comment: EUROSURVEILLANCE. 2021;26(50):2101154

Moral dilemma(s) in human papillomavirus vaccination - revisiting the role of the herd effect.

Lehtinen M; Pimenoff VN
Editorial comment: ELIFE. 2021;10:e72791

How infectious diseases arrived in the colonial Americas.

Pimenoff VN; Houldcroft CJ
Preprint: BIORXIV. 2021

Inferring viral occurrence patterns through a synthetic data simulation

Pimenoff V; Cleries R
Preprint: BIORXIV. 2021

31,600-year-old human virus genomes support a Pleistocene origin for common childhood infections

Nielsen SH; van Dorp L; Houldcroft C; Pedersen A; Allentoft M; Vinner L; Margaryan A; Pavlova E; Chasnyk V; Nikolskiy P; Pitulko V; Pimenoff V; Balloux F; Sikora M
Preprint: RESEARCH SQUARE. 2021

SARS-CoV-2 Infections Among Healthcare Workers Outside Hospitals

Fröberg M; Hassan SS; Pimenoff V; Akterin S; Elfström M; Dillner J
Preprint: MEDRXIV. 2021

Differences in risk for SARS-CoV-2 infection among healthcare workers

Elfström M; Blomqvist J; Nilsson P; Hober S; Pin E; Månberg A; Pimenoff V; Arroyo Mühr LS; Lundgren KC; Dillner J
Preprint: MEDRXIV. 2020

Screening for high amounts of SARS-CoV-2 identifies pre-symptomatic subjects among healthy healthcare workers

Dillner J; Elfström M; Blomqvist J; Engstrand L; Uhlén M; Eklund C; Boulund F; Lagheden C; Hamsten M; Nordqvist-Kleppe S; Seifert M; Hellström C; Olofsson J; Andersson E; Falk AJ; Bergström S; Hultin E; Pin E; Pimenoff V; Hassan S; Månberg A; Nilsson P; Hedhammar M; Hober S; Mattsson J; Mühr LSA; Lundgren KC
Preprint: MEDRXIV. 2020

Estimating COVID-19 contribution to total excess mortality

Pimenoff V; Elfström M; Baussano I; Björnstedt M; Dillner J
Preprint: MEDRXIV. 2020

A systematic review of convalescent plasma treatment for COVID19

Pimenoff V; Elfström M; Dillner J
Preprint: SSRN ELECTRONIC JOURNAL. 2020

Screening for High Amounts of SARS-CoV-2 Identifies Pre-Symptomatic Subjects Among Healthy Healthcare Workers

Dillner J; Elfström KM; Blomqvist J; Engstrand L; Uhlen M; Eklund C; Boulund F; Lagheden C; Hamsten M; Nordqvist-Kleppe S; Seifert M; Hellström C; Olofsson J; Andersson E; Falk AJ; Bergström S; Hultin E; Pin E; Pimenoff VN; Hassan S; Månberg A; Nilsson P; Hedhammar M; Hober S; Mattsson J; Mühr LSA; Conneryd Lundgren K
Preprint: BIORXIV. 2019

Gut microbiome diversity detected by high-coverage 16S and shotgun sequencing of matched stool and colon biopsy samples

Mas-Lloret J; Obón-Santacana M; Ibáñez-Sanz G; Guinó E; Pato M; Rodriguez-Moranta F; Mata A; García-Rodríguez A; Moreno V; Pimenoff VN
Preprint: SSRN ELECTRONIC JOURNAL. 2019

Moderate Coverage Vaccination Eradicates Oncogenic Human Papillomaviruses if a Gender-Neutral Strategy is Applied

Vä nskä S; Luostarinen T; Bausssano I; Apter D; Eriksson T; Natunen K; Nieminen P; Paavonen J; Pimenoff VN; Pukkala E; Sö derlund-Strand A; Dubin G; Garnett G; Dillner J; Lehtinen M
Preprint: SSRN ELECTRONIC JOURNAL. 2019

Population-Based Human Papillomavirus Serosurvey Reveals HPV16/18 Herd Effect But No Clear Type-Replacement in Unvaccinated Females 6 Years Post Gender-Neutral Vaccination in a Cluster Randomised Trial

Gray P; Artemchuk H; Pimenoff VN; Eriksson T; Luostarinen T; Vänskä S; Surcel H-M; Faust H; Dillner J; Lehtinen M
Review: GENES. 2018;9(7):E317-317

The Role of aDNA in Understanding the Coevolutionary Patterns of Human Sexually Transmitted Infections.

Pimenoff VN; Houldcroft CJ; Rifkin RF; Underdown S
Conference publication: MODERN PATHOLOGY. 2014;27:169A

Anal and Perianal Squamous Intraepithelial Lesions (SIL): Histology, p53/p16 Biomarkers and Association with Carcinogenic HPV Types

Clavero O; Pimenoff VN; Godinez JM; Marco Molina V; Felez Sanchez-Ocana M; Klaustermeier JE; Quiros Blasco B; Bravo IG; Bosch X; McCloskey J
Conference publication: LABORATORY INVESTIGATION. 2014;94:169A

Anal and Perianal Squamous Intraepithelial Lesions (SIL): Histology, p53/p16 Biomarkers and Association with Carcinogenic HPV Types

Clavero O; Pimenoff VN; Godinez JM; Marco Molina V; Felez Sanchez-Ocana M; Klaustermeier JE; Quiros Blasco B; Bravo IG; Bosch X; McCloskey J

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