Publications and communications of Keith Durkin

Tang, L., Swedlund, B., Dupont, S., Harland, C., Costa Monteiro Moreira, G., Durkin, K., Artesi, M., Mullaart, E., Sartelet, A., Karim, L., Coppieters, W., Georges, M., & Charlier, C. (09 March 2024). GWAS reveals determinants of mobilization rate and dynamics of an active endogenous retrovirus of cattle. Nature Communications, 15 (1), 2154. doi:10.1038/s41467-024-46434-1

Rudin, C., Bollen, N., Hong, S. L., Wegner, F., Politi, L., Mellou, K., Geenen, C., Gorissen, S., Verhasselt, B., Durkin, K., Henin, C., Logist, A.-S., Dellicour, S., Resa, T., Stadler, T., Maes, P., Cuypers, L., André, E., Egli, A., & Baele, G. (November 2023). Investigation of an international water polo tournament in Czechia as a potential source for early introduction of the SARS-CoV-2 Omicron variant into Belgium, Switzerland and Germany, November 2021. Euro Surveillance: Bulletin Européen sur les Maladies Transmissibles, 28 (45). doi:10.2807/1560-7917.ES.2023.28.45.2300018

Kremer, C., Torneri, A., Libin, P. J. K., Meex, C., Hayette, M.-P., Bontems, S., Durkin, K. W., Artesi, M., Bours, V., Lemey, P., Darcis, G., Hens, N., & Meuris, C. (16 June 2023). Reconstruction of SARS-CoV-2 outbreaks in a primary school using epidemiological and genomic data. Epidemics, 44, 100701. doi:10.1016/j.epidem.2023.100701

Cuypers, L., Keyaerts, E., Hong, S. L., Gorissen, S., Menezes, S. M., Starick, M., Van Elslande, J., Weemaes, M., Wawina-Bokalanga, T., Marti-Carreras, J., Vanmechelen, B., Van Holm, B., Bloemen, M., Dogne, J.-M., Dufrasne, F., Durkin, K., Ruelle, J., De Mendonca, R., Wollants, E., ... Van Weyenbergh, J. (22 May 2023). Immunovirological and environmental screening reveals actionable risk factors for fatal COVID-19 during post-vaccination nursing home outbreaks. Nature Aging, 3 (6), 722 - 733. doi:10.1038/s43587-023-00421-1

Cuypers, L., Dellicour, S., Hong, S. L., Potter, B. I., Verhasselt, B., Vereecke, N., Lambrechts, L., Durkin, K., Bours, V., Klamer, S., Bayon-Vicente, G., Vael, C., Ariën, K. K., De Mendonca, R., Soetens, O., Michel, C., Bearzatto, B., Naesens, R., Gras, J., ... Baele, G. (20 October 2022). Two Years of Genomic Surveillance in Belgium during the SARS-CoV-2 Pandemic to Attain Country-Wide Coverage and Monitor the Introduction and Spread of Emerging Variants. Viruses, 14 (10), 2301. doi:10.3390/v14102301

El Moussaoui, M., Maes, N., Hong, S. L., Lambert, N., Gofflot, S., DELLOT, P., Belhadj, Y., Huynen, P., Hayette, M.-P., Meex, C., Bontems, S., Defêche, J., Godderis, L., Molenberghs, G., Meuris, C., Artesi, M., Durkin, K., Rahmouni, S., GREGOIRE, C., ... DARCIS, G. (14 June 2022). Evaluation of Screening Program and Phylogenetic Analysis of SARS-CoV-2 Infections among Hospital Healthcare Workers in Liège, Belgium. Viruses, 14 (6), 1302. doi:10.3390/v14061302

Saegerman, C., Nguyet Diep, A., Renault, V., Donneau, A.-F., Stamatakis, L., Coppieters, W., Michel, F., Breuer, C., Dandoy, M., Ek, O., Gourzonès, C., Schyns, J., Goffin, E., Minner, F., Durkin, K., Artesi, M., Bours, V., Bureau, F., & Gillet, L. (2022). A 2-month field cohort study of SARS-CoV-2 in saliva of BNT162b2 vaccinated nursing home workers. Communications Medicine. doi:10.1038/s43856-021-00067-3

Thissen, R., ARTESI, M., Durkin, K., JOSSE, C., PALMEIRA, L., & BOURS, V. (24 December 2021). Comprehensive detection of homologous recombination deficiency by Nanopore sequencing [Poster presentation]. GIGA cancer day, Liège, Belgium.

Durkin, K., Artesi, M., VAN DEN BROEKE, A., Bours, V., Hahaut, V., & Georges, M. (21 June 2021). Pooled crispr inverse pcr sequencing (pcip-seq): simultaneous sequencing of viral insertion points and the integrated viral genomes with long reads.

Van Campenhout, C., De Mendonça, R., Alexiou, B., De Clercq, S., Racu, M.-L., Royer-Chardon, C., Rusu, S., Van Eycken, M., ARTESI, M., Durkin, K., Mardulyn, P., BOURS, V., Decaestecker, C., Remmelink, M., Salmon, I., & D'Haene, N. (2021). Severe Acute Respiratory Syndrome Coronavirus 2 (SARS-CoV-2) Genome Sequencing from Post-Mortem Formalin-Fixed, Paraffin-Embedded Lung Tissues. The Journal of Molecular Diagnostics. doi:10.1016/j.jmoldx.2021.05.016

Artesi, M.* , Hahaut, V.* , Cole, B.* , Lambrechts, L., Ashrafi, F., Marçais, A., Hermine, O., Griebel, P., Arsic, N., van der Meer, F., Burny, A., Bron, D., BIANCHI, E., DELVENNE, P., BOURS, V., Charlier, C., Georges, M., Vandekerckhove, L.* , Van den Broeke, A.* , & Durkin, K.*. (2021). PCIP-seq: simultaneous sequencing of integrated viral genomes and their integration sites with long reads. Genome Biology, 22, 97. doi:10.1186/s13059-021-02307-0
* These authors have contributed equally to this work.

Bollen, N., Artesi, M., Durkin, K., Hong, S. L., Potter, B., Boujemla, B., Vanmechelen, B., Martí-Carreras, J., Wawina-Bokalanga, T., Meex, C., Bontems, S., Hayette, M.-P., André, E., Maes, P., Bours, V., Baele, G., & Dellicour, S. (2021). Exploiting genomic surveillance to map the spatio-temporal dispersal of SARS-CoV-2 spike mutations in Belgium across 2020. Scientific Reports, 11 (1), 18580. doi:10.1038/s41598-021-97667-9

Butera, Y., Mukantwari, E., Artesi, M., Umuringa, J. D. A., O'Toole, Á. N., Hill, V., Rooke, S., Hong, S. L., Dellicour, S., Majyambere, O., Bontems, S., Boujemla, B., Quick, J., Resende, P. C., Loman, N., Umumararungu, E., Kabanda, A., Murindahabi, M. M., Tuyisenge, P., ... Rujeni, N.*. (2021). Genomic sequencing of SARS-CoV-2 in Rwanda reveals the importance of incoming travelers on lineage diversity. Nature Communications, 12 (1), 5705. doi:10.1038/s41467-021-25985-7
* These authors have contributed equally to this work.

Dellicour, S., Durkin, K., Hong, S., Vanmechelen, B., Marti-Carreras, J., Gill, M., Meex, C., Bontems, S., André, E., Gilbert, M., Walker, C., De Maio, N., Hadfield, J., Hayette, M.-P., Bours, V., Wawina-Bokalanga, T., Artesi, M., Baele, G., Maes, P., & Faria, N. R. (2021). A phylodynamic workflow to rapidly gain insights into the dispersal history and dynamics of SARS-CoV-2 lineages. Molecular Biology and Evolution. doi:10.1093/molbev/msaa284

Maclot, F., Bontems, S., Meex, C., Artesi, M., Beckers, P., Bours, V., Durkin, K., & Hayette, M.-P. (2021). Development of a multiplex RT-qPCR using the drop out strategy to screen the SARS-CoV-2 South African 501Y.V2 variant. The Journal of infection, 83 (1), 19-e21. doi:10.1016/j.jinf.2021.04.035

Marçais, A., Lhermite, L., Artesi, M., Laurent, C., Durkin, K., Hahaut, V., Rosewick, N., Suarez, F., Sibon, D., Cheminant, M., Avettand-Fenoël, V., Bruneau, J., Georges, M., Pique, C., Van den Broeke, A.* , Asnafi, V.* , & Hermine, O.*. (2021). Targeted deep sequencing reveals clonal and subclonal mutational signatures in Adult T-cell leukemia/lymphoma and defines an unfavorable indolent subtype. Leukemia, 35, 764-776. doi:10.1038/s41375-020-0900-3
* These authors have contributed equally to this work.

Meuris, C., Kremer, C., Geerinck, A., Locquet, M., Bruyère, O., Defêche, J., Meex, C., Hayette, M.-P., Duchene, L., Dellot, P., Azarzar, S., Maréchal, N., Sauvage, A.-S., Frippiat, F., Giot, J.-B., Léonard, P., Fombellida, K., Moutschen, M., Durkin, K., ... Darcis, G. (2021). Transmission of SARS-CoV-2 After COVID-19 Screening and Mitigation Measures for Primary School Children Attending School in Liège, Belgium. JAMA Network Open, 4 (10), 2128757. doi:10.1001/jamanetworkopen.2021.28757

Rosewick, N.* , Hahaut, V.* , Durkin, K., Artesi, M., Karpe, S., Wayet, J., Griebel, P., Arsic, N., Marçais, A., Hermine, O., Burny, A., Georges, M., & Van den Broeke, A. (2020). An Improved Sequencing-Based Bioinformatics Pipeline to Track the Distribution and Clonal Architecture of Proviral Integration Sites. Frontiers in Microbiology, 11, 587306. doi:10.3389/fmicb.2020.587306
* These authors have contributed equally to this work.

Artesi, M., Hahaut, V., Ashrafi, F., Marcais, A., Hermine, O., Griebel, P., Arsic, N., van der Meer, F., Burny, A., Bron, D., Charlier, C., Georges, M., Van den Broeke, A., & Durkin, K. (2019). Pooled CRISPR Inverse PCR sequencing (PCIP-seq): simultaneous sequencing of retroviral insertion points and the associated provirus in thousands of cells with long reads 558130. ORBi-University of Liège. https://orbi.uliege.be/handle/2268/237583. doi:10.1101/558130

Rosewick, N.* , Durkin, K.* , Artesi, M.* , Marçais, A., Hahaut, V., Griebel, P., Avettand-Fenoel, V., Burny, A., Charlier, C., Hermine, O., Georges, M., & Van den Broeke, A. (23 May 2017). Cis-perturbation of cancer drivers by the HTLV-1/BLV proviruses is an early determinant of leukemogenesis. Nature Communications, 8. doi:10.1038/ncomms15264
* These authors have contributed equally to this work.

Artesi, M., Marcais, A., Durkin, K., Rosewick, N., Hahaut, V., Suarez, F., Trinquand, A., Lhermitte, L., Asnafi, V., Avettand-Fenoel, V., Burny, A., Georges, M., Hermine, O., & Van den Broeke, A. (2017). Monitoring molecular response in adult T-cell leukemia by high-throughput sequencing analysis of HTLV-1 clonality. Leukemia, 31 (11), 2532-2535. doi:10.1038/leu.2017.260