Publications from the Genomic Epidemiology Research Group

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2022
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A COVID-19 mathematical model of at-risk populations with non-pharmaceutical preventive measures

Asempapa, Reuben ; Oduro, Bismark ; Apenteng, Ofosuhene O. ; Magagula, Vusi M.
in: Infectious Disease Modelling, vol: 7, issue: 1, pages: 45-61

Type: Journal article (Peer reviewed)

Status: Published     |    Year: 2022     |    DOI: https://doi.org/10.1016/j.idm.2021.11.005

 

A European multicenter evaluation study to investigate the performance on commercially available selective agar plates for the detection of carbapenemase producing Enterobacteriaceae

, ; Dierikx, Cindy ; Börjesson, Stefan ; Perrin-Guyomard, Agnès ; Haenni, Marisa ; Norström, Madelaine ; Divon, Hege H. ; Ilag, Hanna Karin ; Granier, Sophie A. ; Hammerum, Annette ; Kjeldgaard, Jette Sejer ; Pauly, Natalie ; Randall, Luke ; Anjum, Muna F. ; Smialowska, Aleksandra ; Franco, Alessia ; Veldman, Kees ; Slettemeås, Jannice Schau
in: Journal of Microbiological methods

Type: Journal article (Peer reviewed)

Status: Accepted/In press     |    Year: 2022     |    DOI: https://doi.org/10.1016/j.mimet.2022.106418

 

Cancer Incidence, Mortality, Years of Life Lost, Years Lived With Disability, and Disability-Adjusted Life Years for 29 Cancer Groups From 2010 to 2019: A Systematic Analysis for the Global Burden of Disease Study 2019

, ; Kocarnik, Jonathan M ; Compton, Kelly ; Dean, Frances E ; Fu, Weijia ; Gaw, Brian L ; Harvey, James D ; Henrikson, Hannah Jacqueline ; Lu, Dan ; Pennini, Alyssa ; Xu, Rixing ; Ababneh, Emad ; Abbasi-Kangevari, Mohsen ; Abbastabar, Hedayat ; Abd-Elsalam, Sherief M ; Abdoli, Amir ; Abedi, Aidin ; Abidi, Hassan ; Abolhassani, Hassan ; Adedeji, Isaac Akinkunmi ; Adnani, Qorinah Estiningtyas Sakilah ; Advani, Shailesh M ; Afzal, Muhammad Sohail ; Aghaali, Mohammad ; Ahinkorah, Bright Opoku ; Ahmad, Sajjad ; Ahmad, Tauseef ; Ahmadi, Ali ; Ahmadi, Sepideh ; Ahmed Rashid, Tarik ; Ahmed Salih, Yusra ; Akalu, Gizachew Taddesse ; Aklilu, Addis ; Akram, Tayyaba ; Akunna, Chisom Joyqueenet ; Al Hamad, Hanadi ; Alahdab, Fares ; Al-Aly, Ziyad ; Ali, Saqib ; Alimohamadi, Yousef ; Alipour, Vahid ; Aljunid, Syed Mohamed ; Alkhayyat, Motasem ; Almasi-Hashiani, Amir ; Almasri, Nihad A ; Al-Maweri, Sadeq Ali Ali ; Arshad, Muhammad ; Ghith, Nermin
in: Jama Oncology

Type: Journal article (Peer reviewed)

Status: Accepted/In press     |    Year: 2022     |    DOI: https://doi.org/10.1001/jamaoncol.2021.6987

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Can Machine Learning Models Predict Asparaginase-associated Pancreatitis in Childhood Acute Lymphoblastic Leukemia

Nielsen, Rikke L. ; Wolthers, Benjamin O. ; Helenius, Marianne ; Albertsen, Birgitte K. ; Clemmensen, Line ; Nielsen, Kasper ; Kanerva, Jukka ; Niinimäki, Riitta ; Frandsen, Thomas L. ; Attarbaschi, Andishe ; Barzilai, Shlomit ; Colombini, Antonella ; Escherich, Gabriele ; Aytan-Aktug, Derya ; Liu, Hsi-Che ; Möricke, Anja ; Samarasinghe, Sujith ; van der Sluis, Inge M. ; Stanulla, Martin ; Tulstrup, Morten ; Yadav, Rachita ; Zapotocka, Ester ; Schmiegelow, Kjeld ; Gupta, Ramneek
in: Journal of Pediatric Hematology/Oncology

Type: Journal article (Peer reviewed)

Status: Accepted/In press     |    Year: 2022     |    DOI: https://doi.org/10.1097/MPH.0000000000002292

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Emergence of methicillin resistance predates the clinical use of antibiotics

Larsen, Jesper ; Raisen, Claire L. ; Ba, Xiaoliang ; Sadgrove, Nicholas J. ; Padilla-González, Guillermo F. ; Simmonds, Monique S. J. ; Loncaric, Igor ; Kerschner, Heidrun ; Apfalter, Petra ; Hartl, Rainer ; Deplano, Ariane ; Vandendriessche, Stien ; Černá Bolfíková, Barbora ; Hulva, Pavel ; Arendrup, Maiken C. ; Hare, Rasmus K. ; Barnadas, Céline ; Stegger, Marc ; Sieber, Raphael N. ; Skov, Robert L. ; Petersen, Andreas ; Angen, Øystein ; Rasmussen, Sophie L. ; Espinosa-Gongora, Carmen ; Aarestrup, Frank M. ; Lindholm, Laura J. ; Nykäsenoja, Suvi M. ; Laurent, Frederic ; Becker, Karsten ; Walther, Birgit ; Kehrenberg, Corinna ; Cuny, Christiane ; Layer, Franziska ; Werner, Guido ; Witte, Wolfgang ; Stamm, Ivonne ; Moroni, Paolo ; Jørgensen, Hannah J. ; de Lencastre, Hermínia ; Cercenado, Emilia ; García-Garrote, Fernando ; Börjesson, Stefan ; Hæggman, Sara ; Perreten, Vincent ; Teale, Christopher J. ; Waller, Andrew S. ; Pichon, Bruno ; Curran, Martin D. ; Ellington, Matthew J. ; Welch, John J. ; Peacock, Sharon J. ; Seilly, David J. ; Morgan, Fiona J. E. ; Parkhill, Julian ; Hadjirin, Nazreen F. ; Lindsay, Jodi A. ; Holden, Matthew T. G. ; Edwards, Giles F. ; Foster, Geoffrey ; Paterson, Gavin K. ; Didelot, Xavier ; Holmes, Mark A. ; Harrison, Ewan M. ; Larsen, Anders R.
in: Nature

Type: Journal article (Peer reviewed)

Status: Accepted/In press     |    Year: 2022     |    DOI: https://doi.org/10.1038/s41586-021-04265-w

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FI: The Fecobiome Initiative

Sapountzis, Panagiotis ; Teseo, Serafino ; Otani, Saria ; Aarestrup, Frank Møller ; Forano, Evelyne ; Suen, Garett ; Tsiamis, George ; Haley, Bradd ; Van Kessel, Jo Ann ; Huws, Sharon A.
in: Foodborne pathogens and disease

Type: Journal article (Peer reviewed)

Status: Accepted/In press     |    Year: 2022     |    DOI: https://doi.org/10.1089/fpd.2021.0082

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Machine learning-based predictive modeling to identify genotypic traits associated with Salmonella enterica disease endpoints in isolates from ground chicken

Tanui, Collins K. ; Karanth, Shraddha ; Njage, Patrick M.K. ; Meng, Jianghong ; Pradhan, Abani K.
in: LWT, vol: 154

Type: Journal article (Peer reviewed)

Status: Published     |    Year: 2022     |    DOI: https://doi.org/10.1016/j.lwt.2021.112701

 

NetSolP: predicting protein solubility in E. coli using language models

Thumuluri, Vineet ; Martiny, Hannah-Marie ; Armenteros, Jose J. Almagro ; Salomon, Jesper ; Nielsen, Henrik ; Johansen, Alexander R ; Valencia, Alfonso (Editor)
in: Bioinformatics

Type: Journal article (Peer reviewed)

Status: Accepted/In press     |    Year: 2022     |    DOI: https://doi.org/10.1093/bioinformatics/btab801

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Risk and sustainability

Hauschild, Michael Z. ; McKone, Thomas E. ; Arnbjerg-Nielsen, Karsten ; Hald, Tine ; Nielsen, Bo F. ; Mabit, Stefan E. ; Fantke, Peter
in: Environmental Sciences Europe, vol: 34

Type: Comment/debate (Peer reviewed)

Status: Published     |    Year: 2022     |    DOI: https://doi.org/10.1186/s12302-021-00587-8