Late-Onset Bloodstream Infection and Perturbed Maturation of the Gastrointestinal Microbiota in Premature Infants
Shaw, Alexander G, Sim, Kathleen, Randell, Paul, Cox, Michael J, McClure, Zoë E, Li, Ming-Shi, Donaldson, Hugo, Langford, Paul R, Cookson, William O C M, Moffatt, Miriam F, Kroll, J Simon
Published in PloS one (13.07.2015)
Published in PloS one (13.07.2015)
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Journal Article
Premature neonatal gut microbial community patterns supporting an epithelial TLR-mediated pathway for necrotizing enterocolitis
Shaw, Alexander G, Sim, Kathleen, Rose, Graham, Wooldridge, David J, Li, Ming-Shi, Misra, Raju V, Gharbia, Saheer, Kroll, J Simon
Published in BMC microbiology (06.08.2021)
Published in BMC microbiology (06.08.2021)
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Journal Article
Development of the gut microbiota during early life in premature and term infants
Sim, Kathleen, Powell, Elizabeth, Cornwell, Emma, Simon Kroll, J, Shaw, Alexander G
Published in Gut pathogens (16.01.2023)
Published in Gut pathogens (16.01.2023)
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Journal Article
Dynamics of toxigenic Clostridium perfringens colonisation in a cohort of prematurely born neonatal infants
Shaw, Alexander G, Cornwell, Emma, Sim, Kathleen, Thrower, Hannah, Scott, Hannah, Brown, Joseph C S, Dixon, Ronald A, Kroll, J Simon
Published in BMC pediatrics (18.02.2020)
Published in BMC pediatrics (18.02.2020)
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Journal Article
Antibiotic resistance potential of the healthy preterm infant gut microbiome
Rose, Graham, Shaw, Alexander G, Sim, Kathleen, Wooldridge, David J, Li, Ming-Shi, Gharbia, Saheer, Misra, Raju, Kroll, John Simon
Published in PeerJ (San Francisco, CA) (25.01.2017)
Published in PeerJ (San Francisco, CA) (25.01.2017)
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Journal Article
Wastewater Surveillance in Europe for Non-Polio Enteroviruses and Beyond
Bubba, Laura, Benschop, Kimberley S. M., Blomqvist, Soile, Duizer, Erwin, Martin, Javier, Shaw, Alexander G., Bailly, Jean-Luc, Rasmussen, Lasse D., Baicus, Anda, Fischer, Thea K., Harvala, Heli
Published in Microorganisms (Basel) (01.10.2023)
Published in Microorganisms (Basel) (01.10.2023)
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Journal Article
Sensitive poliovirus detection using nested PCR and nanopore sequencing: a prospective validation study
Shaw, Alexander G., Mampuela, Tresor Kabeya, Lofiko, Emmanuel Lokilo, Pratt, Catherine, Troman, Catherine, Bujaki, Erika, O’Toole, Áine, Akello, Joyce Odeke, Aziza, Adrienne Amuri, Lusamaki, Eddy Kinganda, Makangara, Jean Claude, Akonga, Marceline, Lay, Yvonne, Nsunda, Bibiche, White, Bailey, Jorgensen, David, Pukuta, Elizabeth, Riziki, Yogolelo, Rankin, Kathleen E., Rambaut, Andrew, Ahuka-Mundeke, Steve, Muyembe, Jean-Jacques, Martin, Javier, Grassly, Nicholas C., Mbala-Kingebeni, Placide
Published in Nature microbiology (01.09.2023)
Published in Nature microbiology (01.09.2023)
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Journal Article
Noninvasive Fecal Cytokine and Microbiota Profiles Predict Commencement of Necrotizing Enterocolitis in a Proof-of-Concept Study
Zenner, Christian, Chalklen, Lisa, Adjei, Helena, Dalby, Matthew J., Mitra, Suparna, Cornwell, Emma, Shaw, Alexander G., Sim, Kathleen, Kroll, J. Simon, Hall, Lindsay J.
Published in Gastro hep advances (2023)
Published in Gastro hep advances (2023)
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Journal Article
Sustained detection of type 2 poliovirus in London sewage between February and July, 2022, by enhanced environmental surveillance
Klapsa, Dimitra, Wilton, Thomas, Zealand, Andrew, Bujaki, Erika, Saxentoff, Eugene, Troman, Catherine, Shaw, Alexander G, Tedcastle, Alison, Majumdar, Manasi, Mate, Ryan, Akello, Joyce O, Huseynov, Shahin, Zeb, Ali, Zambon, Maria, Bell, Anita, Hagan, José, Wade, Matthew J, Ramsay, Mary, Grassly, Nicholas C, Saliba, Vanessa, Martin, Javier
Published in The Lancet (British edition) (29.10.2022)
Published in The Lancet (British edition) (29.10.2022)
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Journal Article
Rapid and Sensitive Direct Detection and Identification of Poliovirus from Stool and Environmental Surveillance Samples by Use of Nanopore Sequencing
Shaw, Alexander G, Majumdar, Manasi, Troman, Catherine, O'Toole, Áine, Benny, Blossom, Abraham, Dilip, Praharaj, Ira, Kang, Gagandeep, Sharif, Salmaan, Alam, Muhammad Masroor, Shaukat, Shahzad, Angez, Mehar, Khurshid, Adnan, Mahmood, Nayab, Arshad, Yasir, Rehman, Lubna, Mujtaba, Ghulam, Akthar, Ribqa, Salman, Muhammad, Klapsa, Dimitra, Hajarha, Yara, Asghar, Humayun, Bandyopadhyay, Ananda, Rambaut, Andrew, Martin, Javier, Grassly, Nicholas
Published in Journal of clinical microbiology (24.08.2020)
Published in Journal of clinical microbiology (24.08.2020)
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Journal Article
Gastrointestinal, vaginal, nasopharyngeal, and breast milk microbiota profiles and breast milk metabolomic changes in Gambian infants over the first two months of lactation: A prospective cohort study
Karampatsas, Konstantinos, Faal, Amadou, Jaiteh, Mustapha, Garcia-Perez, Isabel, Aller, Sean, Shaw, Alexander G., Kopytek, Aleksandra, Witney, Adam A., Le Doare, Kirsty
Published in Medicine (Baltimore) (18.11.2022)
Published in Medicine (Baltimore) (18.11.2022)
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Journal Article
Time Taken to Detect and Respond to Polio Outbreaks in Africa and the Potential Impact of Direct Molecular Detection and Nanopore Sequencing
Shaw, Alexander G, Cooper, Laura V, Gumede, Nicksy, Bandyopadhyay, Ananda S, Grassly, Nicholas C, Blake, Isobel M
Published in The Journal of infectious diseases (26.08.2022)
Published in The Journal of infectious diseases (26.08.2022)
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Journal Article
Dysbiosis Anticipating Necrotizing Enterocolitis in Very Premature Infants
Sim, Kathleen, Shaw, Alexander G., Randell, Paul, Cox, Michael J., McClure, Zoë E., Li, Ming-Shi, Haddad, Munther, Langford, Paul R., Cookson, William O. C. M., Moffatt, Miriam F., Kroll, J. Simon
Published in Clinical infectious diseases (01.02.2015)
Published in Clinical infectious diseases (01.02.2015)
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Journal Article
The role of genetic sequencing and analysis in the polio eradication programme
Jorgensen, David, Pons-Salort, Margarita, Shaw, Alexander G, Grassly, Nicholas C
Published in Virus evolution (01.07.2020)
Published in Virus evolution (01.07.2020)
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Journal Article
Latitude in sample handling and storage for infant faecal microbiota studies: the elephant in the room?
Shaw, Alexander G, Sim, Kathleen, Powell, Elizabeth, Cornwell, Emma, Cramer, Teresa, McClure, Zoë E, Li, Ming-Shi, Kroll, J Simon
Published in Microbiome (30.07.2016)
Published in Microbiome (30.07.2016)
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Journal Article
Comparison of Eleven RNA Extraction Methods for Poliovirus Direct Molecular Detection in Stool Samples
Akello, Joyce Odeke, Bujaki, Erika, Shaw, Alexander G, Khurshid, Adnan, Arshad, Yasir, Troman, Catherine, Majumdar, Manasi, O'Toole, Áine, Rambaut, Andrew, Alam, Muhammad Masroor, Martin, Javier, Grassly, Nicholas C
Published in Microbiology spectrum (20.03.2023)
Published in Microbiology spectrum (20.03.2023)
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Journal Article
Assessing the Colonic Microbiota in Children: Effects of Sample Site and Bowel Preparation
Shaw, Alexander G, Black, Naomi, Rushd, Azelea, Sim, Kathleen, Randell, Paul, Kroll, J Simon, Epstein, Jenny
Published in Journal of pediatric gastroenterology and nutrition (01.02.2017)
Published in Journal of pediatric gastroenterology and nutrition (01.02.2017)
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Journal Article
Particular genomic and virulence traits associated with preterm infant-derived toxigenic Clostridium perfringens strains
Kiu, Raymond, Shaw, Alexander G., Sim, Kathleen, Acuna-Gonzalez, Antia, Price, Christopher A., Bedwell, Harley, Dreger, Sally A., Fowler, Wesley J., Cornwell, Emma, Pickard, Derek, Belteki, Gusztav, Malsom, Jennifer, Phillips, Sarah, Young, Gregory R., Schofield, Zoe, Alcon-Giner, Cristina, Berrington, Janet E., Stewart, Christopher J., Dougan, Gordon, Clarke, Paul, Douce, Gillian, Robinson, Stephen D., Kroll, J. Simon, Hall, Lindsay J.
Published in Nature microbiology (01.06.2023)
Published in Nature microbiology (01.06.2023)
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Journal Article
Automated detection and classification of polioviruses from nanopore sequencing reads using piranha
O’Toole, Áine, Colquhoun, Rachel, Ansley, Corey, Troman, Catherine, Maloney, Daniel, Vance, Zoe, Akello, Joyce, Bujaki, Erika, Majumdar, Manasi, Khurshid, Adnan, Arshad, Yasir, Alam, Muhammad Masroor, Martin, Javier, Shaw, Alexander G, Grassly, Nicholas C, Rambaut, Andrew
Published in Virus evolution (2024)
Published in Virus evolution (2024)
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Journal Article
Moving beyond Wastewater: Perspectives on Environmental Surveillance of Infectious Diseases for Public Health Action in Low-Resource Settings
Delgado Vela, Jeseth, Philo, Sarah E., Brown, Joe, Taniuchi, Mami, Cantrell, Molly, Kossik, Alexandra, Ramaswamy, Maya, Ajjampur, Sitara SR, Guerfali, Fatma Z., Holm, Rochelle H., Meschke, John Scott, Otero, Maria Catherine B., Pickering, Amy J., Rahman, Mahbubur, Shaw, Alexander G., Shrestha, Abhilasha, Sirikanchana, Kwanrawee, Tevuzula, Vivi Maketa, Halden, Rolf U., Boehm, Alexandria B., Bibby, Kyle
Published in Environment & health (Washington, D.C.) (18.10.2024)
Published in Environment & health (Washington, D.C.) (18.10.2024)
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Journal Article