X-Mapper: fast and accurate sequence alignment via gapped x-mers

by Gaston, Jeffry M., Alm, Eric J., Zhang, An-Ni
Published 2025

CRISPR-Cas spacer acquisition is a rare event in human gut microbiome

by Zhang, An-Ni, Gaston, Jeffry M., Cárdenas, Pablo, Zhao, Shijie, Gu, Xiaoqiong, Alm, Eric J.
Published 2025

Persistence of dengue (serotypes 2 and 3), Zika, yellow fever, and murine hepatitis virus RNA in untreated wastewater

by Chandra, Franciscus, Lee, Wei Lin, Armas, Federica, Leifels, Mats, Gu, Xiaoqiong, Chen, Hongjie, Wuertz, Stefan, Alm, Eric J., Thompson, Janelle
Published 2022

Contextualizing wastewater-based surveillance in the COVID-19 vaccination era

by Armas, Federica, Chandra, Franciscus, Lee, Wei Lin, Gu, Xiaoqiong, Chen, Hongjie, Xiao, Amy, Leifels, Mats, Wuertz, Stefan, Alm, Eric J., Thompson, Janelle
Published 2023

Making waves : wastewater surveillance of SARS-CoV-2 for population-based health management

by Thompson, Janelle R., Nancharaiah, Yarlagadda V., Gu, Xiaoqiong, Lee, Wei Lin, Rajal, Verónica Beatriz, Haines, Monamie Bhadra, Girones, Rosina, Ng, Lee Ching, Alm, Eric J., Wuertz, Stefan
Published 2021

Making waves: wastewater surveillance of SARS-CoV-2 in an endemic future

by Wu, Fuqing, Lee, Wei Lin, Chen, Hongjie, Gu, Xiaoqiong, Chandra, Franciscus, Armas, Federica, Xiao, Amy, Leifels, Mats, Rhode, Steven F., Wuertz, Stefan, Thompson, Janelle, Alm, Eric J.
Published 2022

Monitoring human arboviral diseases through wastewater surveillance: challenges, progress and future opportunities

by Lee, Wei Lin, Gu, Xiaoqiong, Armas, Federica, Leifels, Mats, Wu, Fuqing, Chandra, Franciscus, Chua, Desmond Feng Jun, Syenina, Ayesa, Chen, Hongjie, Cheng, Dan, Ooi, Eng Eong, Wuertz, Stefan, Alm, Eric J., Thompson, Janelle
Published 2023

Development of an efficient wastewater testing protocol for high-throughput country-wide SARS-CoV-2 monitoring

by Mailepessov, Diyar, Arivalan, Sathish, Kong, Marcella, Griffiths, Jane, Low, Swee Ling, Chen, Hongjie, Hapuarachchi, Hapuarachchige Chanditha, Gu, Xiaoqiong, Lee, Wei Lin, Alm, Eric J., Thompson, Janelle, Wuertz, Stefan, Gin, Karina, Ng, Lee Ching, Wong, Judith Chui Ching
Published 2022

Gut Ruminococcaceae levels at baseline correlate with risk of antibiotic-associated diarrhea

by Gu, Xiaoqiong, Sim, Jean X. Y., Lee, Wei Lin, Cui, Liang, Chan, Yvonne F. Z., Chang, Ega Danu, Teh, Yii Ean, Zhang, An-Ni, Armas, Federica, Chandra, Franciscus, Chen, Hongjie, Zhao, Shijie, Lee, Zhanyi, Thompson, Janelle, Ooi, Eng Eong, Low, Jenny G., Alm, Eric J., Kalimuddin, Shirin
Published 2023

Rapid displacement of SARS-CoV-2 variant Delta by Omicron revealed by allele-specific PCR in wastewater

by Lee, Wei Lin, Armas, Federica, Guarneri, Flavia, Gu, Xiaoqiong, Formenti, Nicoletta, Wu, Fuqing, Chandra, Franciscus, Parisio, Giovanni, Chen, Hongjie, Xiao, Amy, Romeo, Claudia, Scali, Federico, Tonni, Matteo, Leifels, Mats, Chua, Desmond Feng Jun, Kwok, Germaine W. C., Tay, Joey Y. R., Pasquali, Paolo, Thompson, Janelle, Alborali, Giovanni Loris, Alm, Eric J.
Published 2023

Metrics to relate COVID-19 wastewater data to clinical testing dynamics

by Xiao, Amy, Wu, Fuqing, Bushman, Mary, Zhang, Jianbo, Imakaev, Maxim, Chai, Peter R., Duvallet, Claire, Endo, Noriko, Erickson, Timothy B., Armas, Federica, Arnold, Brian, Chen, Hongjie, Chandra, Franciscus, Ghaeli, Newsha, Gu, Xiaoqiong, Hanage, William P., Lee, Wei Lin, Matus, Mariana, McElroy, Kyle A., Moniz, Katya, Rhode, Steven F., Thompson, Janelle, Alm, Eric J.
Published 2022

Quantitative SARS-CoV-2 alpha variant B.1.1.7 tracking in wastewater by allele-specific RT-qPCR

by Lee, Wei Lin, Imakaev, Maxim, Armas, Federica, McElroy, Kyle A., Gu, Xiaoqiong, Duvallet, Claire, Chandra, Franciscus, Chen, Hongjie, Leifels, Mats, Mendola, Samuel, Floyd-O'Sullivan, Róisín, Powell, Morgan M., Wilson, Shane T., Berge, Karl L. J., Lim, Claire Y. J., Wu, Fuqing, Xiao, Amy, Moniz, Katya, Ghaeli, Newsha, Matus, Mariana, Thompson, Janelle R., Alm, Eric J.
Published 2022