Benjamin Sobkowiak (Ben Sobkowiak)

Loop profile ORCID

Publication Activity (10 Years)

Years Active: 2018-2024
Publications (10 Years): 19

Top Topics

Multidrug Resistant

High Resolution

Genetic Diversity

Acinetobacter Baumannii

Top Venues

medRxiv : the preprint server for health sciences

Wellcome open research

Nature communications

bioRxiv : the preprint server for biology

This page only lists publications with an associated author ORCID identifier.

Publications

Melanie H Chitwood, Caroline Colijn, Chongguang Yang, Valeriu Crudu, Nelly Ciobanu, Alexandru Codreanu, Jaehee Kim, Isabel Rancu, Kyu Y Rhee, Ted Cohen, Benjamin Sobkowiak
The recent rapid expansion of multidrug resistant Ural lineage Mycobacterium tuberculosis in Moldova. Nature communications 15 (1) (2024)
Melanie H Chitwood, Caroline Colijn, Chongguang Yang, Valeriu Crudu, Nelly Ciobanu, Alexandru Codreanu, Jaehee Kim, Isabel Rancu, Kyu Y Rhee, Ted Cohen, Benjamin Sobkowiak
The recent rapid expansion of multidrug resistant Ural lineage Mycobacterium tuberculosis in Moldova. Nature communications 15 (1) (2024)
Peiyu Xu, Shenni Liang, Andrew Hahn, Vivian Zhao, Wai Tung 'Jack' Lo, Benjamin C Haller, Benjamin Sobkowiak, Melanie H Chitwood, Caroline Colijn, Ted Cohen, Kyu Y Rhee, Philipp W Messer, Martin T Wells, Andrew G Clark, Jaehee Kim
e3SIM: epidemiological-ecological-evolutionary simulation framework for genomic epidemiology. bioRxiv : the preprint server for biology (2024)
Peiyu Xu, Shenni Liang, Andrew Hahn, Vivian Zhao, Wai Tung 'Jack' Lo, Benjamin C Haller, Benjamin Sobkowiak, Melanie H Chitwood, Caroline Colijn, Ted Cohen, Kyu Y Rhee, Philipp W Messer, Martin T Wells, Andrew G Clark, Jaehee Kim
e3SIM: epidemiological-ecological-evolutionary simulation framework for genomic epidemiology. bioRxiv : the preprint server for biology (2024)
Melanie H Chitwood, Caroline Colijn, Chongguang Yang, Valeriu Crudu, Nelly Ciobanu, Alexandru Codreanu, Jaehee Kim, Isabel Rancu, Kyu Y Rhee, Ted Cohen, Benjamin Sobkowiak
The recent rapid expansion of multidrug resistant Ural lineage Mycobacterium tuberculosis in Moldova. Nature communications 15 (1) (2024)
Katharine S Walter, Ted Cohen, Barun Mathema, Caroline Colijn, Benjamin Sobkowiak, Iñaki Comas, Galo A Goig, Julio Henrique da Rosa Croda, Jason R Andrews
Signatures of transmission in within-host M. tuberculosis variation. medRxiv : the preprint server for health sciences (2023)
Katharine S Walter, Ted Cohen, Barun Mathema, Caroline Colijn, Benjamin Sobkowiak, Iñaki Comas, Galo A Goig, Julio Henrique da Rosa Croda, Jason R Andrews
Signatures of transmission in within-host M. tuberculosis variation. medRxiv : the preprint server for health sciences (2023)
Jada Hackman, Carmen L Sheppard, Jody Phelan, William Jones-Warner, Benjamin Sobkowiak, Sonal Shah, David Litt, Norman K Fry, Michiko Toizumi, Lay-Myint Yoshida, Martin Hibberd, Elizabeth Miller, Stefan Flasche, Stéphane Hué
Phylogenetic inference of pneumococcal transmission from cross-sectional data, a pilot study. Wellcome open research 8 (2023)
Jessica E Stockdale, Kurnia Susvitasari, Paul Tupper, Benjamin Sobkowiak, Nicola Mulberry, Anders Gonçalves da Silva, Anne E Watt, Norelle L Sherry, Corinna Minko, Benjamin Peter Howden, Courtney R Lane, Caroline Colijn
Genomic epidemiology offers high resolution estimates of serial intervals for COVID-19. Nature communications 14 (1) (2023)
Maryam Hayati, Benjamin Sobkowiak, Jessica E Stockdale, Caroline Colijn
Phylogenetic identification of influenza virus candidates for seasonal vaccines. Science advances 9 (44) (2023)
Katharine S Walter, Ted Cohen, Barun Mathema, Caroline Colijn, Benjamin Sobkowiak, Iñaki Comas, Galo A Goig, Julio Henrique da Rosa Croda, Jason R Andrews
Signatures of transmission in within-host M. tuberculosis variation. medRxiv : the preprint server for health sciences (2023)
Jada Hackman, Carmen L Sheppard, Jody Phelan, William Jones-Warner, Benjamin Sobkowiak, Sonal Shah, David Litt, Norman K Fry, Michiko Toizumi, Lay-Myint Yoshida, Martin Hibberd, Elizabeth Miller, Stefan Flasche, Stéphane Hué
Phylogenetic inference of pneumococcal transmission from cross-sectional data, a pilot study. Wellcome open research 8 (2023)
Jada Hackman, Carmen L Sheppard, Jody Phelan, William Jones-Warner, Benjamin Sobkowiak, Sonal Shah, David Litt, Norman K Fry, Michiko Toizumi, Lay-Myint Yoshida, Martin Hibberd, Elizabeth Miller, Stefan Flasche, Stéphane Hué
Phylogenetic inference of pneumococcal transmission from cross-sectional data, a pilot study. Wellcome open research 8 (2023)
Katharine S Walter, Ted Cohen, Barun Mathema, Caroline Colijn, Benjamin Sobkowiak, Iñaki Comas, Galo A Goig, Julio Henrique da Rosa Croda, Jason R Andrews
Signatures of transmission in within-host M. tuberculosis variation. medRxiv : the preprint server for health sciences (2023)
Jada Hackman, Carmen L Sheppard, Jody Phelan, William Jones-Warner, Benjamin Sobkowiak, Sonal Shah, David Litt, Norman K Fry, Michiko Toizumi, Lay-Myint Yoshida, Martin Hibberd, Elizabeth Miller, Stefan Flasche, Stéphane Hué
Phylogenetic inference of pneumococcal transmission from cross-sectional data, a pilot study. Wellcome open research 8 (2023)
Benjamin Sobkowiak, Kamila Romanowski, Inna Sekirov, Jennifer L Gardy, James C Johnston
Comparing Mycobacterium tuberculosis transmission reconstruction models from whole genome sequence data. Epidemiology and infection (2023)
Katharine S Walter, Ted Cohen, Barun Mathema, Caroline Colijn, Benjamin Sobkowiak, Iñaki Comas, Galo A Goig, Julio Henrique da Rosa Croda, Jason R Andrews
Signatures of transmission in within-host M. tuberculosis variation. medRxiv : the preprint server for health sciences (2023)
Chongguang Yang, Benjamin Sobkowiak, Vijay Naidu, Alexandru Codreanu, Nelly Ciobanu, Kenneth S Gunasekera, Melanie H Chitwood, Sofia Alexandru, Stela Bivol, Marcus Russi, Joshua Havumaki, Patrick George Tobias Cudahy, Heather Fosburgh, Christopher J Allender, Heather Centner, David M Engelthaler, Nicolas A Menzies, Joshua L Warren, Valeriu Crudu, Caroline Colijn, Ted Cohen
Phylogeography and transmission of M. tuberculosis in Moldova: A prospective genomic analysis. PLoS medicine 19 (2) (2022)
Benjamin Sobkowiak, Judith R Glynn, Rein M G J Houben, Kim Mallard, Jody E Phelan, José Afonso Guerra-Assunção, Louis Banda, Themba Mzembe, Miguel Viveiros, Ruth McNerney, Julian Parkhill, Amelia C Crampin, Taane G Clark
Identifying mixed Mycobacterium tuberculosis infections from whole genome sequence data. BMC genomics 19 (1) (2018)