Addressing pandemic-wide systematic errors in the SARS-CoV-2 phylogeny.

Hunt M, Hinrichs AS, Anderson D, Karim L, Dearlove BL, Knaggs J, Constantinides B, Fowler PW, Rodger G, Street T, Lumley S, Webster H, Sanderson T, Ruis C, Kotzen B, de Maio N, Amenga-Etego LN, Amuzu DSY, Avaro M, Awandare GA, Ayivor-Djanie R, Barkham T, Bashton M, Batty EM, Bediako Y, De Belder D, Benedetti E, Bergthaler A, Boers SA, Campos J, Carr RAA, Chen YYC, Cuba F, Dattero ME, Dejnirattisai W, Dilthey A, Duedu KO, Endler L, Engelmann I, Francisco NM, Fuchs J, Gnimpieba EZ, Groc S, Gyamfi J, Heemskerk D, Houwaart T, Hsiao NY, Huska M, Hölzer M, Iranzadeh A, Jarva H, Jeewandara C, Jolly B, Joseph R, Kant R, Ki KKK, Kurkela S, Lappalainen M, Lataretu M, Lemieux J, Liu C, Malavige GN, Mashe T, Mongkolsapaya J, Montes B, Mora JAM, Morang'a CM, Mvula B, Nagarajan N, Nelson A, Ngoi JM, da Paixão JP, Panning M, Poklepovich T, Quashie PK, Ranasinghe D, Russo M, San JE, Sanderson ND, Scaria V, Screaton G, Sessions OM, Sironen T, Sisay A, Smith D, Smura T, Supasa P, Suphavilai C, Swann J, Tegally H, Tegomoh B, Vapalahti O, Walker A, Wilkinson RJ, Williamson C, Zair X, IMSSC Laboratory Network Consortium, de Oliveira T, Peto TE, Crook D, Corbett-Detig R, Iqbal Z

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DOI
10.1038/s41592-025-02947-1
Published
2026 Mar
Container
Nature methods
Publisher
Not recorded
Open access
yes

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BibTeX

@article{allodium:10.1038/s41592-025-02947-1,
  title = {Addressing pandemic-wide systematic errors in the SARS-CoV-2 phylogeny.},
  author = {Hunt M and Hinrichs AS and Anderson D and Karim L and Dearlove BL and Knaggs J and Constantinides B and Fowler PW and Rodger G and Street T and Lumley S and Webster H and Sanderson T and Ruis C and Kotzen B and de Maio N and Amenga-Etego LN and Amuzu DSY and Avaro M and Awandare GA and Ayivor-Djanie R and Barkham T and Bashton M and Batty EM and Bediako Y and De Belder D and Benedetti E and Bergthaler A and Boers SA and Campos J and Carr RAA and Chen YYC and Cuba F and Dattero ME and Dejnirattisai W and Dilthey A and Duedu KO and Endler L and Engelmann I and Francisco NM and Fuchs J and Gnimpieba EZ and Groc S and Gyamfi J and Heemskerk D and Houwaart T and Hsiao NY and Huska M and Hölzer M and Iranzadeh A and Jarva H and Jeewandara C and Jolly B and Joseph R and Kant R and Ki KKK and Kurkela S and Lappalainen M and Lataretu M and Lemieux J and Liu C and Malavige GN and Mashe T and Mongkolsapaya J and Montes B and Mora JAM and Morang'a CM and Mvula B and Nagarajan N and Nelson A and Ngoi JM and da Paixão JP and Panning M and Poklepovich T and Quashie PK and Ranasinghe D and Russo M and San JE and Sanderson ND and Scaria V and Screaton G and Sessions OM and Sironen T and Sisay A and Smith D and Smura T and Supasa P and Suphavilai C and Swann J and Tegally H and Tegomoh B and Vapalahti O and Walker A and Wilkinson RJ and Williamson C and Zair X and IMSSC Laboratory Network Consortium and de Oliveira T and Peto TE and Crook D and Corbett-Detig R and Iqbal Z},
  year = {2026},
  journal = {Nature methods},
  doi = {10.1038/s41592-025-02947-1},
  url = {https://doi.org/10.1038/s41592-025-02947-1}
}

RIS

TY  - JOUR
TI  - Addressing pandemic-wide systematic errors in the SARS-CoV-2 phylogeny.
AU  - Hunt M
AU  - Hinrichs AS
AU  - Anderson D
AU  - Karim L
AU  - Dearlove BL
AU  - Knaggs J
AU  - Constantinides B
AU  - Fowler PW
AU  - Rodger G
AU  - Street T
AU  - Lumley S
AU  - Webster H
AU  - Sanderson T
AU  - Ruis C
AU  - Kotzen B
AU  - de Maio N
AU  - Amenga-Etego LN
AU  - Amuzu DSY
AU  - Avaro M
AU  - Awandare GA
AU  - Ayivor-Djanie R
AU  - Barkham T
AU  - Bashton M
AU  - Batty EM
AU  - Bediako Y
AU  - De Belder D
AU  - Benedetti E
AU  - Bergthaler A
AU  - Boers SA
AU  - Campos J
AU  - Carr RAA
AU  - Chen YYC
AU  - Cuba F
AU  - Dattero ME
AU  - Dejnirattisai W
AU  - Dilthey A
AU  - Duedu KO
AU  - Endler L
AU  - Engelmann I
AU  - Francisco NM
AU  - Fuchs J
AU  - Gnimpieba EZ
AU  - Groc S
AU  - Gyamfi J
AU  - Heemskerk D
AU  - Houwaart T
AU  - Hsiao NY
AU  - Huska M
AU  - Hölzer M
AU  - Iranzadeh A
AU  - Jarva H
AU  - Jeewandara C
AU  - Jolly B
AU  - Joseph R
AU  - Kant R
AU  - Ki KKK
AU  - Kurkela S
AU  - Lappalainen M
AU  - Lataretu M
AU  - Lemieux J
AU  - Liu C
AU  - Malavige GN
AU  - Mashe T
AU  - Mongkolsapaya J
AU  - Montes B
AU  - Mora JAM
AU  - Morang'a CM
AU  - Mvula B
AU  - Nagarajan N
AU  - Nelson A
AU  - Ngoi JM
AU  - da Paixão JP
AU  - Panning M
AU  - Poklepovich T
AU  - Quashie PK
AU  - Ranasinghe D
AU  - Russo M
AU  - San JE
AU  - Sanderson ND
AU  - Scaria V
AU  - Screaton G
AU  - Sessions OM
AU  - Sironen T
AU  - Sisay A
AU  - Smith D
AU  - Smura T
AU  - Supasa P
AU  - Suphavilai C
AU  - Swann J
AU  - Tegally H
AU  - Tegomoh B
AU  - Vapalahti O
AU  - Walker A
AU  - Wilkinson RJ
AU  - Williamson C
AU  - Zair X
AU  - IMSSC Laboratory Network Consortium
AU  - de Oliveira T
AU  - Peto TE
AU  - Crook D
AU  - Corbett-Detig R
AU  - Iqbal Z
PY  - 2026
JO  - Nature methods
DO  - 10.1038/s41592-025-02947-1
UR  - https://doi.org/10.1038/s41592-025-02947-1
ER  -

APA

M, H., AS, H., D, A., L, K., BL, D., J, K., B, C., PW, F., G, R., T, S., S, L., H, W., T, S., C, R., B, K., N, D. M., LN, A., DSY, A., M, A., GA, A., R, A., T, B., M, B., EM, B., Y, B., D, D. B., E, B., A, B., SA, B., J, C., RAA, C., YYC, C., F, C., ME, D., W, D., A, D., KO, D., L, E., I, E., NM, F., J, F., EZ, G., S, G., J, G., D, H., T, H., NY, H., M, H., M, H., A, I., H, J., C, J., B, J., R, J., R, K., KKK, K., S, K., M, L., M, L., J, L., C, L., GN, M., T, M., J, M., B, M., JAM, M., CM, M., B, M., N, N., A, N., JM, N., JP, D. P., M, P., T, P., PK, Q., D, R., M, R., JE, S., ND, S., V, S., G, S., OM, S., T, S., A, S., D, S., T, S., P, S., C, S., J, S., H, T., B, T., O, V., A, W., RJ, W., C, W., X, Z., Consortium, I. L. N., T, D. O., TE, P., D, C., R, C., & Z, I. (2026). Addressing pandemic-wide systematic errors in the SARS-CoV-2 phylogeny.. Nature methods. https://doi.org/10.1038/s41592-025-02947-1

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