Additional file 1 of Characterization of SARS-CoV-2 worldwide transmission based on evolutionary dynamics and specific viral mutations in the spike protein

Discovering genomic patterns in SARS-CoV-2 variants

D'Angelo G.
Palmieri F.

January 2020

SARS-CoV-2 is a novel severe acute respiratory syndrome-like coronavirus (SARS-CoV), which is respon...

Summary of sequence variations in strains of Sars-CoV-2

Andrea Schafferhans

September 2021

This entry collects sequence variations of different strain of Sars-CoV-2 based on data retrieved fr...

Genomic analysis of early transmissibility assessment of the D614G mutant strain of SARS-CoV-2 in travelers returning to Taiwan from the United States of America

Ming-Jr Jian
Hsing-Yi Chung
Chih-Kai Chang
Shan-Shan Hsieh
Jung-Chung Lin
Kuo-Ming Yeh
Chien-Wen Chen
Feng-Yee Chang
Kuo-Sheng Hung
Ming-Tsan Liu
Ji-Rong Yang
Tein-Yao Chang
Sheng-Hui Tang
Cherng-Lih Perng
Hung-Sheng Shang

September 2021

Background There is a global pandemic of severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2...

Additional file 4 of Characterization of SARS-CoV-2 worldwide transmission based on evolutionary dynamics and specific viral mutations in the spike protein

Jiluo Liu (9307096)
Xi Chen (35903)
Yan Liu (25061)
Jiansheng Lin (1473871)
Jiaying Shen (8739615)
Hongwei Zhang (28335)
Jianhua Yin (388957)
Rui Pu (388955)
Yibo Ding (388961)
Guangwen Cao (9307099)

August 2021

Additional file 4: Figure S3. Network graphic of SARS-CoV-2 isolates worldwide during 1 and 30 April...

Additional file 5 of Characterization of SARS-CoV-2 worldwide transmission based on evolutionary dynamics and specific viral mutations in the spike protein

Jiluo Liu (9307096)
Xi Chen (35903)
Yan Liu (25061)
Jiansheng Lin (1473871)
Jiaying Shen (8739615)
Hongwei Zhang (28335)
Jianhua Yin (388957)
Rui Pu (388955)
Yibo Ding (388961)
Guangwen Cao (9307099)

August 2021

Additional file 5: Figure S4. Network graphic of SARS-CoV-2 isolates worldwide during 1 May and 30 J...

Additional file 6 of Characterization of SARS-CoV-2 worldwide transmission based on evolutionary dynamics and specific viral mutations in the spike protein

Jiluo Liu (9307096)
Xi Chen (35903)
Yan Liu (25061)
Jiansheng Lin (1473871)
Jiaying Shen (8739615)
Hongwei Zhang (28335)
Jianhua Yin (388957)
Rui Pu (388955)
Yibo Ding (388961)
Guangwen Cao (9307099)

August 2021

Additional file 6: Figure S5. Network graphic of SARS-CoV-2 isolates worldwide during 1 July and 31 ...

Table_1_Molecular characterization of a new SARS-CoV-2 recombinant cluster XAG identified in Brazil.pdf

Thaís de Souza Silva (13873028)
Richard Steiner Salvato (10350749)
Tatiana Schäffer Gregianini (5380043)
Ighor Arantes Gomes (13873031)
Elisa Cavalcante Pereira (13873034)
Eneida de Oliveira (13873037)
André Luiz de Menezes (13873040)
Regina Bones Barcellos (8744661)
Fernanda Marques Godinho (13873043)
Irina Riediger (10152953)
Maria do Carmo Debur (11721315)
Cristina Mendes de Oliveira (5545643)
Rodrigo Ribeiro-Rodrigues (562724)
Fabio Miyajima (208536)
Fernando Stehling Dias (13873046)
Adriano Abbud (13873049)
Rubens do Monte-Neto (13873052)
Carlos Eduardo Calzavara-Silva (12122499)
Marilda Mendonça Siqueira (6426929)
Gabriel Luz Wallau (5672192)
Paola Cristina Resende (10152920)
Gabriel da Rocha Fernandes (532965)
Pedro Alves (195615)

September 2022

Recombination events have been described in the Coronaviridae family. Since the beginning of the SAR...

Table_1_Investigation of the individual genetic evolution of SARS-CoV-2 in a small cluster during the rapid spread of the BF.5 lineage in Tokyo, Japan.XLSX

Bo Jin (169366)
Rieko Oyama (30726)
Yoko Tabe (427415)
Koji Tsuchiya (1604929)
Tetsuya Hando (16936008)
Mitsuru Wakita (10113721)
Yan Yan (208529)
Mizue Saita (16936011)
Satomi Takei (9538727)
Yuki Horiuchi (10113727)
Takashi Miida (427420)
Toshio Naito (43611)
Kazuhisa Takahashi (118725)
Hideoki Ogawa (138337)

September 2023

There has been a decreasing trend in new severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2...

Mutational signatures and heterogeneous host response revealed via large-scale characterization of SARS-CoV-2 genomic diversity. Graudenzi et al.

Graudenzi, A (via Mendeley Data)

January 2021

Supplementary Files of the article "Mutational signatures and heterogeneous host response revealed v...

Additional file 1 of In-flight transmission of wild-type SARS-CoV-2 and the outbreak potential of imported clusters of COVID-19: a review of published evidence

David Kelly (11310219)
Niamh Bambury (11310222)
Mairin Boland (11310225)

August 2021

Additional file 1: Table 1. Reviewed articles on evidence of in-flight transmission of SARS-CoV-2

Additional file 2 of In-flight transmission of wild-type SARS-CoV-2 and the outbreak potential of imported clusters of COVID-19: a review of published evidence

David Kelly (11310219)
Niamh Bambury (11310222)
Mairin Boland (11310225)

August 2021

Additional file 2: Table 2. Reviewed articles on outbreak potential of imported clusters of COVID-19

Additional file 1 of Clinical experience of treatment of immunocompromised individuals with persistent SARS-CoV-2 infection based on drug resistance mutations determined by genomic analysis: a descriptive study

Haruka Shimazu (17369837)
Daiki Wada (17369840)
Shuhei Maruyama (16978481)
Akira Inoue (6273)
Masami Kashihara (17369843)
Tomoyuki Yoshihara (17369846)
Fukuki Saito (13799228)
Kazuhisa Yoshiya (152614)
Yasushi Nakamori (15363164)
Yasuyuki Kuwagata (284149)

November 2023

Additional file 1. Whole genome sequencing data of the 31 SARS-CoV-2 samples in our study

Supplement to Pandemic-Scale Phylogenomics Reveals A Landscape of SARS-CoV2 Recombination

Turakhia, Yatish
Thornlow, Bryan
Hinrichs, Angie S.
McBroome, Jakob
Ayala, Nicolas
Ye, Cheng
Smith, Kyle
De Maio, Nicola
Haussler, David
Lanfear, Robert
Corbett-Detig, Russell

June 2022

Extended Data S1-S2 and Tables S6-S9 corresponding to the publication entitled Pandemic-Scale Phylog...

Data_Sheet_1_Molecular characterization of a new SARS-CoV-2 recombinant cluster XAG identified in Brazil.pdf

Thaís de Souza Silva (13873028)
Richard Steiner Salvato (10350749)
Tatiana Schäffer Gregianini (5380043)
Ighor Arantes Gomes (13873031)
Elisa Cavalcante Pereira (13873034)
Eneida de Oliveira (13873037)
André Luiz de Menezes (13873040)
Regina Bones Barcellos (8744661)
Fernanda Marques Godinho (13873043)
Irina Riediger (10152953)
Maria do Carmo Debur (11721315)
Cristina Mendes de Oliveira (5545643)
Rodrigo Ribeiro-Rodrigues (562724)
Fabio Miyajima (208536)
Fernando Stehling Dias (13873046)
Adriano Abbud (13873049)
Rubens do Monte-Neto (13873052)
Carlos Eduardo Calzavara-Silva (12122499)
Marilda Mendonça Siqueira (6426929)
Gabriel Luz Wallau (5672192)
Paola Cristina Resende (10152920)
Gabriel da Rocha Fernandes (532965)
Pedro Alves (195615)

September 2022

Recombination events have been described in the Coronaviridae family. Since the beginning of the SAR...

Supplementary data --The mutational landscape of SARS-CoV-2 variants diversifies T cell targets in an HLA supertype-dependent manner

Hamelin, David

September 2021

Supplementary data for the Cell Systems manuscript 'The mutational landscape of SARS-CoV-2 variants ...

Discovering genomic patterns in SARS-CoV-2 variants

D'Angelo G.
Palmieri F.

January 2020

SARS-CoV-2 is a novel severe acute respiratory syndrome-like coronavirus (SARS-CoV), which is respon...

Summary of sequence variations in strains of Sars-CoV-2

Andrea Schafferhans

September 2021

This entry collects sequence variations of different strain of Sars-CoV-2 based on data retrieved fr...

Genomic analysis of early transmissibility assessment of the D614G mutant strain of SARS-CoV-2 in travelers returning to Taiwan from the United States of America

Ming-Jr Jian
Hsing-Yi Chung
Chih-Kai Chang
Shan-Shan Hsieh
Jung-Chung Lin
Kuo-Ming Yeh
Chien-Wen Chen
Feng-Yee Chang
Kuo-Sheng Hung
Ming-Tsan Liu
Ji-Rong Yang
Tein-Yao Chang
Sheng-Hui Tang
Cherng-Lih Perng
Hung-Sheng Shang

September 2021

Background There is a global pandemic of severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2...

Additional file 4 of Characterization of SARS-CoV-2 worldwide transmission based on evolutionary dynamics and specific viral mutations in the spike protein

Jiluo Liu (9307096)
Xi Chen (35903)
Yan Liu (25061)
Jiansheng Lin (1473871)
Jiaying Shen (8739615)
Hongwei Zhang (28335)
Jianhua Yin (388957)
Rui Pu (388955)
Yibo Ding (388961)
Guangwen Cao (9307099)

August 2021

Additional file 4: Figure S3. Network graphic of SARS-CoV-2 isolates worldwide during 1 and 30 April...

Additional file 5 of Characterization of SARS-CoV-2 worldwide transmission based on evolutionary dynamics and specific viral mutations in the spike protein

Jiluo Liu (9307096)
Xi Chen (35903)
Yan Liu (25061)
Jiansheng Lin (1473871)
Jiaying Shen (8739615)
Hongwei Zhang (28335)
Jianhua Yin (388957)
Rui Pu (388955)
Yibo Ding (388961)
Guangwen Cao (9307099)

August 2021

Additional file 5: Figure S4. Network graphic of SARS-CoV-2 isolates worldwide during 1 May and 30 J...

Additional file 6 of Characterization of SARS-CoV-2 worldwide transmission based on evolutionary dynamics and specific viral mutations in the spike protein

Jiluo Liu (9307096)
Xi Chen (35903)
Yan Liu (25061)
Jiansheng Lin (1473871)
Jiaying Shen (8739615)
Hongwei Zhang (28335)
Jianhua Yin (388957)
Rui Pu (388955)
Yibo Ding (388961)
Guangwen Cao (9307099)

August 2021

Additional file 6: Figure S5. Network graphic of SARS-CoV-2 isolates worldwide during 1 July and 31 ...

Table_1_Molecular characterization of a new SARS-CoV-2 recombinant cluster XAG identified in Brazil.pdf

Thaís de Souza Silva (13873028)
Richard Steiner Salvato (10350749)
Tatiana Schäffer Gregianini (5380043)
Ighor Arantes Gomes (13873031)
Elisa Cavalcante Pereira (13873034)
Eneida de Oliveira (13873037)
André Luiz de Menezes (13873040)
Regina Bones Barcellos (8744661)
Fernanda Marques Godinho (13873043)
Irina Riediger (10152953)
Maria do Carmo Debur (11721315)
Cristina Mendes de Oliveira (5545643)
Rodrigo Ribeiro-Rodrigues (562724)
Fabio Miyajima (208536)
Fernando Stehling Dias (13873046)
Adriano Abbud (13873049)
Rubens do Monte-Neto (13873052)
Carlos Eduardo Calzavara-Silva (12122499)
Marilda Mendonça Siqueira (6426929)
Gabriel Luz Wallau (5672192)
Paola Cristina Resende (10152920)
Gabriel da Rocha Fernandes (532965)
Pedro Alves (195615)

September 2022

Recombination events have been described in the Coronaviridae family. Since the beginning of the SAR...

Table_1_Investigation of the individual genetic evolution of SARS-CoV-2 in a small cluster during the rapid spread of the BF.5 lineage in Tokyo, Japan.XLSX

Bo Jin (169366)
Rieko Oyama (30726)
Yoko Tabe (427415)
Koji Tsuchiya (1604929)
Tetsuya Hando (16936008)
Mitsuru Wakita (10113721)
Yan Yan (208529)
Mizue Saita (16936011)
Satomi Takei (9538727)
Yuki Horiuchi (10113727)
Takashi Miida (427420)
Toshio Naito (43611)
Kazuhisa Takahashi (118725)
Hideoki Ogawa (138337)

September 2023

There has been a decreasing trend in new severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2...

Mutational signatures and heterogeneous host response revealed via large-scale characterization of SARS-CoV-2 genomic diversity. Graudenzi et al.

Graudenzi, A (via Mendeley Data)

January 2021

Supplementary Files of the article "Mutational signatures and heterogeneous host response revealed v...

Additional file 1 of In-flight transmission of wild-type SARS-CoV-2 and the outbreak potential of imported clusters of COVID-19: a review of published evidence

David Kelly (11310219)
Niamh Bambury (11310222)
Mairin Boland (11310225)

August 2021

Additional file 1: Table 1. Reviewed articles on evidence of in-flight transmission of SARS-CoV-2

Additional file 2 of In-flight transmission of wild-type SARS-CoV-2 and the outbreak potential of imported clusters of COVID-19: a review of published evidence

David Kelly (11310219)
Niamh Bambury (11310222)
Mairin Boland (11310225)

August 2021

Additional file 2: Table 2. Reviewed articles on outbreak potential of imported clusters of COVID-19

Additional file 1 of Clinical experience of treatment of immunocompromised individuals with persistent SARS-CoV-2 infection based on drug resistance mutations determined by genomic analysis: a descriptive study

Haruka Shimazu (17369837)
Daiki Wada (17369840)
Shuhei Maruyama (16978481)
Akira Inoue (6273)
Masami Kashihara (17369843)
Tomoyuki Yoshihara (17369846)
Fukuki Saito (13799228)
Kazuhisa Yoshiya (152614)
Yasushi Nakamori (15363164)
Yasuyuki Kuwagata (284149)

November 2023

Additional file 1. Whole genome sequencing data of the 31 SARS-CoV-2 samples in our study

Supplement to Pandemic-Scale Phylogenomics Reveals A Landscape of SARS-CoV2 Recombination

Turakhia, Yatish
Thornlow, Bryan
Hinrichs, Angie S.
McBroome, Jakob
Ayala, Nicolas
Ye, Cheng
Smith, Kyle
De Maio, Nicola
Haussler, David
Lanfear, Robert
Corbett-Detig, Russell

June 2022

Extended Data S1-S2 and Tables S6-S9 corresponding to the publication entitled Pandemic-Scale Phylog...

Data_Sheet_1_Molecular characterization of a new SARS-CoV-2 recombinant cluster XAG identified in Brazil.pdf

Thaís de Souza Silva (13873028)
Richard Steiner Salvato (10350749)
Tatiana Schäffer Gregianini (5380043)
Ighor Arantes Gomes (13873031)
Elisa Cavalcante Pereira (13873034)
Eneida de Oliveira (13873037)
André Luiz de Menezes (13873040)
Regina Bones Barcellos (8744661)
Fernanda Marques Godinho (13873043)
Irina Riediger (10152953)
Maria do Carmo Debur (11721315)
Cristina Mendes de Oliveira (5545643)
Rodrigo Ribeiro-Rodrigues (562724)
Fabio Miyajima (208536)
Fernando Stehling Dias (13873046)
Adriano Abbud (13873049)
Rubens do Monte-Neto (13873052)
Carlos Eduardo Calzavara-Silva (12122499)
Marilda Mendonça Siqueira (6426929)
Gabriel Luz Wallau (5672192)
Paola Cristina Resende (10152920)
Gabriel da Rocha Fernandes (532965)
Pedro Alves (195615)

September 2022

Recombination events have been described in the Coronaviridae family. Since the beginning of the SAR...

Supplementary data --The mutational landscape of SARS-CoV-2 variants diversifies T cell targets in an HLA supertype-dependent manner

Hamelin, David

September 2021

Supplementary data for the Cell Systems manuscript 'The mutational landscape of SARS-CoV-2 variants ...

Discovering genomic patterns in SARS-CoV-2 variants

D'Angelo G.
Palmieri F.

January 2020

SARS-CoV-2 is a novel severe acute respiratory syndrome-like coronavirus (SARS-CoV), which is respon...

Summary of sequence variations in strains of Sars-CoV-2

Andrea Schafferhans

September 2021

This entry collects sequence variations of different strain of Sars-CoV-2 based on data retrieved fr...

Genomic analysis of early transmissibility assessment of the D614G mutant strain of SARS-CoV-2 in travelers returning to Taiwan from the United States of America

Ming-Jr Jian
Hsing-Yi Chung
Chih-Kai Chang
Shan-Shan Hsieh
Jung-Chung Lin
Kuo-Ming Yeh
Chien-Wen Chen
Feng-Yee Chang
Kuo-Sheng Hung
Ming-Tsan Liu
Ji-Rong Yang
Tein-Yao Chang
Sheng-Hui Tang
Cherng-Lih Perng
Hung-Sheng Shang

September 2021

Background There is a global pandemic of severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2...

Additional file 1 of Characterization of SARS-CoV-2 worldwide transmission based on evolutionary dynamics and specific viral mutations in the spike protein

Abstract

Extracted data

Additional file 1 of Characterization of SARS-CoV-2 worldwide transmission based on evolutionary dynamics and specific viral mutations in the spike protein

Abstract

Extracted data

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