Genome alignment for 3,156 isolates of S. pneumoniae

Multiple sequence alignment of P. aeruginosa isolates (draft)

David Williams (787644)
Steve Paterson (49478)
Michael A Brockhurst (68261)
Craig Winstanley (75404)

December 2015

<p>Multiple sequence alignment of Pseudomonas aeruginosa Liverpool Epidemic Strain isolates sampling...

S. cerevisiae (large dataset) whole-genome SNP alignment with outgroup S. paradoxus, related to Figure S3

Almeida, Pedro
Barbosa, Raquel
Zalar, Polona
Imanishi, Yumi
Shimizu, Kiminori
Turchetti, Benedetta
Legras, Jean-Luc
Serra, Marta
Dequin, Sylvie
Couloux, Arnaud
Guy, Julie
Bensasson, Douda
Gonçalves, Paula
Sampaio, José Paulo

August 2015

This is a gzip/tar compressed data archive containing the concatenated SNP alignment of the large da...

BIGSdb gene-by-gene alignment, fasta format

Thorell, Kaisa
Yahara, Koji
Berthenet, Elvire

February 2017

This is a fasta format gene-by-gene alignment of all the genomes included in the study to all loci i...

Genome alignment for 3,156 isolates of S. pneumoniae

Skwark, Marcin J.
Croucher, Nicholas J.
Puranen, Santeri
Chewapreecha, Claire
Pesonen, Maiju
Xu, Ying Ying
Turner, Paul
Harris, Simon R.
Beres, Stephen B.
Musser, James M.
Parkhill, Julian
Bentley, Stephen D.
Aurell, Erik
Corander, Jukka

February 2017

Fasta formatted genome alignment of the Maela Streptococcus pneumoniae isolates considered in the st...

Genome alignment for 3,442 isolates of S. pyogenes

Skwark, Marcin J.
Croucher, Nicholas J.
Puranen, Santeri
Chewapreecha, Claire
Pesonen, Maiju
Xu, Ying Ying
Turner, Paul
Harris, Simon R.
Beres, Stephen B.
Musser, James M.
Parkhill, Julian
Bentley, Stephen D.
Aurell, Erik
Corander, Jukka

February 2017

Fasta formatted genome alignment of 3,442 isolates of Streptococcus pyogenes considered in the study

Core genome codon alignment of 616 Streptococcus pneumoniae isolates

Nicholas J. Croucher (158423)
Jonathan A. Finkelstein (715292)
Steven I. Pelton (3298626)
Julian Parkhill (30393)
Stephen D. Bentley (137281)
William P. Hanage (249299)
Marc Lipsitch (14729)

November 2016

FASTA format 1.14 Mb codon alignment generated through concatenation of individual alignments of the...

Maximum likelihood phylogeny based on the core genome alignment of 616 Streptococcus pneumoniae isolates

Croucher, Nicholas J.
Finkelstein, Jonathan A.
Pelton, Steven I.
Parkhill, Julian
Bentley, Stephen D.
Hanage, William P.
Lipsitch, Marc

October 2015

Newick format maximum likelihood phylogeny generated using the 106,196 polymorphic sites in a core g...

Core genome alignment for isolates used in this study

Johanna L. Baily (3284721)
Guillaume Méric (543892)
Sion Bayliss (833156)
Geoffrey Foster (2559703)
Simon E. Moss (163100)
Eleanor Watson (3284718)
Ben Pascoe (522026)
Jane Mikhail (3263613)
Robert J. Goldstone (233496)
Romain Pizzi (754213)
David G. E. Smith (122041)
Kim Willoughby (165257)
Alisa J. Hall (3284715)
Mark P. Dagleish (348045)
Samuel K. Sheppard (124129)

October 2016

Multi-FASTA file of core genes concatenated and aligned using MUSCLE, from Campylobacter coli and C....

Whole genome alignments of 15 sequence clusters of similar isolates

Croucher, Nicholas J.
Finkelstein, Jonathan A.
Pelton, Steven I.
Parkhill, Julian
Bentley, Stephen D.
Hanage, William P.
Lipsitch, Marc

October 2015

Fifteen FASTA format whole genome alignments, each corresponding to one of the monophyletic sequence...

Draft Genome Sequences of Six Strains of Streptococcus pneumoniae from Serotypes 5, 6A, 6B, 18C, 19A, and 23F

Jakobsson, Hedvig E.
Salv\ue0-Serra, Francisco
Thorell, Kaisa
Karlsson, Roger
Gonzales-Siles, L.
Boulund, Fredrik
Engstrand, Lars
Kristiansson, Erik
Moorea, Edward R.B.

January 2017

Streptococcus pneumoniae is a pathogenic bacterium found most commonly in the respiratory tract of h...

BIGSdb gene-by-gene alignment, xmfa format

Thorell, Kaisa
Yahara, Koji
Berthenet, Elvire

February 2017

This is an extended fasta (xmfa) format gene-by-gene alignment of all the genomes included in the st...

Complete genome sequence of a serotype 11A, ST62 Streptococcus pneumoniae invasive isolate

CAMILLI R
BONNAL R. J
DEL GROSSO M
IACONO M
CORTI G
RIZZI E
MARCHETTI M
MULAS L
SUPERTI F
OGGIONI M. R
DE BELLIS G
AND A. PANTOSTI
IANNELLI, FRANCESCO

January 2011

BACKGROUND: Streptococcus pneumoniae is an important human pathogen representing a major cause of mo...

Structure and dynamics of the pan-genome of Streptococcus pneumoniae and closely related species.

Claudio Donati (5068073)
Natalia Hiller (3889258)
Herve Tettelin (5063762)
Alessandro Muzzi (5068067)
Nicholas J. Croucher (158423)
Samuel V. Angiuoli (33591)
Marco Oggioni (5068079)
Julie C. Dunning Hotopp (167869)
Fen Z. Hu (60141)
David R. Riley (167877)
Antonello Covacci (5068082)
Tim J. Mitchell (179143)
Stephen D. Bentley (137281)
Morgens Kilian (5068076)
Garth D. Ehrlich (60143)
Rino Rappuoli (5068070)
E. Richard Moxon (5068064)
Vega Masignani (5068085)

April 2018

BACKGROUND: Streptococcus pneumoniae is one of the most important causes of microbial diseases in hu...

Whole-genome Based Investigation of Streptococcus pneumoniae Infections

Deng, Xianding Wayne

March 2017

Streptococcus pneumoniae is a common resident of the human throat, yet is also a major cause of comm...

Complete genome sequence of a serotype 11A, ST62 <it>Streptococcus pneumoniae </it>invasive isolate

Superti Fabiana
Iannelli Francesco
Mulas Laura
Marchetti Magda
Rizzi Ermanno
Corti Giorgio
Iacono Michele
Del Grosso Maria
Bonnal Raoul JP
Camilli Romina
Oggioni Marco R
De Bellis Gianluca
Pantosti Annalisa

February 2011

Abstract Background Streptococcus pneumoniae is an important human pathogen representing a major cau...

Multiple sequence alignment of P. aeruginosa isolates (draft)

David Williams (787644)
Steve Paterson (49478)
Michael A Brockhurst (68261)
Craig Winstanley (75404)

December 2015

<p>Multiple sequence alignment of Pseudomonas aeruginosa Liverpool Epidemic Strain isolates sampling...

S. cerevisiae (large dataset) whole-genome SNP alignment with outgroup S. paradoxus, related to Figure S3

Almeida, Pedro
Barbosa, Raquel
Zalar, Polona
Imanishi, Yumi
Shimizu, Kiminori
Turchetti, Benedetta
Legras, Jean-Luc
Serra, Marta
Dequin, Sylvie
Couloux, Arnaud
Guy, Julie
Bensasson, Douda
Gonçalves, Paula
Sampaio, José Paulo

August 2015

This is a gzip/tar compressed data archive containing the concatenated SNP alignment of the large da...

BIGSdb gene-by-gene alignment, fasta format

Thorell, Kaisa
Yahara, Koji
Berthenet, Elvire

February 2017

This is a fasta format gene-by-gene alignment of all the genomes included in the study to all loci i...

Genome alignment for 3,156 isolates of S. pneumoniae

Skwark, Marcin J.
Croucher, Nicholas J.
Puranen, Santeri
Chewapreecha, Claire
Pesonen, Maiju
Xu, Ying Ying
Turner, Paul
Harris, Simon R.
Beres, Stephen B.
Musser, James M.
Parkhill, Julian
Bentley, Stephen D.
Aurell, Erik
Corander, Jukka

February 2017

Fasta formatted genome alignment of the Maela Streptococcus pneumoniae isolates considered in the st...

Genome alignment for 3,442 isolates of S. pyogenes

Skwark, Marcin J.
Croucher, Nicholas J.
Puranen, Santeri
Chewapreecha, Claire
Pesonen, Maiju
Xu, Ying Ying
Turner, Paul
Harris, Simon R.
Beres, Stephen B.
Musser, James M.
Parkhill, Julian
Bentley, Stephen D.
Aurell, Erik
Corander, Jukka

February 2017

Fasta formatted genome alignment of 3,442 isolates of Streptococcus pyogenes considered in the study

Core genome codon alignment of 616 Streptococcus pneumoniae isolates

Nicholas J. Croucher (158423)
Jonathan A. Finkelstein (715292)
Steven I. Pelton (3298626)
Julian Parkhill (30393)
Stephen D. Bentley (137281)
William P. Hanage (249299)
Marc Lipsitch (14729)

November 2016

FASTA format 1.14 Mb codon alignment generated through concatenation of individual alignments of the...

Maximum likelihood phylogeny based on the core genome alignment of 616 Streptococcus pneumoniae isolates

Croucher, Nicholas J.
Finkelstein, Jonathan A.
Pelton, Steven I.
Parkhill, Julian
Bentley, Stephen D.
Hanage, William P.
Lipsitch, Marc

October 2015

Newick format maximum likelihood phylogeny generated using the 106,196 polymorphic sites in a core g...

Core genome alignment for isolates used in this study

Johanna L. Baily (3284721)
Guillaume Méric (543892)
Sion Bayliss (833156)
Geoffrey Foster (2559703)
Simon E. Moss (163100)
Eleanor Watson (3284718)
Ben Pascoe (522026)
Jane Mikhail (3263613)
Robert J. Goldstone (233496)
Romain Pizzi (754213)
David G. E. Smith (122041)
Kim Willoughby (165257)
Alisa J. Hall (3284715)
Mark P. Dagleish (348045)
Samuel K. Sheppard (124129)

October 2016

Multi-FASTA file of core genes concatenated and aligned using MUSCLE, from Campylobacter coli and C....

Whole genome alignments of 15 sequence clusters of similar isolates

Croucher, Nicholas J.
Finkelstein, Jonathan A.
Pelton, Steven I.
Parkhill, Julian
Bentley, Stephen D.
Hanage, William P.
Lipsitch, Marc

October 2015

Fifteen FASTA format whole genome alignments, each corresponding to one of the monophyletic sequence...

Draft Genome Sequences of Six Strains of Streptococcus pneumoniae from Serotypes 5, 6A, 6B, 18C, 19A, and 23F

Jakobsson, Hedvig E.
Salv\ue0-Serra, Francisco
Thorell, Kaisa
Karlsson, Roger
Gonzales-Siles, L.
Boulund, Fredrik
Engstrand, Lars
Kristiansson, Erik
Moorea, Edward R.B.

January 2017

Streptococcus pneumoniae is a pathogenic bacterium found most commonly in the respiratory tract of h...

BIGSdb gene-by-gene alignment, xmfa format

Thorell, Kaisa
Yahara, Koji
Berthenet, Elvire

February 2017

This is an extended fasta (xmfa) format gene-by-gene alignment of all the genomes included in the st...

Complete genome sequence of a serotype 11A, ST62 Streptococcus pneumoniae invasive isolate

CAMILLI R
BONNAL R. J
DEL GROSSO M
IACONO M
CORTI G
RIZZI E
MARCHETTI M
MULAS L
SUPERTI F
OGGIONI M. R
DE BELLIS G
AND A. PANTOSTI
IANNELLI, FRANCESCO

January 2011

BACKGROUND: Streptococcus pneumoniae is an important human pathogen representing a major cause of mo...

Structure and dynamics of the pan-genome of Streptococcus pneumoniae and closely related species.

Claudio Donati (5068073)
Natalia Hiller (3889258)
Herve Tettelin (5063762)
Alessandro Muzzi (5068067)
Nicholas J. Croucher (158423)
Samuel V. Angiuoli (33591)
Marco Oggioni (5068079)
Julie C. Dunning Hotopp (167869)
Fen Z. Hu (60141)
David R. Riley (167877)
Antonello Covacci (5068082)
Tim J. Mitchell (179143)
Stephen D. Bentley (137281)
Morgens Kilian (5068076)
Garth D. Ehrlich (60143)
Rino Rappuoli (5068070)
E. Richard Moxon (5068064)
Vega Masignani (5068085)

April 2018

BACKGROUND: Streptococcus pneumoniae is one of the most important causes of microbial diseases in hu...

Whole-genome Based Investigation of Streptococcus pneumoniae Infections

Deng, Xianding Wayne

March 2017

Streptococcus pneumoniae is a common resident of the human throat, yet is also a major cause of comm...

Complete genome sequence of a serotype 11A, ST62 <it>Streptococcus pneumoniae </it>invasive isolate

Superti Fabiana
Iannelli Francesco
Mulas Laura
Marchetti Magda
Rizzi Ermanno
Corti Giorgio
Iacono Michele
Del Grosso Maria
Bonnal Raoul JP
Camilli Romina
Oggioni Marco R
De Bellis Gianluca
Pantosti Annalisa

February 2011

Abstract Background Streptococcus pneumoniae is an important human pathogen representing a major cau...

Multiple sequence alignment of P. aeruginosa isolates (draft)

David Williams (787644)
Steve Paterson (49478)
Michael A Brockhurst (68261)
Craig Winstanley (75404)

December 2015

<p>Multiple sequence alignment of Pseudomonas aeruginosa Liverpool Epidemic Strain isolates sampling...

S. cerevisiae (large dataset) whole-genome SNP alignment with outgroup S. paradoxus, related to Figure S3

Almeida, Pedro
Barbosa, Raquel
Zalar, Polona
Imanishi, Yumi
Shimizu, Kiminori
Turchetti, Benedetta
Legras, Jean-Luc
Serra, Marta
Dequin, Sylvie
Couloux, Arnaud
Guy, Julie
Bensasson, Douda
Gonçalves, Paula
Sampaio, José Paulo

August 2015

This is a gzip/tar compressed data archive containing the concatenated SNP alignment of the large da...

BIGSdb gene-by-gene alignment, fasta format

Thorell, Kaisa
Yahara, Koji
Berthenet, Elvire

February 2017

This is a fasta format gene-by-gene alignment of all the genomes included in the study to all loci i...

Genome alignment for 3,156 isolates of S. pneumoniae

Abstract

Extracted data

Genome alignment for 3,156 isolates of S. pneumoniae

Abstract

Extracted data

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