The percentage of target base pairs with at least 1x or 20x coverage for each replicated sample.

Number of reads per sample and strand at each data treatment step, and haplotype distribution at a consensus haplotype abundance >0.5%.

Josep Gregori (446897)
Juan I. Esteban (161076)
María Cubero (5657458)
Damir Garcia-Cehic (161129)
Celia Perales (227281)
Rosario Casillas (504559)
Miguel Alvarez-Tejado (5657461)
Francisco Rodríguez-Frías (5657464)
Jaume Guardia (161135)
Esteban Domingo (86438)
Josep Quer (161069)

December 2013

Number of reads per sample and strand at each data treatment step, and haplotype distribution at ...

Data production of 6 clinical samples.

Jing Zheng (65946)
Chenming Xu (419740)
Jing Guo (102972)
Yuan Wei (307030)
Huijuan Ge (419741)
Xuchao Li (180914)
Chunlei Zhang (276100)
Haojun Jiang (419742)
Ling Pan (419743)
Weiping Tang (419744)
Weiwei Xie (419745)
Hongyun Zhang (419746)
Yangyu Zhao (419747)
Fuman Jiang (180901)
Shengpei Chen (180910)
Wei Wang (17594)
Xun Xu (276108)
Fang Chen (34476)
Hefeng Huang (419748)
Hui Jiang (102809)

June 2013

*“Coverage (%)” and “Depth (×)” mean the coverage and average sequencing depth in the target regi...

Proportion of unique sequence clones out of the number of sequenced clones.

Francesco Martoni (709942)
Danna G. Eickbush (459220)
Claudia Scavariello (709943)
Andrea Luchetti (183589)
Barbara Mantovani (381805)

March 2015

Bins indicate the number of sequenced R2 variants (full-length and truncations) per sample, as li...

Percentage of base-pairs covered by 8, 20, 50 or 100 sequence reads in UTRs of targeted genes, according to each enrichment method.

Julien Philippe (164769)
Mehdi Derhourhi (829429)
Emmanuelle Durand (76789)
Emmanuel Vaillant (164763)
Aurélie Dechaume (179474)
Iandry Rabearivelo (829430)
Véronique Dhennin (829431)
Martine Vaxillaire (164818)
Franck De Graeve (91108)
Olivier Sand (81219)
Philippe Froguel (2247)
Amélie Bonnefond (179465)

November 2015

Percentage of base-pairs covered by 8, 20, 50 or 100 sequence reads in UTRs of targeted genes, ac...

Percentage of base-pairs covered by 8, 20, 50 or 100 sequence reads in coding regions of targeted genes (with 10 bp of intronic flanking regions), according to each enrichment method.

Julien Philippe (164769)
Mehdi Derhourhi (829429)
Emmanuelle Durand (76789)
Emmanuel Vaillant (164763)
Aurélie Dechaume (179474)
Iandry Rabearivelo (829430)
Véronique Dhennin (829431)
Martine Vaxillaire (164818)
Franck De Graeve (91108)
Olivier Sand (81219)
Philippe Froguel (2247)
Amélie Bonnefond (179465)

November 2015

Percentage of base-pairs covered by 8, 20, 50 or 100 sequence reads in coding regions of targeted...

Sequencing outcomes.

Ana Raquel Penedos (827110)
Richard Myers (179413)
Besma Hadef (827111)
Farah Aladin (314480)
Kevin E. Brown (827112)

November 2015

(A) Percentage of samples for which the coverage obtained falls within each 5% coverage window fo...

Plots of the average number of base-pairs (in millions) observed and estimates of quantity necessary to achieve approximately 1X coverage across all genomes present in cultured and uncultured samples.

Andrea R. Ottesen (456164)
Antonio Gonzalez (2150521)
Rebecca Bell (456165)
Caroline Arce (456166)
Steven Rideout (456167)
Marc Allard (281187)
Peter Evans (456168)
Errol Strain (278122)
Steven Musser (456169)
Rob Knight (11635)
Eric Brown (281186)
James B. Pettengill (456170)

September 2013

Plots of the average number of base-pairs (in millions) observed and estimates of quantity necess...

Count percentage of bases as a function of read length with alternative sample preparations without size selection (-SRE).

Frédéric Chaux (17935753)
Nicolas Agier (31563)
Stephan Eberhard (701105)
Zhou Xu (1753744)

February 2024

See S1 Table for details. Sample C was sequenced in the presence of control DNA (“DNA CS” from Oxfor...

The percentages of sequences in Datasets A, B and C that showed evidence of antigen selection.

Yan Wang (15435)
Katherine J. L. Jackson (527252)
Janet Davies (527253)
Zhiliang Chen (454388)
Bruno A. Gaeta (527254)
Janet Rimmer (436783)
William A. Sewell (415941)
Andrew M. Collins (527255)

February 2014

The percentages of sequences in Datasets A, B and C that showed evidence of antigen selection.</p

Barplots and boxplots showing variations in basic sequencing metrics between replicated samples and batches.

Yuan Qi (71013)
Xiuping Liu (149206)
Chang-gong Liu (5664232)
Bailing Wang (764488)
Kenneth R. Hess (764489)
W. Fraser Symmans (118635)
Weiwei Shi (139867)
Lajos Pusztai (78763)

July 2015

Barplots of (A) the number of total reads (i.e. number of reads of F3- and F5-tagged paired reads...

Capture efficiency in a sample representing the median coverage among all sequenced samples shown by the percent of total targeted bases covered at particular coverage depths in a chromosome 11 target.

Kenneth Day (651744)
Jun Song (19318)
Devin Absher (217357)

October 2014

(A) Percent of targeted bases covered using various thresholds of repeat masking (A) by size, or ...

Coverage data for whole exome sequencing.

Danilo Licastro (139789)
Margherita Mutarelli (90865)
Ivana Peluso (139793)
Kornelia Neveling (139796)
Nienke Wieskamp (139800)
Rossella Rispoli (139804)
Diego Vozzi (139807)
Emmanouil Athanasakis (139810)
Angela D'Eustacchio (139813)
Mariateresa Pizzo (139816)
Francesca D'Amico (139819)
Carmela Ziviello (139822)
Francesca Simonelli (139825)
Antonella Fabretto (139828)
Hans Scheffer (139830)
Paolo Gasparini (139832)
Sandro Banfi (5580)
Vincenzo Nigro (109019)

August 2012

A) Relationship between the minimum depth coverage and the extent of basepairs of RefSeq exons se...

Coverage plot of all samples.

Linda B. Bralten (348585)
Stephan Nouwens (348586)
Christel Kockx (348589)
Lale Erdem (348591)
Casper C. Hoogenraad (251267)
Johan M. Kros (348592)
Michael J. Moorhouse (270994)
Peter A. Sillevis Smitt (52752)
Peter van der Spek (42508)
Wilfred van Ijcken (5653015)
Andrew Stubbs (348594)
Pim J. French (52753)

February 2013

Depicted is the percentage of targeted bases (y-axis) that is covered at least n times (x-axis) p...

The percentage distribution of best blast hits of aggregate samples from each major body site run against reference isolate genomes grouped by each major body site.

Victor M. Markowitz (13826)
I-Min A. Chen (283938)
Ken Chu (283940)
Ernest Szeto (13829)
Krishna Palaniappan (13828)
Biju Jacob (317049)
Anna Ratner (317051)
Konstantinos Liolios (49000)
Ioanna Pagani (317054)
Marcel Huntemann (34103)
Konstantinos Mavromatis (13836)
Natalia N. Ivanova (224150)
Nikos C. Kyrpides (13837)

February 2013

The percentage distribution of best blast hits of aggregate samples from each major body site run...

LTC 35-gene sequencing performance data for two replicates of sample type and DNA mass.

Joel Pel (184690)
Amy Leung (272470)
Wendy W. Y. Choi (5811242)
Milenko Despotovic (5811248)
W. Lloyd Ung (1715467)
Gosuke Shibahara (184679)
Laura Gelinas (5811245)
Andre Marziali (184695)

December 2018

On-target fraction was defined as the fraction of total bases that aligned to the target regions. Me...

Number of reads per sample and strand at each data treatment step, and haplotype distribution at a consensus haplotype abundance >0.5%.

Josep Gregori (446897)
Juan I. Esteban (161076)
María Cubero (5657458)
Damir Garcia-Cehic (161129)
Celia Perales (227281)
Rosario Casillas (504559)
Miguel Alvarez-Tejado (5657461)
Francisco Rodríguez-Frías (5657464)
Jaume Guardia (161135)
Esteban Domingo (86438)
Josep Quer (161069)

December 2013

Number of reads per sample and strand at each data treatment step, and haplotype distribution at ...

Data production of 6 clinical samples.

Jing Zheng (65946)
Chenming Xu (419740)
Jing Guo (102972)
Yuan Wei (307030)
Huijuan Ge (419741)
Xuchao Li (180914)
Chunlei Zhang (276100)
Haojun Jiang (419742)
Ling Pan (419743)
Weiping Tang (419744)
Weiwei Xie (419745)
Hongyun Zhang (419746)
Yangyu Zhao (419747)
Fuman Jiang (180901)
Shengpei Chen (180910)
Wei Wang (17594)
Xun Xu (276108)
Fang Chen (34476)
Hefeng Huang (419748)
Hui Jiang (102809)

June 2013

*“Coverage (%)” and “Depth (×)” mean the coverage and average sequencing depth in the target regi...

Proportion of unique sequence clones out of the number of sequenced clones.

Francesco Martoni (709942)
Danna G. Eickbush (459220)
Claudia Scavariello (709943)
Andrea Luchetti (183589)
Barbara Mantovani (381805)

March 2015

Bins indicate the number of sequenced R2 variants (full-length and truncations) per sample, as li...

Percentage of base-pairs covered by 8, 20, 50 or 100 sequence reads in UTRs of targeted genes, according to each enrichment method.

Julien Philippe (164769)
Mehdi Derhourhi (829429)
Emmanuelle Durand (76789)
Emmanuel Vaillant (164763)
Aurélie Dechaume (179474)
Iandry Rabearivelo (829430)
Véronique Dhennin (829431)
Martine Vaxillaire (164818)
Franck De Graeve (91108)
Olivier Sand (81219)
Philippe Froguel (2247)
Amélie Bonnefond (179465)

November 2015

Percentage of base-pairs covered by 8, 20, 50 or 100 sequence reads in UTRs of targeted genes, ac...

Percentage of base-pairs covered by 8, 20, 50 or 100 sequence reads in coding regions of targeted genes (with 10 bp of intronic flanking regions), according to each enrichment method.

Julien Philippe (164769)
Mehdi Derhourhi (829429)
Emmanuelle Durand (76789)
Emmanuel Vaillant (164763)
Aurélie Dechaume (179474)
Iandry Rabearivelo (829430)
Véronique Dhennin (829431)
Martine Vaxillaire (164818)
Franck De Graeve (91108)
Olivier Sand (81219)
Philippe Froguel (2247)
Amélie Bonnefond (179465)

November 2015

Percentage of base-pairs covered by 8, 20, 50 or 100 sequence reads in coding regions of targeted...

Sequencing outcomes.

Ana Raquel Penedos (827110)
Richard Myers (179413)
Besma Hadef (827111)
Farah Aladin (314480)
Kevin E. Brown (827112)

November 2015

(A) Percentage of samples for which the coverage obtained falls within each 5% coverage window fo...

Plots of the average number of base-pairs (in millions) observed and estimates of quantity necessary to achieve approximately 1X coverage across all genomes present in cultured and uncultured samples.

Andrea R. Ottesen (456164)
Antonio Gonzalez (2150521)
Rebecca Bell (456165)
Caroline Arce (456166)
Steven Rideout (456167)
Marc Allard (281187)
Peter Evans (456168)
Errol Strain (278122)
Steven Musser (456169)
Rob Knight (11635)
Eric Brown (281186)
James B. Pettengill (456170)

September 2013

Plots of the average number of base-pairs (in millions) observed and estimates of quantity necess...

Count percentage of bases as a function of read length with alternative sample preparations without size selection (-SRE).

Frédéric Chaux (17935753)
Nicolas Agier (31563)
Stephan Eberhard (701105)
Zhou Xu (1753744)

February 2024

See S1 Table for details. Sample C was sequenced in the presence of control DNA (“DNA CS” from Oxfor...

The percentages of sequences in Datasets A, B and C that showed evidence of antigen selection.

Yan Wang (15435)
Katherine J. L. Jackson (527252)
Janet Davies (527253)
Zhiliang Chen (454388)
Bruno A. Gaeta (527254)
Janet Rimmer (436783)
William A. Sewell (415941)
Andrew M. Collins (527255)

February 2014

The percentages of sequences in Datasets A, B and C that showed evidence of antigen selection.</p

Barplots and boxplots showing variations in basic sequencing metrics between replicated samples and batches.

Yuan Qi (71013)
Xiuping Liu (149206)
Chang-gong Liu (5664232)
Bailing Wang (764488)
Kenneth R. Hess (764489)
W. Fraser Symmans (118635)
Weiwei Shi (139867)
Lajos Pusztai (78763)

July 2015

Barplots of (A) the number of total reads (i.e. number of reads of F3- and F5-tagged paired reads...

Capture efficiency in a sample representing the median coverage among all sequenced samples shown by the percent of total targeted bases covered at particular coverage depths in a chromosome 11 target.

Kenneth Day (651744)
Jun Song (19318)
Devin Absher (217357)

October 2014

(A) Percent of targeted bases covered using various thresholds of repeat masking (A) by size, or ...

Coverage data for whole exome sequencing.

Danilo Licastro (139789)
Margherita Mutarelli (90865)
Ivana Peluso (139793)
Kornelia Neveling (139796)
Nienke Wieskamp (139800)
Rossella Rispoli (139804)
Diego Vozzi (139807)
Emmanouil Athanasakis (139810)
Angela D'Eustacchio (139813)
Mariateresa Pizzo (139816)
Francesca D'Amico (139819)
Carmela Ziviello (139822)
Francesca Simonelli (139825)
Antonella Fabretto (139828)
Hans Scheffer (139830)
Paolo Gasparini (139832)
Sandro Banfi (5580)
Vincenzo Nigro (109019)

August 2012

A) Relationship between the minimum depth coverage and the extent of basepairs of RefSeq exons se...

Coverage plot of all samples.

Linda B. Bralten (348585)
Stephan Nouwens (348586)
Christel Kockx (348589)
Lale Erdem (348591)
Casper C. Hoogenraad (251267)
Johan M. Kros (348592)
Michael J. Moorhouse (270994)
Peter A. Sillevis Smitt (52752)
Peter van der Spek (42508)
Wilfred van Ijcken (5653015)
Andrew Stubbs (348594)
Pim J. French (52753)

February 2013

Depicted is the percentage of targeted bases (y-axis) that is covered at least n times (x-axis) p...

The percentage distribution of best blast hits of aggregate samples from each major body site run against reference isolate genomes grouped by each major body site.

Victor M. Markowitz (13826)
I-Min A. Chen (283938)
Ken Chu (283940)
Ernest Szeto (13829)
Krishna Palaniappan (13828)
Biju Jacob (317049)
Anna Ratner (317051)
Konstantinos Liolios (49000)
Ioanna Pagani (317054)
Marcel Huntemann (34103)
Konstantinos Mavromatis (13836)
Natalia N. Ivanova (224150)
Nikos C. Kyrpides (13837)

February 2013

The percentage distribution of best blast hits of aggregate samples from each major body site run...

LTC 35-gene sequencing performance data for two replicates of sample type and DNA mass.

Joel Pel (184690)
Amy Leung (272470)
Wendy W. Y. Choi (5811242)
Milenko Despotovic (5811248)
W. Lloyd Ung (1715467)
Gosuke Shibahara (184679)
Laura Gelinas (5811245)
Andre Marziali (184695)

December 2018

On-target fraction was defined as the fraction of total bases that aligned to the target regions. Me...

Number of reads per sample and strand at each data treatment step, and haplotype distribution at a consensus haplotype abundance >0.5%.

Josep Gregori (446897)
Juan I. Esteban (161076)
María Cubero (5657458)
Damir Garcia-Cehic (161129)
Celia Perales (227281)
Rosario Casillas (504559)
Miguel Alvarez-Tejado (5657461)
Francisco Rodríguez-Frías (5657464)
Jaume Guardia (161135)
Esteban Domingo (86438)
Josep Quer (161069)

December 2013

Number of reads per sample and strand at each data treatment step, and haplotype distribution at ...

Data production of 6 clinical samples.

Jing Zheng (65946)
Chenming Xu (419740)
Jing Guo (102972)
Yuan Wei (307030)
Huijuan Ge (419741)
Xuchao Li (180914)
Chunlei Zhang (276100)
Haojun Jiang (419742)
Ling Pan (419743)
Weiping Tang (419744)
Weiwei Xie (419745)
Hongyun Zhang (419746)
Yangyu Zhao (419747)
Fuman Jiang (180901)
Shengpei Chen (180910)
Wei Wang (17594)
Xun Xu (276108)
Fang Chen (34476)
Hefeng Huang (419748)
Hui Jiang (102809)

June 2013

*“Coverage (%)” and “Depth (×)” mean the coverage and average sequencing depth in the target regi...

Proportion of unique sequence clones out of the number of sequenced clones.

Francesco Martoni (709942)
Danna G. Eickbush (459220)
Claudia Scavariello (709943)
Andrea Luchetti (183589)
Barbara Mantovani (381805)

March 2015

Bins indicate the number of sequenced R2 variants (full-length and truncations) per sample, as li...

The percentage of target base pairs with at least 1x or 20x coverage for each replicated sample.

Abstract

Extracted data

The percentage of target base pairs with at least 1x or 20x coverage for each replicated sample.

Abstract

Extracted data

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