Median lengths (Kbp), with lower- (Q1) and upper (Q3) quartiles, of RefSeq plasmids mapped by Illumina sequencing reads from metamobilomes S (standard isolation protocol) and L (modified electroelution protocol).

High-throughput sequencing analysis of total RNAs derived from pCAGEGFP and pCAGEGFP-MosIR plasmids.

Jana Nejepinska (141842)
Radek Malik (141845)
Susan Wagner (488569)
Petr Svoboda (21085)

January 2014

(A) Distribution of 18–50 nt reads that perfectly map to pCAGEGFP-MosIR. Reads mapping to the sen...

Prevalence of 5′- and 3′-strand patches is independent of λ Orf and Rap.

Laura M. Gumbiner-Russo (36736)
Susan M. Rosenberg (36737)

February 2013

(A) For analyses of plasmid DNAs isolated from crosses with the marker in the plasmid, Het I corr...

Rarefaction plot and circular elements composition.

Tue Sparholt Jørgensen (519653)
Zhuofei Xu (38107)
Martin Asser Hansen (435651)
Søren Johannes Sørensen (519654)
Lars Hestbjerg Hansen (232169)

February 2014

A, rarefaction estimation of sequencing depth by assembly of random subsets of Illumina PE read p...

An Improved Method for Including Upper Size Range Plasmids in Metamobilomes

Anders Norman
Leise Riber
Wenting Luo
Li Li Li
Lars Hestbjerg Hansen
Søren Johannes Sørensen

August 2016

Two recently developed isolation methods have shown promise when recovering pure community plasmid D...

Recruitment of Illumina sequencing reads from wastewater metamobilomes generated using an established isolation protocol (S) and the modified protocol (this study) using electroelution (L), along with two corresponding libraries from wastewater spiked with model plasmids pBR322 and pKJK10 (Ss & Ls).

Anders Norman (314830)
Leise Riber (435652)
Wenting Luo (164541)
Li Li Li (614032)
Lars Hestbjerg Hansen (232169)
Søren Johannes Sørensen (519654)

August 2014

The bar graph (a) shows the composition of read-hits to either model plasmid, or sequences within...

Genome-wide sequencing depth normalized to the median, for all chromosomes, using DNA obtained with (+) or without (-) SRE size selection.

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

February 2024

Genome-wide sequencing depth normalized to the median, for all chromosomes, using DNA obtained with ...

An improved method for including upper size range plasmids in metamobilomes.

Anders Norman
Leise Riber
Wenting Luo
Li Li Li
Lars Hestbjerg Hansen
Søren Johannes Sørensen

Two recently developed isolation methods have shown promise when recovering pure community plasmid D...

~174 kb plasmid identified in isolates L1, L3 and L4.

Tsegaye Sewunet (11983178)
Sriram K. K. (13905694)
Ha Hoang Nguyen (13905697)
Noikaseumsy Sithivong (13905700)
Ngoc Thi Bich Hoang (11734322)
Vanphanom Sychareun (3122274)
Kokasia Nengmongvang (13905703)
Mattias Larsson (155704)
Linus Olson (6680915)
Fredrik Westerlund (1285863)
Christian G. Giske (7864853)

October 2022

The x-axis shows the size of plasmids in kb and the y-axis is the normalized intensity in arbitrary ...

Comparison of the fraction of genes encoding the secretome in plasmids relative to the fraction of genes encoding the secretome in the core and in the accessory genomes.

Teresa Nogueira (118513)
Marie Touchon (118515)
Eduardo P. C. Rocha (7388)

November 2012

Lower panel. We only analyzed clade encoding more than 50 plasmid genes with predicted pro...

Size distribution of reads, isotigs and singlets by the transcriptome sequencing.

Weiwei Zhang (222964)
Daike Tian (656278)
Xiu Huang (610864)
Yuxian Xu (656279)
Haibo Mo (656280)
Yanbo Liu (180774)
Jing Meng (586670)
Dasheng Zhang (656281)

November 2014

(A) Length distribution of the sequencing reads after trimming low-quality reads. (B) Size distri...

Rickettsial plasmid sizes (pooled) and numbers plotted with their chromosome sizes.

Khalid El Karkouri (271346)
Pierre Pontarotti (28242)
Didier Raoult (3833)
Pierre-Edouard Fournier (13453)

February 2016

Rickettsial plasmid sizes (pooled) and numbers plotted with their chromosome sizes.</p

Sequence enrichment profiles after high-throughput sequencing of the phage displayed libraries using Illumina technology.

Nqobile A. C. Ngubane (483132)
Lionel Gresh (404053)
Thomas R. Ioerger (132588)
James C. Sacchettini (37661)
Yanjia J. Zhang (132584)
Eric J. Rubin (132597)
Alexander Pym (271790)
Makobetsa Khati (129233)

November 2013

(A) Number of unique peptides observed in the different rounds of biopanning (B) Frequency of the...

Plasmid profiles of representative MDR isolates and plasmid from transformants.

Xiao-Zhe Huang (151663)
Jonathan G. Frye (151664)
Mohamad A. Chahine (151666)
LaShanda M. Glenn (151668)
Julie A. Ake (151671)
Wanwen Su (151674)
Mikeljon P. Nikolich (151677)
Emil P. Lesho (121717)

July 2012

A) Plasmids from representative wild MDR isolates. Lane 2: #26*; Lane 3: #144; Lane...

Coveragesa of model plasmidsb from spiked and non-spiked wastewater metamobilomes.

Anders Norman (314830)
Leise Riber (435652)
Wenting Luo (164541)
Li Li Li (614032)
Lars Hestbjerg Hansen (232169)
Søren Johannes Sørensen (519654)

August 2014

Numbers in parenthesis indicate the percentage of base positions covered by sequencing reads....

Comparison of observed and predicted distributions of FAST-SeqS amplification products.

Isaac Kinde (150652)
Nickolas Papadopoulos (150310)
Kenneth W. Kinzler (79782)
Bert Vogelstein (79783)

July 2012

(A) A density plot of the expected distribution of fragment lengths, with peaks at 124 and 142 bp...

High-throughput sequencing analysis of total RNAs derived from pCAGEGFP and pCAGEGFP-MosIR plasmids.

Jana Nejepinska (141842)
Radek Malik (141845)
Susan Wagner (488569)
Petr Svoboda (21085)

January 2014

(A) Distribution of 18–50 nt reads that perfectly map to pCAGEGFP-MosIR. Reads mapping to the sen...

Prevalence of 5′- and 3′-strand patches is independent of λ Orf and Rap.

Laura M. Gumbiner-Russo (36736)
Susan M. Rosenberg (36737)

February 2013

(A) For analyses of plasmid DNAs isolated from crosses with the marker in the plasmid, Het I corr...

Rarefaction plot and circular elements composition.

Tue Sparholt Jørgensen (519653)
Zhuofei Xu (38107)
Martin Asser Hansen (435651)
Søren Johannes Sørensen (519654)
Lars Hestbjerg Hansen (232169)

February 2014

A, rarefaction estimation of sequencing depth by assembly of random subsets of Illumina PE read p...

An Improved Method for Including Upper Size Range Plasmids in Metamobilomes

Anders Norman
Leise Riber
Wenting Luo
Li Li Li
Lars Hestbjerg Hansen
Søren Johannes Sørensen

August 2016

Two recently developed isolation methods have shown promise when recovering pure community plasmid D...

Recruitment of Illumina sequencing reads from wastewater metamobilomes generated using an established isolation protocol (S) and the modified protocol (this study) using electroelution (L), along with two corresponding libraries from wastewater spiked with model plasmids pBR322 and pKJK10 (Ss & Ls).

Anders Norman (314830)
Leise Riber (435652)
Wenting Luo (164541)
Li Li Li (614032)
Lars Hestbjerg Hansen (232169)
Søren Johannes Sørensen (519654)

August 2014

The bar graph (a) shows the composition of read-hits to either model plasmid, or sequences within...

Genome-wide sequencing depth normalized to the median, for all chromosomes, using DNA obtained with (+) or without (-) SRE size selection.

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

February 2024

Genome-wide sequencing depth normalized to the median, for all chromosomes, using DNA obtained with ...

An improved method for including upper size range plasmids in metamobilomes.

Anders Norman
Leise Riber
Wenting Luo
Li Li Li
Lars Hestbjerg Hansen
Søren Johannes Sørensen

Two recently developed isolation methods have shown promise when recovering pure community plasmid D...

~174 kb plasmid identified in isolates L1, L3 and L4.

Tsegaye Sewunet (11983178)
Sriram K. K. (13905694)
Ha Hoang Nguyen (13905697)
Noikaseumsy Sithivong (13905700)
Ngoc Thi Bich Hoang (11734322)
Vanphanom Sychareun (3122274)
Kokasia Nengmongvang (13905703)
Mattias Larsson (155704)
Linus Olson (6680915)
Fredrik Westerlund (1285863)
Christian G. Giske (7864853)

October 2022

The x-axis shows the size of plasmids in kb and the y-axis is the normalized intensity in arbitrary ...

Comparison of the fraction of genes encoding the secretome in plasmids relative to the fraction of genes encoding the secretome in the core and in the accessory genomes.

Teresa Nogueira (118513)
Marie Touchon (118515)
Eduardo P. C. Rocha (7388)

November 2012

Lower panel. We only analyzed clade encoding more than 50 plasmid genes with predicted pro...

Size distribution of reads, isotigs and singlets by the transcriptome sequencing.

Weiwei Zhang (222964)
Daike Tian (656278)
Xiu Huang (610864)
Yuxian Xu (656279)
Haibo Mo (656280)
Yanbo Liu (180774)
Jing Meng (586670)
Dasheng Zhang (656281)

November 2014

(A) Length distribution of the sequencing reads after trimming low-quality reads. (B) Size distri...

Rickettsial plasmid sizes (pooled) and numbers plotted with their chromosome sizes.

Khalid El Karkouri (271346)
Pierre Pontarotti (28242)
Didier Raoult (3833)
Pierre-Edouard Fournier (13453)

February 2016

Rickettsial plasmid sizes (pooled) and numbers plotted with their chromosome sizes.</p

Sequence enrichment profiles after high-throughput sequencing of the phage displayed libraries using Illumina technology.

Nqobile A. C. Ngubane (483132)
Lionel Gresh (404053)
Thomas R. Ioerger (132588)
James C. Sacchettini (37661)
Yanjia J. Zhang (132584)
Eric J. Rubin (132597)
Alexander Pym (271790)
Makobetsa Khati (129233)

November 2013

(A) Number of unique peptides observed in the different rounds of biopanning (B) Frequency of the...

Plasmid profiles of representative MDR isolates and plasmid from transformants.

Xiao-Zhe Huang (151663)
Jonathan G. Frye (151664)
Mohamad A. Chahine (151666)
LaShanda M. Glenn (151668)
Julie A. Ake (151671)
Wanwen Su (151674)
Mikeljon P. Nikolich (151677)
Emil P. Lesho (121717)

July 2012

A) Plasmids from representative wild MDR isolates. Lane 2: #26*; Lane 3: #144; Lane...

Coveragesa of model plasmidsb from spiked and non-spiked wastewater metamobilomes.

Anders Norman (314830)
Leise Riber (435652)
Wenting Luo (164541)
Li Li Li (614032)
Lars Hestbjerg Hansen (232169)
Søren Johannes Sørensen (519654)

August 2014

Numbers in parenthesis indicate the percentage of base positions covered by sequencing reads....

Comparison of observed and predicted distributions of FAST-SeqS amplification products.

Isaac Kinde (150652)
Nickolas Papadopoulos (150310)
Kenneth W. Kinzler (79782)
Bert Vogelstein (79783)

July 2012

(A) A density plot of the expected distribution of fragment lengths, with peaks at 124 and 142 bp...

High-throughput sequencing analysis of total RNAs derived from pCAGEGFP and pCAGEGFP-MosIR plasmids.

Jana Nejepinska (141842)
Radek Malik (141845)
Susan Wagner (488569)
Petr Svoboda (21085)

January 2014

(A) Distribution of 18–50 nt reads that perfectly map to pCAGEGFP-MosIR. Reads mapping to the sen...

Prevalence of 5′- and 3′-strand patches is independent of λ Orf and Rap.

Laura M. Gumbiner-Russo (36736)
Susan M. Rosenberg (36737)

February 2013

(A) For analyses of plasmid DNAs isolated from crosses with the marker in the plasmid, Het I corr...

Rarefaction plot and circular elements composition.

Tue Sparholt Jørgensen (519653)
Zhuofei Xu (38107)
Martin Asser Hansen (435651)
Søren Johannes Sørensen (519654)
Lars Hestbjerg Hansen (232169)

February 2014

A, rarefaction estimation of sequencing depth by assembly of random subsets of Illumina PE read p...

Median lengths (Kbp), with lower- (Q1) and upper (Q3) quartiles, of RefSeq plasmids mapped by Illumina sequencing reads from metamobilomes S (standard isolation protocol) and L (modified electroelution protocol).

Abstract

Extracted data

Median lengths (Kbp), with lower- (Q1) and upper (Q3) quartiles, of RefSeq plasmids mapped by Illumina sequencing reads from metamobilomes S (standard isolation protocol) and L (modified electroelution protocol).

Abstract

Extracted data

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