Supplemental Data Set 7. Full library data: colony positions, insertion sites, deconvolution and LEAP-Seq summary, gene annotation.

Supplemental data for "Gene-wise resampling outperforms site-wise resampling in phylogenetic coalescence analyses"

Mark Simmons (832394)
John Gatesy (780363)
Daniel Sloan (2952393)

October 2018

Supplementary data, including gene trees from both the site-only and gene-only resampling pseudorepl...

Supplemental Figures, Tables and Files, for Maitra et al.

Michael Polymenis (5685557)
Heidi M. Blank (90135)
Nairita Maitra (5743696)
Jayamani Anandhakumar (550063)
Craig D. Kaplan (171760)

December 2018

There are seven supplementary Figures associated with the manuscript. Table S1 lists the oligonucleo...

Supplementary Dataset 7: Enzyme code distribution from KEGG

Ranjan, Aashish
Ichihashi, Yasunori
Farhi, Moran
Zumstein, Kristina
Townsley, Brad
David-Schwartz, Rakefet
Sinha, Neelima R.

January 2014

Supplemental Dataset 7. Enzyme code distribution from KEGG for all annotated dodder transcripts. Col...

Supplemental Data Set 9. Summary of PCR results to check the insertion sites of randomly-picked mutants from the mutant library.

Xiaobo Li (118828)
Ru Zhang (431993)
Weronika Patena (3286539)
Spencer S. Gang (615363)
Sean R. Blum (3286545)
Nina Ivanova (2453065)
Rebecca Yue (3311751)
Jacob M. Robertson (3311748)
Paul A. Lefebvre (3272778)
Sorel T. Fitz-Gibbon (3283875)
Arthur R. Grossman (29860)
Martin C. Jonikas (3286542)

November 2016

Supplemental Data Set 9. Summary of PCR results to check the insertion sites of randomly-picked muta...

Supplemental Dataset 1: Mapped insertion sites of the individual mutants presented in Figure 2.

Ru Zhang (431993)
Weronika Patena (3286539)
Ute Armbruster (3286536)
Spencer S. Gang (615363)
Sean R. Blum (3286545)
Martin C. Jonikas (3286542)

October 2016

Supplemental Dataset 1: Mapped insertion sites of the individual mutants presented in Figure 2

Supplemental Dataset 1: Polymorphism database.

Daniel H. Chitwood (188251)
R. Kumar (22660)
Lauren R. Headland (188254)
Aashish Ranjan (682272)
Michael F. Covington (3252882)
Yasunori Ichihashi (682274)
Daniel Fulop (3264780)
Jose M. Jimenez-Gomez (3296091)
Jie Peng (188267)
Julin N. Maloof (177435)
Neelima R. Sinha (188270)

November 2016

Supplemental Dataset 1: Polymorphism database. A set of flat-file databases of polymorphisms identif...

Supplemental Dataset 3: Genes per bin.

Chitwood, Daniel H.
Kumar, R.
Headland, Lauren R.
Ranjan, Aashish
Covington, Michael F.
Ichihashi, Yasunori
Fulop, Daniel
Jimenez-Gomez, Jose M.
Peng, Jie
Maloof, Julin N.
Sinha, Neelima R.

August 2013

Supplemental Dataset 3: Genes per bin. A list of the number of annotated genes present within each b...

Supplemental Dataset 2: Primer pairs used for the mutant insertion site characterization by PCR presented in Supplemental Figure 4.

Ru Zhang (431993)
Weronika Patena (3286539)
Ute Armbruster (3286536)
Spencer S. Gang (615363)
Sean R. Blum (3286545)
Martin C. Jonikas (3286542)

October 2016

Supplemental Dataset 2: Primer pairs used for the mutant insertion site characterization by PCR pres...

Supplementary File 7 - FULL dataset MrBayes

Rix, Michael G.
Cooper, Steven J. B.
Meusemann, Karen
Klopfstein, Seraina
Harrison, Sophie E.
Harvey, Mark S.
Austin, Andrew D.

February 2017

Supplementary File 7. Concatenated alignment of nucleotide sequence data for the final 12-gene 129-t...

Supplementary Data (annotation files from 32 species pairs)

Kaede Hirabayashi (12878780)

November 2022

Supplementary data consisting of annotation files from 32 species comparisons (TE, structural varian...

Table S7. Summary of candidate genes.

Danelle K. Seymour (659579)
Eunyoung Chae (595941)
Dominik G. Grimm (3329394)
Carmen Martín Pizarro (3329397)
Anette Habring-Müller (266193)
François Vasseur (630171)
Barbara Rakitsch (3329388)
Karsten M. Borgwardt (3329391)
Daniel Koenig (659580)
Detlef Weigel (54320)

November 2016

IDs and location of all significant regions, their associated traits, genetic behavior, and candidat...

Supplemental Tables

Andrew H. Paterson (190867)
Junkang Rong (2153776)
Xiyin Wang (6498)
Stefan R. Schulze (3318435)
Rosana O. Compton (3318426)
T. D. Williams-Coplin (3318429)
Valorie Goff (3227034)
Peng W. Chee (3318432)

November 2016

This file includes four supplemental tables which are relevant to the paper. The supplemental table ...

Supplemental Dataset 7: Insertion list for the dataset used for Figures 3 and 4, replicate a, raw.

Ru Zhang (431993)
Weronika Patena (3286539)
Ute Armbruster (3286536)
Spencer S. Gang (615363)
Sean R. Blum (3286545)
Martin C. Jonikas (3286542)

October 2016

Supplemental Dataset 7: Insertion list for the dataset used for Figures 3 and 4, replicate a, raw

Supplemental Data Set 6. Validation of flanking sequence deconvolution in randomly selected mutants.

Xiaobo Li (118828)
Ru Zhang (431993)
Weronika Patena (3286539)
Spencer S. Gang (615363)
Sean R. Blum (3286545)
Nina Ivanova (2453065)
Rebecca Yue (3311751)
Jacob M. Robertson (3311748)
Paul A. Lefebvre (3272778)
Sorel T. Fitz-Gibbon (3283875)
Arthur R. Grossman (29860)
Martin C. Jonikas (3286542)

November 2016

Supplemental Data Set 6. Validation of flanking sequence deconvolution in randomly selected mutants

Supplemental_Dataset_7

Calixto, Cristiane P. G.
Guo, Wenbin
James, Allan B.
Tzioutziou, Nikoleta A.
Entizne, Juan C.
Panter, Paige E.
Knight, Heather
Nimmo, Hugh G.
Zhang, Runxuan
Brown, John W. S.

May 2018

Genes in DE and DTU heatmap clusters and Gene Ontology (GO) enrichment analysis of individual heatma...

Supplemental data for "Gene-wise resampling outperforms site-wise resampling in phylogenetic coalescence analyses"

Mark Simmons (832394)
John Gatesy (780363)
Daniel Sloan (2952393)

October 2018

Supplementary data, including gene trees from both the site-only and gene-only resampling pseudorepl...

Supplemental Figures, Tables and Files, for Maitra et al.

Michael Polymenis (5685557)
Heidi M. Blank (90135)
Nairita Maitra (5743696)
Jayamani Anandhakumar (550063)
Craig D. Kaplan (171760)

December 2018

There are seven supplementary Figures associated with the manuscript. Table S1 lists the oligonucleo...

Supplementary Dataset 7: Enzyme code distribution from KEGG

Ranjan, Aashish
Ichihashi, Yasunori
Farhi, Moran
Zumstein, Kristina
Townsley, Brad
David-Schwartz, Rakefet
Sinha, Neelima R.

January 2014

Supplemental Dataset 7. Enzyme code distribution from KEGG for all annotated dodder transcripts. Col...

Supplemental Data Set 9. Summary of PCR results to check the insertion sites of randomly-picked mutants from the mutant library.

Xiaobo Li (118828)
Ru Zhang (431993)
Weronika Patena (3286539)
Spencer S. Gang (615363)
Sean R. Blum (3286545)
Nina Ivanova (2453065)
Rebecca Yue (3311751)
Jacob M. Robertson (3311748)
Paul A. Lefebvre (3272778)
Sorel T. Fitz-Gibbon (3283875)
Arthur R. Grossman (29860)
Martin C. Jonikas (3286542)

November 2016

Supplemental Data Set 9. Summary of PCR results to check the insertion sites of randomly-picked muta...

Supplemental Dataset 1: Mapped insertion sites of the individual mutants presented in Figure 2.

Ru Zhang (431993)
Weronika Patena (3286539)
Ute Armbruster (3286536)
Spencer S. Gang (615363)
Sean R. Blum (3286545)
Martin C. Jonikas (3286542)

October 2016

Supplemental Dataset 1: Mapped insertion sites of the individual mutants presented in Figure 2

Supplemental Dataset 1: Polymorphism database.

Daniel H. Chitwood (188251)
R. Kumar (22660)
Lauren R. Headland (188254)
Aashish Ranjan (682272)
Michael F. Covington (3252882)
Yasunori Ichihashi (682274)
Daniel Fulop (3264780)
Jose M. Jimenez-Gomez (3296091)
Jie Peng (188267)
Julin N. Maloof (177435)
Neelima R. Sinha (188270)

November 2016

Supplemental Dataset 1: Polymorphism database. A set of flat-file databases of polymorphisms identif...

Supplemental Dataset 3: Genes per bin.

Chitwood, Daniel H.
Kumar, R.
Headland, Lauren R.
Ranjan, Aashish
Covington, Michael F.
Ichihashi, Yasunori
Fulop, Daniel
Jimenez-Gomez, Jose M.
Peng, Jie
Maloof, Julin N.
Sinha, Neelima R.

August 2013

Supplemental Dataset 3: Genes per bin. A list of the number of annotated genes present within each b...

Supplemental Dataset 2: Primer pairs used for the mutant insertion site characterization by PCR presented in Supplemental Figure 4.

Ru Zhang (431993)
Weronika Patena (3286539)
Ute Armbruster (3286536)
Spencer S. Gang (615363)
Sean R. Blum (3286545)
Martin C. Jonikas (3286542)

October 2016

Supplemental Dataset 2: Primer pairs used for the mutant insertion site characterization by PCR pres...

Supplementary File 7 - FULL dataset MrBayes

Rix, Michael G.
Cooper, Steven J. B.
Meusemann, Karen
Klopfstein, Seraina
Harrison, Sophie E.
Harvey, Mark S.
Austin, Andrew D.

February 2017

Supplementary File 7. Concatenated alignment of nucleotide sequence data for the final 12-gene 129-t...

Supplementary Data (annotation files from 32 species pairs)

Kaede Hirabayashi (12878780)

November 2022

Supplementary data consisting of annotation files from 32 species comparisons (TE, structural varian...

Table S7. Summary of candidate genes.

Danelle K. Seymour (659579)
Eunyoung Chae (595941)
Dominik G. Grimm (3329394)
Carmen Martín Pizarro (3329397)
Anette Habring-Müller (266193)
François Vasseur (630171)
Barbara Rakitsch (3329388)
Karsten M. Borgwardt (3329391)
Daniel Koenig (659580)
Detlef Weigel (54320)

November 2016

IDs and location of all significant regions, their associated traits, genetic behavior, and candidat...

Supplemental Tables

Andrew H. Paterson (190867)
Junkang Rong (2153776)
Xiyin Wang (6498)
Stefan R. Schulze (3318435)
Rosana O. Compton (3318426)
T. D. Williams-Coplin (3318429)
Valorie Goff (3227034)
Peng W. Chee (3318432)

November 2016

This file includes four supplemental tables which are relevant to the paper. The supplemental table ...

Supplemental Dataset 7: Insertion list for the dataset used for Figures 3 and 4, replicate a, raw.

Ru Zhang (431993)
Weronika Patena (3286539)
Ute Armbruster (3286536)
Spencer S. Gang (615363)
Sean R. Blum (3286545)
Martin C. Jonikas (3286542)

October 2016

Supplemental Dataset 7: Insertion list for the dataset used for Figures 3 and 4, replicate a, raw

Supplemental Data Set 6. Validation of flanking sequence deconvolution in randomly selected mutants.

Xiaobo Li (118828)
Ru Zhang (431993)
Weronika Patena (3286539)
Spencer S. Gang (615363)
Sean R. Blum (3286545)
Nina Ivanova (2453065)
Rebecca Yue (3311751)
Jacob M. Robertson (3311748)
Paul A. Lefebvre (3272778)
Sorel T. Fitz-Gibbon (3283875)
Arthur R. Grossman (29860)
Martin C. Jonikas (3286542)

November 2016

Supplemental Data Set 6. Validation of flanking sequence deconvolution in randomly selected mutants

Supplemental_Dataset_7

Calixto, Cristiane P. G.
Guo, Wenbin
James, Allan B.
Tzioutziou, Nikoleta A.
Entizne, Juan C.
Panter, Paige E.
Knight, Heather
Nimmo, Hugh G.
Zhang, Runxuan
Brown, John W. S.

May 2018

Genes in DE and DTU heatmap clusters and Gene Ontology (GO) enrichment analysis of individual heatma...

Supplemental data for "Gene-wise resampling outperforms site-wise resampling in phylogenetic coalescence analyses"

Mark Simmons (832394)
John Gatesy (780363)
Daniel Sloan (2952393)

October 2018

Supplementary data, including gene trees from both the site-only and gene-only resampling pseudorepl...

Supplemental Figures, Tables and Files, for Maitra et al.

Michael Polymenis (5685557)
Heidi M. Blank (90135)
Nairita Maitra (5743696)
Jayamani Anandhakumar (550063)
Craig D. Kaplan (171760)

December 2018

There are seven supplementary Figures associated with the manuscript. Table S1 lists the oligonucleo...

Supplementary Dataset 7: Enzyme code distribution from KEGG

Ranjan, Aashish
Ichihashi, Yasunori
Farhi, Moran
Zumstein, Kristina
Townsley, Brad
David-Schwartz, Rakefet
Sinha, Neelima R.

January 2014

Supplemental Dataset 7. Enzyme code distribution from KEGG for all annotated dodder transcripts. Col...

Supplemental Data Set 7. Full library data: colony positions, insertion sites, deconvolution and LEAP-Seq summary, gene annotation.

Abstract

Extracted data

Supplemental Data Set 7. Full library data: colony positions, insertion sites, deconvolution and LEAP-Seq summary, gene annotation.

Abstract

Extracted data

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