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Data Protection

The distribution of between SNP neighbors for different SNP densities.

Ulrike Ober (166733)
Julien F. Ayroles (120298)
Eric A. Stone (120305)
Stephen Richards (1495)
Dianhui Zhu (83534)
Richard A. Gibbs (94141)
Christian Stricker (166738)
Daniel Gianola (118730)
Martin Schlather (166743)
Trudy F. C. Mackay (120308)
Henner Simianer (118732)

Publication date

May 2012

DOI

10.1371/journal.pgen.1002685.g005

Abstract

<p>For the -th stacked bar, every -th SNP was used, 010. Then, the distribution of for the resulting SNP neighbors was calculated.</p

Extracted data

Related items

Mean frequency and standard deviation of the nearest Nelore SNPs within 50bp and 100bp size bins.

Joaquim Manoel da Silva (787318)
Poliana Fernanda Giachetto (787319)
Luiz Otávio Campos da Silva (787320)
Leandro Carrijo Cintra (787321)
Samuel Rezende Paiva (787322)
Alexandre Rodrigues Caetano (787323)
Michel Eduardo Beleza Yamagishi (787324)

August 2015

<p>Mean frequency and standard deviation of the nearest Nelore SNPs within 50bp and 100bp size bins....

Distribution of estimated MAFs of the selected SNPs.

Gwenola Tosser-Klopp (88023)
Philippe Bardou (463716)
Olivier Bouchez (104385)
Cédric Cabau (512751)
Richard Crooijmans (512752)
Yang Dong (234336)
Cécile Donnadieu-Tonon (512753)
André Eggen (47250)
Henri C. M. Heuven (180190)
Saadiah Jamli (512754)
Abdullah Johari Jiken (512755)
Christophe Klopp (120981)
Cynthia T. Lawley (171073)
John McEwan (45371)
Patrice Martin (512756)
Carole R. Moreno (512757)
Philippe Mulsant (407258)
Ibouniyamine Nabihoudine (512758)
Eric Pailhoux (91000)
Isabelle Palhière (512759)
Rachel Rupp (210779)
Julien Sarry (407256)
Brian L. Sayre (512760)
Aurélie Tircazes (512761)
Jun Wang (5906)
Wen Wang (6570)
Wenguang Zhang (112715)

January 2014

<p>The MAF for all the 60,000 selected SNPs was estimated based on the read counts for the two allel...

Distribution of SNP minor allele frequencies.

Luyang Sun (433243)
Shikai Liu (245897)
Ruijia Wang (644202)
Yanliang Jiang (245893)
Yu Zhang (12946)
Jiaren Zhang (433244)
Lisui Bao (476355)
Ludmilla Kaltenboeck (433245)
Rex Dunham (31998)
Geoff Waldbieser (644203)
Zhanjiang Liu (31986)

October 2014

<p>SNPs were separated into six categories according to their MAF level. The first two categories co...

The distribution of SNPs in unigenes.

Yang Yu (4292)
Jiankai Wei (517389)
Xiaojun Zhang (178074)
Jingwen Liu (517390)
Chengzhang Liu (195905)
Fuhua Li (195912)
Jianhai Xiang (195916)

January 2014

<p>The horizontal axis represented SNP numbers per unigene. The vertical axis represented the number...

Distribution of the 3,537,794 identified SNPs based on their genomic location.

Haluk Dogan (507791)
Handan Can (507792)
Hasan H. Otu (93582)

January 2014

<p>Distribution of the 3,537,794 identified SNPs based on their genomic location.</p

Frequency distribution of size of gaps between SNPs included on the IPSC peach 9 K SNP array v1. Gap sizes were based on SNP physical locations in the Peach v1.0 assembly.

Ignazio Verde (171060)
Nahla Bassil (110538)
Simone Scalabrin (171067)
Barbara Gilmore (110553)
Cynthia T. Lawley (171073)
Ksenija Gasic (171078)
Diego Micheletti (83159)
Umesh R. Rosyara (110543)
Federica Cattonaro (158236)
Elisa Vendramin (171088)
Dorrie Main (4682)
Valeria Aramini (171096)
Andrea L. Blas (171101)
Todd C. Mockler (110557)
Douglas W. Bryant (110559)
Larry Wilhelm (110561)
Michela Troggio (83147)
Bryon Sosinski (171109)
Maria José Aranzana (16559)
Pere Arús (17639)
Amy Iezzoni (110563)
Michele Morgante (83623)
Cameron Peace (110535)

April 2012

<p>Frequency distribution of size of gaps between SNPs included on the IPSC peach 9 K SNP array v1. ...

SNP distribution among scaffolds and genes.

Mei Yang (51996)
Liming Xu (401263)
Yanling Liu (218474)
Pingfang Yang (134532)

April 2015

<p>(A) Distribution of expressed SNPs on the top ten scaffold. (B) Number of SNP per gene.</p

Distribution of the minimum number of SNPs differed between a genotype and other genotypes.

Bo Wu (16141)
Guang-yan Zhong (551600)
Jian-qiang Yue (551601)
Run-ting Yang (551602)
Chong Li (120471)
Yue-jia Li (551603)
Yun Zhong (289887)
Xuan Wang (55634)
Bo Jiang (76119)
Ji-wu Zeng (551604)
Li Zhang (8200)
Shu-tang Yan (551605)
Xue-jun Bei (551606)
Dong-guo Zhou (551607)

April 2014

<p>Distribution of the minimum number of SNPs differed between a genotype and other genotypes.</p

Distribution and classification of identified SNPs.

Zhaoxia Cui (434217)
Xihong Li (434216)
Yuan Liu (88411)
Chengwen Song (434218)
Min Hui (492687)
Guohui Shi (434219)
Danli Luo (492688)
Yingdong Li (492689)

December 2013

<p>(A) Number of SNPs distributed per unigene; (B) Classification of different substitution types of...

SNP distribution among contigs.

Jian Xu (31545)
Peifeng Ji (172433)
Zixia Zhao (172443)
Yan Zhang (8098)
Jianxin Feng (301517)
Jian Wang (5901)
Jiongtang Li (172441)
Xiaofeng Zhang (172446)
Lan Zhao (5713)
Guangzan Liu (301520)
Peng Xu (17962)
Xiaowen Sun (172452)

February 2013

<p>The X-axis represents contig size (number of SNPs per contig). The curved line denotes the cumula...

Distribution of SNP index association values on chromosomes.

Xiaorong Xing (14725040)
Haidong Liu (1579075)
Jingxiu Ye (5985365)
Yanmei Yao (11791604)
Kaixiang Li (3366128)
Yanling Li (269030)
Dezhi Du (3339450)

March 2023

The abscissas indicate the chromosome names, the colored dots represent the calculated SNP index (or...

Unique SNP sharing between populations.

Lai-Ping Wong (564640)
Jason Kuan-Han Lai (564641)
Woei-Yuh Saw (564642)
Rick Twee-Hee Ong (194252)
Anthony Youzhi Cheng (564643)
Nisha Esakimuthu Pillai (564644)
Xuanyao Liu (564645)
Wenting Xu (564646)
Peng Chen (6514)
Jia-Nee Foo (205101)
Linda Wei-Lin Tan (564647)
Seok-Hwee Koo (564648)
Richie Soong (167983)
Markus Rene Wenk (564649)
Wei-Yen Lim (481196)
Chiea-Chuen Khor (159336)
Peter Little (564650)
Kee-Seng Chia (194263)
Yik-Ying Teo (159446)

May 2014

<p>(A) Each row represents the distribution of SNPs that are shared uniquely between a reference pop...

SNP calling and statistical metrics.

Wei Wang (17594)
Jia Gan (5614121)
Donghui Fang (5614124)
Hui Tang (226667)
Huai Wang (2545135)
Jun Yi (839345)
Maozhong Fu (3851086)

August 2018

<p>The call rates of SNPs (A) were first revealed among 55 samples after our hard filtering. The per...

Distribution of the distance between each SNPs and its nearest gene in the dog, shown for polymorphic, monomorphic and failed SNPs.

Joseph I. Hoffman (210226)
Michael A. S. Thorne (107836)
Rob McEwing (433786)
Jaume Forcada (344093)
Rob Ogden (145264)

July 2013

<p>Distribution of the distance between each SNPs and its nearest gene in the dog, shown for polymor...

Distribution of the proportion SNPs within each of the PolyPhen categories based on PolyPhen-2 result.

Xin Ma (37268)
Joanna L. Kelley (364370)
Kirsten Eilertson (475949)
Shaila Musharoff (475950)
Jeremiah D. Degenhardt (244049)
André L. Martins (175500)
Tomas Vinar (5656588)
Carolin Kosiol (51877)
Adam Siepel (51882)
Ryan N. Gutenkunst (211415)
Carlos D. Bustamante (51881)

October 2013

<p>Error bars denote 95% confidence intervals on the proportion of SNPs in each category.</p

Mean frequency and standard deviation of the nearest Nelore SNPs within 50bp and 100bp size bins.

Joaquim Manoel da Silva (787318)
Poliana Fernanda Giachetto (787319)
Luiz Otávio Campos da Silva (787320)
Leandro Carrijo Cintra (787321)
Samuel Rezende Paiva (787322)
Alexandre Rodrigues Caetano (787323)
Michel Eduardo Beleza Yamagishi (787324)

August 2015

<p>Mean frequency and standard deviation of the nearest Nelore SNPs within 50bp and 100bp size bins....

Distribution of estimated MAFs of the selected SNPs.

Gwenola Tosser-Klopp (88023)
Philippe Bardou (463716)
Olivier Bouchez (104385)
Cédric Cabau (512751)
Richard Crooijmans (512752)
Yang Dong (234336)
Cécile Donnadieu-Tonon (512753)
André Eggen (47250)
Henri C. M. Heuven (180190)
Saadiah Jamli (512754)
Abdullah Johari Jiken (512755)
Christophe Klopp (120981)
Cynthia T. Lawley (171073)
John McEwan (45371)
Patrice Martin (512756)
Carole R. Moreno (512757)
Philippe Mulsant (407258)
Ibouniyamine Nabihoudine (512758)
Eric Pailhoux (91000)
Isabelle Palhière (512759)
Rachel Rupp (210779)
Julien Sarry (407256)
Brian L. Sayre (512760)
Aurélie Tircazes (512761)
Jun Wang (5906)
Wen Wang (6570)
Wenguang Zhang (112715)

January 2014

<p>The MAF for all the 60,000 selected SNPs was estimated based on the read counts for the two allel...

Distribution of SNP minor allele frequencies.

Luyang Sun (433243)
Shikai Liu (245897)
Ruijia Wang (644202)
Yanliang Jiang (245893)
Yu Zhang (12946)
Jiaren Zhang (433244)
Lisui Bao (476355)
Ludmilla Kaltenboeck (433245)
Rex Dunham (31998)
Geoff Waldbieser (644203)
Zhanjiang Liu (31986)

October 2014

<p>SNPs were separated into six categories according to their MAF level. The first two categories co...

The distribution of SNPs in unigenes.

Yang Yu (4292)
Jiankai Wei (517389)
Xiaojun Zhang (178074)
Jingwen Liu (517390)
Chengzhang Liu (195905)
Fuhua Li (195912)
Jianhai Xiang (195916)

January 2014

<p>The horizontal axis represented SNP numbers per unigene. The vertical axis represented the number...

Distribution of the 3,537,794 identified SNPs based on their genomic location.

Haluk Dogan (507791)
Handan Can (507792)
Hasan H. Otu (93582)

January 2014

<p>Distribution of the 3,537,794 identified SNPs based on their genomic location.</p

Frequency distribution of size of gaps between SNPs included on the IPSC peach 9 K SNP array v1. Gap sizes were based on SNP physical locations in the Peach v1.0 assembly.

Ignazio Verde (171060)
Nahla Bassil (110538)
Simone Scalabrin (171067)
Barbara Gilmore (110553)
Cynthia T. Lawley (171073)
Ksenija Gasic (171078)
Diego Micheletti (83159)
Umesh R. Rosyara (110543)
Federica Cattonaro (158236)
Elisa Vendramin (171088)
Dorrie Main (4682)
Valeria Aramini (171096)
Andrea L. Blas (171101)
Todd C. Mockler (110557)
Douglas W. Bryant (110559)
Larry Wilhelm (110561)
Michela Troggio (83147)
Bryon Sosinski (171109)
Maria José Aranzana (16559)
Pere Arús (17639)
Amy Iezzoni (110563)
Michele Morgante (83623)
Cameron Peace (110535)

April 2012

<p>Frequency distribution of size of gaps between SNPs included on the IPSC peach 9 K SNP array v1. ...

SNP distribution among scaffolds and genes.

Mei Yang (51996)
Liming Xu (401263)
Yanling Liu (218474)
Pingfang Yang (134532)

April 2015

<p>(A) Distribution of expressed SNPs on the top ten scaffold. (B) Number of SNP per gene.</p

Distribution of the minimum number of SNPs differed between a genotype and other genotypes.

Bo Wu (16141)
Guang-yan Zhong (551600)
Jian-qiang Yue (551601)
Run-ting Yang (551602)
Chong Li (120471)
Yue-jia Li (551603)
Yun Zhong (289887)
Xuan Wang (55634)
Bo Jiang (76119)
Ji-wu Zeng (551604)
Li Zhang (8200)
Shu-tang Yan (551605)
Xue-jun Bei (551606)
Dong-guo Zhou (551607)

April 2014

<p>Distribution of the minimum number of SNPs differed between a genotype and other genotypes.</p

Distribution and classification of identified SNPs.

Zhaoxia Cui (434217)
Xihong Li (434216)
Yuan Liu (88411)
Chengwen Song (434218)
Min Hui (492687)
Guohui Shi (434219)
Danli Luo (492688)
Yingdong Li (492689)

December 2013

<p>(A) Number of SNPs distributed per unigene; (B) Classification of different substitution types of...

SNP distribution among contigs.

Jian Xu (31545)
Peifeng Ji (172433)
Zixia Zhao (172443)
Yan Zhang (8098)
Jianxin Feng (301517)
Jian Wang (5901)
Jiongtang Li (172441)
Xiaofeng Zhang (172446)
Lan Zhao (5713)
Guangzan Liu (301520)
Peng Xu (17962)
Xiaowen Sun (172452)

February 2013

<p>The X-axis represents contig size (number of SNPs per contig). The curved line denotes the cumula...

Distribution of SNP index association values on chromosomes.

Xiaorong Xing (14725040)
Haidong Liu (1579075)
Jingxiu Ye (5985365)
Yanmei Yao (11791604)
Kaixiang Li (3366128)
Yanling Li (269030)
Dezhi Du (3339450)

March 2023

The abscissas indicate the chromosome names, the colored dots represent the calculated SNP index (or...

Unique SNP sharing between populations.

Lai-Ping Wong (564640)
Jason Kuan-Han Lai (564641)
Woei-Yuh Saw (564642)
Rick Twee-Hee Ong (194252)
Anthony Youzhi Cheng (564643)
Nisha Esakimuthu Pillai (564644)
Xuanyao Liu (564645)
Wenting Xu (564646)
Peng Chen (6514)
Jia-Nee Foo (205101)
Linda Wei-Lin Tan (564647)
Seok-Hwee Koo (564648)
Richie Soong (167983)
Markus Rene Wenk (564649)
Wei-Yen Lim (481196)
Chiea-Chuen Khor (159336)
Peter Little (564650)
Kee-Seng Chia (194263)
Yik-Ying Teo (159446)

May 2014

<p>(A) Each row represents the distribution of SNPs that are shared uniquely between a reference pop...

SNP calling and statistical metrics.

Wei Wang (17594)
Jia Gan (5614121)
Donghui Fang (5614124)
Hui Tang (226667)
Huai Wang (2545135)
Jun Yi (839345)
Maozhong Fu (3851086)

August 2018

<p>The call rates of SNPs (A) were first revealed among 55 samples after our hard filtering. The per...

Distribution of the distance between each SNPs and its nearest gene in the dog, shown for polymorphic, monomorphic and failed SNPs.

Joseph I. Hoffman (210226)
Michael A. S. Thorne (107836)
Rob McEwing (433786)
Jaume Forcada (344093)
Rob Ogden (145264)

July 2013

<p>Distribution of the distance between each SNPs and its nearest gene in the dog, shown for polymor...

Distribution of the proportion SNPs within each of the PolyPhen categories based on PolyPhen-2 result.

Xin Ma (37268)
Joanna L. Kelley (364370)
Kirsten Eilertson (475949)
Shaila Musharoff (475950)
Jeremiah D. Degenhardt (244049)
André L. Martins (175500)
Tomas Vinar (5656588)
Carolin Kosiol (51877)
Adam Siepel (51882)
Ryan N. Gutenkunst (211415)
Carlos D. Bustamante (51881)

October 2013

<p>Error bars denote 95% confidence intervals on the proportion of SNPs in each category.</p

Mean frequency and standard deviation of the nearest Nelore SNPs within 50bp and 100bp size bins.

Joaquim Manoel da Silva (787318)
Poliana Fernanda Giachetto (787319)
Luiz Otávio Campos da Silva (787320)
Leandro Carrijo Cintra (787321)
Samuel Rezende Paiva (787322)
Alexandre Rodrigues Caetano (787323)
Michel Eduardo Beleza Yamagishi (787324)

August 2015

<p>Mean frequency and standard deviation of the nearest Nelore SNPs within 50bp and 100bp size bins....

Distribution of estimated MAFs of the selected SNPs.

Gwenola Tosser-Klopp (88023)
Philippe Bardou (463716)
Olivier Bouchez (104385)
Cédric Cabau (512751)
Richard Crooijmans (512752)
Yang Dong (234336)
Cécile Donnadieu-Tonon (512753)
André Eggen (47250)
Henri C. M. Heuven (180190)
Saadiah Jamli (512754)
Abdullah Johari Jiken (512755)
Christophe Klopp (120981)
Cynthia T. Lawley (171073)
John McEwan (45371)
Patrice Martin (512756)
Carole R. Moreno (512757)
Philippe Mulsant (407258)
Ibouniyamine Nabihoudine (512758)
Eric Pailhoux (91000)
Isabelle Palhière (512759)
Rachel Rupp (210779)
Julien Sarry (407256)
Brian L. Sayre (512760)
Aurélie Tircazes (512761)
Jun Wang (5906)
Wen Wang (6570)
Wenguang Zhang (112715)

January 2014

<p>The MAF for all the 60,000 selected SNPs was estimated based on the read counts for the two allel...

Distribution of SNP minor allele frequencies.

Luyang Sun (433243)
Shikai Liu (245897)
Ruijia Wang (644202)
Yanliang Jiang (245893)
Yu Zhang (12946)
Jiaren Zhang (433244)
Lisui Bao (476355)
Ludmilla Kaltenboeck (433245)
Rex Dunham (31998)
Geoff Waldbieser (644203)
Zhanjiang Liu (31986)

October 2014

<p>SNPs were separated into six categories according to their MAF level. The first two categories co...