Principle component analysis of bolivian chagas samples along with HapMap 3 populations.

Steven J. Clipman (3290715)
Josephine Henderson-Frost (4849663)
Katherine Y. Fu (2037886)
Caryn Bern (205403)
Jorge Flores (272192)
Robert H. Gilman (43897)

Publication date

February 2018

DOI

10.1371/journal.pone.0192378.g001

Abstract

Each point represents one individual with different colors representing each population. Bolivian Chagas samples are coded in magenta. The HapMap populations include: ASW: African ancestry in Southwest USA; CEU: Utah residents with Northern and Western European ancestry from the CEPH collection; CHB: Han Chinese in Beijing, China; CHD: Chinese in Metropolitan Denver, Colorado; GIH: Gujarati Indians in Houston, Texas; JPT: Japanese in Tokyo, Japan; LWK: Luhya in Webuye, Kenya; MEX: Mexican ancestry in Los Angeles, California; MKK: Maasai in Kinyawa, Kenya; TSI: Tuscans in Italy; YRI: Yoruba in Ibadan, Nigeria.</p

Extracted data

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Data Protection

Principle component analysis of bolivian chagas samples along with HapMap 3 populations.

Steven J. Clipman (3290715)
Josephine Henderson-Frost (4849663)
Katherine Y. Fu (2037886)
Caryn Bern (205403)
Jorge Flores (272192)
Robert H. Gilman (43897)

Open link

Publication date

February 2018

DOI

10.1371/journal.pone.0192378.g001

Abstract

Extracted data

Julian R. Homburger (833913)
Andrés Moreno-Estrada (2200690)
Christopher R. Gignoux (125227)
Dominic Nelson (833914)
Elena Sanchez (2200687)
Patricia Ortiz-Tello (833915)
Bernardo A. Pons-Estel (219546)
Eduardo Acevedo-Vasquez (833916)
Pedro Miranda (176149)
Carl D. Langefeld (120828)
Simon Gravel (188574)
Marta E. Alarcón-Riquelme (192882)
Carlos D. Bustamante (51881)

December 2015

Native American Ancestry Specific PCA of all Latino haploid genomes with greater than 25% estimat...

Analysis of Population Substructure in Two Sympatric Populations of Gran Chaco, Argentina

Federica Sevini (239726)
Daniele Yang Yao (414840)
Laura Lomartire (414841)
Annalaura Barbieri (414842)
Dario Vianello (414843)
Gianmarco Ferri (281845)
Edgardo Moretti (414844)
Maria Cristina Dasso (414845)
Paolo Garagnani (414846)
Davide Pettener (251380)
Claudio Franceschi (68521)
Donata Luiselli (414847)
Zelda Alice Franceschi (414848)

May 2013

<div>Sub-population structure and intricate kinship dynamics might introduce biases in molecular ...

Population stratification of Brazilian Chagas cohort along with Hapmap populations.

Xutao Deng (419756)
Ester C. Sabino (246430)
Edecio Cunha-Neto (125019)
Antonio L. Ribeiro (294167)
Barbara Ianni (59474)
Charles Mady (59479)
Michael P. Busch (116605)
Mark Seielstad (159399)
International Component (487478)

November 2013

Each point on the plot represents an individual; each population is coded in a different color. T...

Comparative population-based genetic analysis of the Amerindian with the populations in the HapMap database.

André M. Ribeiro-dos-Santos (503493)
Jorge Estefano Santana de Souza (247924)
Renan Almeida (503494)
Dayse O. Alencar (240162)
Maria Silvanira Barbosa (503495)
Leonor Gusmão (151951)
Wilson A. Silva Jr (231707)
Sandro J. de Souza (3018)
Artur Silva (104505)
Ândrea Ribeiro-dos-Santos (151961)
Sylvain Darnet (240195)
Sidney Santos (151965)

December 2013

The Amerindian sample (IND) was compared to 20 randomly selected samples from the following popul...

Principal Component Analysis of our Peruvian samples of gastric cancer cases, their controls, and Native Americans in the context of HapMap-III European, African, and Mexican individuals, and distribution of Native American ancestry in cases and controls

Latife Pereira (145059)
Roxana Zamudio (145061)
Giordano Soares-Souza (145064)
Phabiola Herrera (145067)
Lilia Cabrera (145068)
Catherine C. Hooper (145071)
Jaime Cok (145074)
Juan M. Combe (145077)
Gloria Vargas (145079)
William A. Prado (145083)
Silvana Schneider (145087)
Fernanda Kehdy (145088)
Maira R. Rodrigues (145090)
Stephen J. Chanock (14311)
Douglas E. Berg (145091)
Robert H. Gilman (43897)
Eduardo Tarazona-Santos (145092)

August 2012

(box). Each individual was genotyped for 103 ancestry informative markers validated...

Multidimensional Scaling (A), and admixture analysis based on AIMs (B) of the Yungas population samples. Partitioning of continental ancestry in Yungas compared to other Bolivian populations as estimated using AIMs, mtDNA, and Y-chromosome data (C).

Tanja Heinz (392335)
Jorge Mario Cárdenas (782206)
Vanesa Álvarez-Iglesias (113179)
Jacobo Pardo-Seco (392338)
Alberto Gómez-Carballa (176683)
Carla Santos (187706)
Patricia Taboada-Echalar (392334)
Federico Martinón-Torres (255764)
Antonio Salas (42163)

August 2015

The label “Bolivia” in (C) indicates ancestry estimates recomputed using the autosomal data gener...

Global ancestry analysis of South American populations.

Julian R. Homburger (833913)
Andrés Moreno-Estrada (2200690)
Christopher R. Gignoux (125227)
Dominic Nelson (833914)
Elena Sanchez (2200687)
Patricia Ortiz-Tello (833915)
Bernardo A. Pons-Estel (219546)
Eduardo Acevedo-Vasquez (833916)
Pedro Miranda (176149)
Carl D. Langefeld (120828)
Simon Gravel (188574)
Marta E. Alarcón-Riquelme (192882)
Carlos D. Bustamante (51881)

December 2015

(a) Principal Components Analysis of admixed individuals and continental reference panels. Each i...

Principal components plot (PC2 v PC1) with bases formed using genotypes of individuals of African descent included in Hapmap3 study.

Siana Nkya Mtatiro (654940)
Tarjinder Singh (654941)
Helen Rooks (654942)
Josephine Mgaya (356057)
Harvest Mariki (654943)
Deogratius Soka (356042)
Bruno Mmbando (432242)
Evarist Msaki (654944)
Iris Kolder (654945)
Swee Lay Thein (215372)
Stephan Menzel (215374)
Sharon E. Cox (247455)
Julie Makani (356040)
Jeffrey C. Barrett (210184)

November 2014

ASW: African ancestry in Southwest USA, LWK: Luhya in Webuhe, Kenya, MKK: Maasai in Kinyawa, Keny...

Three-dimensional plot of first three principal components (PC1, PC2, and PC3) computed from the merged dataset of populations.

Patricia C. Kuhn (311936)
Andréa R. V. Russo. Horimoto (311938)
José Maurício Sanches (311941)
João Paulo B. Vieira Filho (311944)
Luciana Franco (311946)
Amaury Dal Fabbro (311948)
Laercio Joel Franco (311949)
Alexandre C. Pereira (232570)
Regina S Moises (311950)

February 2013

Yoruba, Maasai in Kinyawa, Kenia (MKK), African ancestry in Southwest, USA (ASW), and BantuKenya ...

Principle components analysis plots.

Renée L. Eriksen (680633)
José L. Hierro (220298)
Özkan Eren (680634)
Krikor Andonian (220295)
Katalin Török (680635)
Pablo I. Becerra (680636)
Daniel Montesinos (324886)
Liana Khetsuriani (220302)
Alecu Diaconu (479220)
Rick Kesseli (339643)

December 2014

Each population is plotted based on FST (A) and Nei's Genetic Distance (B) for all populations. T...

Ancestry composition of sequenced APIC & URECA participants.

Matthew Dapas (9016484)
Emma E. Thompson (11544512)
William Wentworth-Sheilds (697345)
Selene Clay (14425315)
Cynthia M. Visness (5422457)
Agustin Calatroni (14425318)
Joanne E. Sordillo (8451417)
Diane R. Gold (11732568)
Robert A. Wood (3279096)
Melanie Makhija (13886600)
Gurjit K. Khurana Hershey (7889699)
Michael G. Sherenian (14425321)
Rebecca S. Gruchalla (13886603)
Michelle A. Gill (13886606)
Andrew H. Liu (13886609)
Haejin Kim (833850)
Meyer Kattan (9443480)
Leonard B. Bacharier (9443486)
Deepa Rastogi (6635723)
Matthew C. Altman (4804422)
William W. Busse (8189409)
Patrice M. Becker (14425324)
Dan Nicolae (32963)
George T. O’Connor (7782248)
James E. Gern (7512719)
Daniel J. Jackson (7513151)
Carole Ober (259474)

January 2023

A) The top two principal components (PCs) of ancestry are plotted for sequenced APIC & URECA partici...

Principal component analysis (PCA) plot reveals a close genetic relationship of Mexican admixed individuals from Mexico City to Native American groups.

Joaquín Zúñiga (461855)
Neng Yu (122546)
Rodrigo Barquera (461856)
Sharon Alosco (461857)
Marina Ohashi (461858)
Tatiana Lebedeva (122542)
Víctor Acuña-Alonzo (157294)
María Yunis (461859)
Julio Granados-Montiel (461860)
Alfredo Cruz-Lagunas (461861)
Gilberto Vargas-Alarcón (120733)
Tatiana S. Rodríguez-Reyna (461862)
Marcelo Fernandez-Viña (461863)
Julio Granados (134446)
Edmond J. Yunis (461864)

September 2013

Orange dots refer to African populations. Blue dots represent European samples. Green dots corres...

Analysis of population substructure in two sympatric populations of Gran Chaco, Argentina.

Federica Sevini
Daniele Yang Yao
Laura Lomartire
Annalaura Barbieri
Dario Vianello
Gianmarco Ferri
Edgardo Moretti
Maria Cristina Dasso
Paolo Garagnani
Davide Pettener
Claudio Franceschi
Donata Luiselli
Zelda Alice Franceschi

Sub-population structure and intricate kinship dynamics might introduce biases in molecular anthropo...

Native American ancestry specific analysis.

Julian R. Homburger (833913)
Andrés Moreno-Estrada (2200690)
Christopher R. Gignoux (125227)
Dominic Nelson (833914)
Elena Sanchez (2200687)
Patricia Ortiz-Tello (833915)
Bernardo A. Pons-Estel (219546)
Eduardo Acevedo-Vasquez (833916)
Pedro Miranda (176149)
Carl D. Langefeld (120828)
Simon Gravel (188574)
Marta E. Alarcón-Riquelme (192882)
Carlos D. Bustamante (51881)

December 2015

Native American Ancestry Specific PCA of all Latino haploid genomes with greater than 25% estimat...

Analysis of Population Substructure in Two Sympatric Populations of Gran Chaco, Argentina

Federica Sevini (239726)
Daniele Yang Yao (414840)
Laura Lomartire (414841)
Annalaura Barbieri (414842)
Dario Vianello (414843)
Gianmarco Ferri (281845)
Edgardo Moretti (414844)
Maria Cristina Dasso (414845)
Paolo Garagnani (414846)
Davide Pettener (251380)
Claudio Franceschi (68521)
Donata Luiselli (414847)
Zelda Alice Franceschi (414848)

May 2013

<div>Sub-population structure and intricate kinship dynamics might introduce biases in molecular ...

Population stratification of Brazilian Chagas cohort along with Hapmap populations.

Xutao Deng (419756)
Ester C. Sabino (246430)
Edecio Cunha-Neto (125019)
Antonio L. Ribeiro (294167)
Barbara Ianni (59474)
Charles Mady (59479)
Michael P. Busch (116605)
Mark Seielstad (159399)
International Component (487478)

November 2013

Each point on the plot represents an individual; each population is coded in a different color. T...

Comparative population-based genetic analysis of the Amerindian with the populations in the HapMap database.

André M. Ribeiro-dos-Santos (503493)
Jorge Estefano Santana de Souza (247924)
Renan Almeida (503494)
Dayse O. Alencar (240162)
Maria Silvanira Barbosa (503495)
Leonor Gusmão (151951)
Wilson A. Silva Jr (231707)
Sandro J. de Souza (3018)
Artur Silva (104505)
Ândrea Ribeiro-dos-Santos (151961)
Sylvain Darnet (240195)
Sidney Santos (151965)

December 2013

The Amerindian sample (IND) was compared to 20 randomly selected samples from the following popul...

Latife Pereira (145059)
Roxana Zamudio (145061)
Giordano Soares-Souza (145064)
Phabiola Herrera (145067)
Lilia Cabrera (145068)
Catherine C. Hooper (145071)
Jaime Cok (145074)
Juan M. Combe (145077)
Gloria Vargas (145079)
William A. Prado (145083)
Silvana Schneider (145087)
Fernanda Kehdy (145088)
Maira R. Rodrigues (145090)
Stephen J. Chanock (14311)
Douglas E. Berg (145091)
Robert H. Gilman (43897)
Eduardo Tarazona-Santos (145092)

August 2012

(box). Each individual was genotyped for 103 ancestry informative markers validated...

Tanja Heinz (392335)
Jorge Mario Cárdenas (782206)
Vanesa Álvarez-Iglesias (113179)
Jacobo Pardo-Seco (392338)
Alberto Gómez-Carballa (176683)
Carla Santos (187706)
Patricia Taboada-Echalar (392334)
Federico Martinón-Torres (255764)
Antonio Salas (42163)

August 2015

The label “Bolivia” in (C) indicates ancestry estimates recomputed using the autosomal data gener...

Global ancestry analysis of South American populations.

Julian R. Homburger (833913)
Andrés Moreno-Estrada (2200690)
Christopher R. Gignoux (125227)
Dominic Nelson (833914)
Elena Sanchez (2200687)
Patricia Ortiz-Tello (833915)
Bernardo A. Pons-Estel (219546)
Eduardo Acevedo-Vasquez (833916)
Pedro Miranda (176149)
Carl D. Langefeld (120828)
Simon Gravel (188574)
Marta E. Alarcón-Riquelme (192882)
Carlos D. Bustamante (51881)

December 2015

(a) Principal Components Analysis of admixed individuals and continental reference panels. Each i...

Principal components plot (PC2 v PC1) with bases formed using genotypes of individuals of African descent included in Hapmap3 study.

Siana Nkya Mtatiro (654940)
Tarjinder Singh (654941)
Helen Rooks (654942)
Josephine Mgaya (356057)
Harvest Mariki (654943)
Deogratius Soka (356042)
Bruno Mmbando (432242)
Evarist Msaki (654944)
Iris Kolder (654945)
Swee Lay Thein (215372)
Stephan Menzel (215374)
Sharon E. Cox (247455)
Julie Makani (356040)
Jeffrey C. Barrett (210184)

November 2014

ASW: African ancestry in Southwest USA, LWK: Luhya in Webuhe, Kenya, MKK: Maasai in Kinyawa, Keny...

Three-dimensional plot of first three principal components (PC1, PC2, and PC3) computed from the merged dataset of populations.

Patricia C. Kuhn (311936)
Andréa R. V. Russo. Horimoto (311938)
José Maurício Sanches (311941)
João Paulo B. Vieira Filho (311944)
Luciana Franco (311946)
Amaury Dal Fabbro (311948)
Laercio Joel Franco (311949)
Alexandre C. Pereira (232570)
Regina S Moises (311950)

February 2013

Yoruba, Maasai in Kinyawa, Kenia (MKK), African ancestry in Southwest, USA (ASW), and BantuKenya ...

Principle components analysis plots.

Renée L. Eriksen (680633)
José L. Hierro (220298)
Özkan Eren (680634)
Krikor Andonian (220295)
Katalin Török (680635)
Pablo I. Becerra (680636)
Daniel Montesinos (324886)
Liana Khetsuriani (220302)
Alecu Diaconu (479220)
Rick Kesseli (339643)

December 2014

Each population is plotted based on FST (A) and Nei's Genetic Distance (B) for all populations. T...

Ancestry composition of sequenced APIC & URECA participants.

Matthew Dapas (9016484)
Emma E. Thompson (11544512)
William Wentworth-Sheilds (697345)
Selene Clay (14425315)
Cynthia M. Visness (5422457)
Agustin Calatroni (14425318)
Joanne E. Sordillo (8451417)
Diane R. Gold (11732568)
Robert A. Wood (3279096)
Melanie Makhija (13886600)
Gurjit K. Khurana Hershey (7889699)
Michael G. Sherenian (14425321)
Rebecca S. Gruchalla (13886603)
Michelle A. Gill (13886606)
Andrew H. Liu (13886609)
Haejin Kim (833850)
Meyer Kattan (9443480)
Leonard B. Bacharier (9443486)
Deepa Rastogi (6635723)
Matthew C. Altman (4804422)
William W. Busse (8189409)
Patrice M. Becker (14425324)
Dan Nicolae (32963)
George T. O’Connor (7782248)
James E. Gern (7512719)
Daniel J. Jackson (7513151)
Carole Ober (259474)

January 2023

A) The top two principal components (PCs) of ancestry are plotted for sequenced APIC & URECA partici...

Principal component analysis (PCA) plot reveals a close genetic relationship of Mexican admixed individuals from Mexico City to Native American groups.

Joaquín Zúñiga (461855)
Neng Yu (122546)
Rodrigo Barquera (461856)
Sharon Alosco (461857)
Marina Ohashi (461858)
Tatiana Lebedeva (122542)
Víctor Acuña-Alonzo (157294)
María Yunis (461859)
Julio Granados-Montiel (461860)
Alfredo Cruz-Lagunas (461861)
Gilberto Vargas-Alarcón (120733)
Tatiana S. Rodríguez-Reyna (461862)
Marcelo Fernandez-Viña (461863)
Julio Granados (134446)
Edmond J. Yunis (461864)

September 2013

Orange dots refer to African populations. Blue dots represent European samples. Green dots corres...

Analysis of population substructure in two sympatric populations of Gran Chaco, Argentina.

Federica Sevini
Daniele Yang Yao
Laura Lomartire
Annalaura Barbieri
Dario Vianello
Gianmarco Ferri
Edgardo Moretti
Maria Cristina Dasso
Paolo Garagnani
Davide Pettener
Claudio Franceschi
Donata Luiselli
Zelda Alice Franceschi

Sub-population structure and intricate kinship dynamics might introduce biases in molecular anthropo...

Native American ancestry specific analysis.

Julian R. Homburger (833913)
Andrés Moreno-Estrada (2200690)
Christopher R. Gignoux (125227)
Dominic Nelson (833914)
Elena Sanchez (2200687)
Patricia Ortiz-Tello (833915)
Bernardo A. Pons-Estel (219546)
Eduardo Acevedo-Vasquez (833916)
Pedro Miranda (176149)
Carl D. Langefeld (120828)
Simon Gravel (188574)
Marta E. Alarcón-Riquelme (192882)
Carlos D. Bustamante (51881)

December 2015

Native American Ancestry Specific PCA of all Latino haploid genomes with greater than 25% estimat...

Analysis of Population Substructure in Two Sympatric Populations of Gran Chaco, Argentina

Federica Sevini (239726)
Daniele Yang Yao (414840)
Laura Lomartire (414841)
Annalaura Barbieri (414842)
Dario Vianello (414843)
Gianmarco Ferri (281845)
Edgardo Moretti (414844)
Maria Cristina Dasso (414845)
Paolo Garagnani (414846)
Davide Pettener (251380)
Claudio Franceschi (68521)
Donata Luiselli (414847)
Zelda Alice Franceschi (414848)

May 2013

<div>Sub-population structure and intricate kinship dynamics might introduce biases in molecular ...

Principle component analysis of bolivian chagas samples along with HapMap 3 populations.

Abstract

Extracted data

Principle component analysis of bolivian chagas samples along with HapMap 3 populations.

Abstract

Extracted data

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