Literature DB >> 30165568

AncestryView: data-driven visualization of whole-genome local-ancestry.

Yan Zhao1,2, Li Ma2,3,4,5, Sukun Jiang2,3, George D Song4, Shaohua He2, Hong Li3, Qing Song1,2,4.   

Abstract

SUMMARY: Data visualization is a crucial tool for data exploration, analysis and interpretation. To visualize the ancestry data, we developed a new software tool, called AncestryView. We demonstrate its functionality with the data from admixed individuals.
AVAILABILITY AND IMPLEMENTATION: Freely available to non-commercial users on the web at https://f001.backblazeb2.com/file/=4DGenome/AncestryView.zip. SUPPLEMENTARY INFORMATION: Supplementary data are available at Bioinformatics online.
© The Author(s) 2018. Published by Oxford University Press. All rights reserved. For permissions, please e-mail: journals.permissions@oup.com.

Mesh:

Year:  2019        PMID: 30165568      PMCID: PMC6394389          DOI: 10.1093/bioinformatics/bty732

Source DB:  PubMed          Journal:  Bioinformatics        ISSN: 1367-4803            Impact factor:   6.937


  10 in total

1.  Inference of population structure using multilocus genotype data: linked loci and correlated allele frequencies.

Authors:  Daniel Falush; Matthew Stephens; Jonathan K Pritchard
Journal:  Genetics       Date:  2003-08       Impact factor: 4.562

2.  Fast and accurate inference of local ancestry in Latino populations.

Authors:  Yael Baran; Bogdan Pasaniuc; Sriram Sankararaman; Dara G Torgerson; Christopher Gignoux; Celeste Eng; William Rodriguez-Cintron; Rocio Chapela; Jean G Ford; Pedro C Avila; Jose Rodriguez-Santana; Esteban Gonzàlez Burchard; Eran Halperin
Journal:  Bioinformatics       Date:  2012-04-11       Impact factor: 6.937

3.  Reconstructing genetic ancestry blocks in admixed individuals.

Authors:  Hua Tang; Marc Coram; Pei Wang; Xiaofeng Zhu; Neil Risch
Journal:  Am J Hum Genet       Date:  2006-05-17       Impact factor: 11.025

4.  RFMix: a discriminative modeling approach for rapid and robust local-ancestry inference.

Authors:  Brian K Maples; Simon Gravel; Eimear E Kenny; Carlos D Bustamante
Journal:  Am J Hum Genet       Date:  2013-08-01       Impact factor: 11.025

5.  Scientists need data visualization training.

Authors:  Mohamed Elgendi
Journal:  Nat Biotechnol       Date:  2017-10-11       Impact factor: 54.908

6.  Data visualization tools drive interactivity and reproducibility in online publishing.

Authors:  Jeffrey M Perkel
Journal:  Nature       Date:  2018-02-01       Impact factor: 49.962

7.  PCAdmix: principal components-based assignment of ancestry along each chromosome in individuals with admixed ancestry from two or more populations.

Authors:  Abra Brisbin; Katarzyna Bryc; Jake Byrnes; Fouad Zakharia; Larsson Omberg; Jeremiah Degenhardt; Andrew Reynolds; Harry Ostrer; Jason G Mezey; Carlos D Bustamante
Journal:  Hum Biol       Date:  2012-08       Impact factor: 0.553

8.  Accurate inference of local phased ancestry of modern admixed populations.

Authors:  Yamin Ma; Jian Zhao; Jian-Syuan Wong; Li Ma; Wenzhi Li; Guoxing Fu; Wei Xu; Kui Zhang; Rick A Kittles; Yun Li; Qing Song
Journal:  Sci Rep       Date:  2014-07-23       Impact factor: 4.379

9.  Inference of locus-specific ancestry in closely related populations.

Authors:  Bogdan Pasaniuc; Sriram Sankararaman; Gad Kimmel; Eran Halperin
Journal:  Bioinformatics       Date:  2009-06-15       Impact factor: 6.937

10.  Sensitive detection of chromosomal segments of distinct ancestry in admixed populations.

Authors:  Alkes L Price; Arti Tandon; Nick Patterson; Kathleen C Barnes; Nicholas Rafaels; Ingo Ruczinski; Terri H Beaty; Rasika Mathias; David Reich; Simon Myers
Journal:  PLoS Genet       Date:  2009-06-19       Impact factor: 5.917

  10 in total

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