Publications by authors named "Suyash S Shringarpure"

8Publications

Fast and robust identity-by-descent inference with the templated positional Burrows-Wheeler transform.

Authors:
William A Freyman Kimberly F McManus Suyash S Shringarpure Ethan M Jewett Katarzyna Bryc Adam Auton

Mol Biol Evol 2020 Dec 23. Epub 2020 Dec 23.

23andMe, Inc., Sunnyvale, CA, USA.

View Article and Find Full Text PDF
December 2020

Spectrum and prevalence of genetic predisposition in medulloblastoma: a retrospective genetic study and prospective validation in a clinical trial cohort.

Authors:
Sebastian M Waszak Paul A Northcott Ivo Buchhalter Giles W Robinson Christian Sutter Susanne Groebner Kerstin B Grund Laurence Brugières David T W Jones Kristian W Pajtler A Sorana Morrissy Marcel Kool Dominik Sturm Lukas Chavez Aurelie Ernst Sebastian Brabetz Michael Hain Thomas Zichner Maia Segura-Wang Joachim Weischenfeldt Tobias Rausch Balca R Mardin Xin Zhou Cristina Baciu Christian Lawerenz Jennifer A Chan Pascale Varlet Lea Guerrini-Rousseau Daniel W Fults Wiesława Grajkowska Peter Hauser Nada Jabado Young-Shin Ra Karel Zitterbart Suyash S Shringarpure Francisco M De La Vega Carlos D Bustamante Ho-Keung Ng Arie Perry Tobey J MacDonald Pablo Hernáiz Driever Anne E Bendel Daniel C Bowers Geoffrey McCowage Murali M Chintagumpala Richard Cohn Timothy Hassall Gudrun Fleischhack Tone Eggen Finn Wesenberg Maria Feychting Birgitta Lannering Joachim Schüz Christoffer Johansen Tina V Andersen Martin Röösli Claudia E Kuehni Michael Grotzer Kristina Kjaerheim Camelia M Monoranu Tenley C Archer Elizabeth Duke Scott L Pomeroy Redmond Shelagh Stephan Frank David Sumerauer Wolfram Scheurlen Marina V Ryzhova Till Milde Christian P Kratz David Samuel Jinghui Zhang David A Solomon Marco Marra Roland Eils Claus R Bartram Katja von Hoff Stefan Rutkowski Vijay Ramaswamy Richard J Gilbertson Andrey Korshunov Michael D Taylor Peter Lichter David Malkin Amar Gajjar Jan O Korbel Stefan M Pfister

Lancet Oncol 2018 06 9;19(6):785-798. Epub 2018 May 9.

Department of Pediatric Hematology and Oncology, Heidelberg University Hospital, Heidelberg, Germany; Division of Pediatric Neurooncology, German Cancer Consortium (DKTK), German Cancer Research Center (DKFZ), Heidelberg, Germany; Hopp Children's Cancer Center at the NCT Heidelberg, Heidelberg, Germany. Electronic address:

View Article and Find Full Text PDF
June 2018

Using genotype array data to compare multi- and single-sample variant calls and improve variant call sets from deep coverage whole-genome sequencing data.

Authors:
Suyash S Shringarpure Rasika A Mathias Ryan D Hernandez Timothy D O'Connor Zachary A Szpiech Raul Torres Francisco M De La Vega Carlos D Bustamante Kathleen C Barnes Margaret A Taub

Bioinformatics 2017 04;33(8):1147-1153

Biomedical Sciences Graduate Program, University of California, San Francisco, San Francisco, CA, USA.

View Article and Find Full Text PDF
April 2017

A continuum of admixture in the Western Hemisphere revealed by the African Diaspora genome.

Authors:
Rasika Ann Mathias Margaret A Taub Christopher R Gignoux Wenqing Fu Shaila Musharoff Timothy D O'Connor Candelaria Vergara Dara G Torgerson Maria Pino-Yanes Suyash S Shringarpure Lili Huang Nicholas Rafaels Meher Preethi Boorgula Henry Richard Johnston Victor E Ortega Albert M Levin Wei Song Raul Torres Badri Padhukasahasram Celeste Eng Delmy-Aracely Mejia-Mejia Trevor Ferguson Zhaohui S Qin Alan F Scott Maria Yazdanbakhsh James G Wilson Javier Marrugo Leslie A Lange Rajesh Kumar Pedro C Avila L Keoki Williams Harold Watson Lorraine B Ware Christopher Olopade Olufunmilayo Olopade Ricardo Oliveira Carole Ober Dan L Nicolae Deborah Meyers Alvaro Mayorga Jennifer Knight-Madden Tina Hartert Nadia N Hansel Marilyn G Foreman Jean G Ford Mezbah U Faruque Georgia M Dunston Luis Caraballo Esteban G Burchard Eugene Bleecker Maria Ilma Araujo Edwin Francisco Herrera-Paz Kimberly Gietzen Wendy E Grus Michael Bamshad Carlos D Bustamante Eimear E Kenny Ryan D Hernandez Terri H Beaty Ingo Ruczinski Joshua Akey Kathleen C Barnes

Nat Commun 2016 10 11;7:12522. Epub 2016 Oct 11.

Department of Medicine, Johns Hopkins University, Baltimore, Maryland 21224, USA.

View Article and Find Full Text PDF
October 2016

Efficient analysis of large datasets and sex bias with ADMIXTURE.

Authors:
Suyash S Shringarpure Carlos D Bustamante Kenneth Lange David H Alexander

BMC Bioinformatics 2016 May 23;17:218. Epub 2016 May 23.

Pacific Biosciences, Menlo Park, California, USA.

View Article and Find Full Text PDF
May 2016

Privacy Risks from Genomic Data-Sharing Beacons.

Authors:
Suyash S Shringarpure Carlos D Bustamante

Am J Hum Genet 2015 Nov 29;97(5):631-46. Epub 2015 Oct 29.

Department of Genetics, Stanford University, Stanford, CA 94305, USA. Electronic address:

View Article and Find Full Text PDF
November 2015

POPULATION GENETICS. Genomic evidence for the Pleistocene and recent population history of Native Americans.

Authors:
Maanasa Raghavan Matthias Steinrücken Kelley Harris Stephan Schiffels Simon Rasmussen Michael DeGiorgio Anders Albrechtsen Cristina Valdiosera María C Ávila-Arcos Anna-Sapfo Malaspinas Anders Eriksson Ida Moltke Mait Metspalu Julian R Homburger Jeff Wall Omar E Cornejo J Víctor Moreno-Mayar Thorfinn S Korneliussen Tracey Pierre Morten Rasmussen Paula F Campos Peter de Barros Damgaard Morten E Allentoft John Lindo Ene Metspalu Ricardo Rodríguez-Varela Josefina Mansilla Celeste Henrickson Andaine Seguin-Orlando Helena Malmström Thomas Stafford Suyash S Shringarpure Andrés Moreno-Estrada Monika Karmin Kristiina Tambets Anders Bergström Yali Xue Vera Warmuth Andrew D Friend Joy Singarayer Paul Valdes Francois Balloux Ilán Leboreiro Jose Luis Vera Hector Rangel-Villalobos Davide Pettener Donata Luiselli Loren G Davis Evelyne Heyer Christoph P E Zollikofer Marcia S Ponce de León Colin I Smith Vaughan Grimes Kelly-Anne Pike Michael Deal Benjamin T Fuller Bernardo Arriaza Vivien Standen Maria F Luz Francois Ricaut Niede Guidon Ludmila Osipova Mikhail I Voevoda Olga L Posukh Oleg Balanovsky Maria Lavryashina Yuri Bogunov Elza Khusnutdinova Marina Gubina Elena Balanovska Sardana Fedorova Sergey Litvinov Boris Malyarchuk Miroslava Derenko M J Mosher David Archer Jerome Cybulski Barbara Petzelt Joycelynn Mitchell Rosita Worl Paul J Norman Peter Parham Brian M Kemp Toomas Kivisild Chris Tyler-Smith Manjinder S Sandhu Michael Crawford Richard Villems David Glenn Smith Michael R Waters Ted Goebel John R Johnson Ripan S Malhi Mattias Jakobsson David J Meltzer Andrea Manica Richard Durbin Carlos D Bustamante Yun S Song Rasmus Nielsen Eske Willerslev

Science 2015 Aug 21;349(6250):aab3884. Epub 2015 Jul 21.

Centre for GeoGenetics, Natural History Museum of Denmark, University of Copenhagen, Øster Voldgade 5-7, 1350 Copenhagen, Denmark.

View Article and Find Full Text PDF
August 2015

Inexpensive and Highly Reproducible Cloud-Based Variant Calling of 2,535 Human Genomes.

Authors:
Suyash S Shringarpure Andrew Carroll Francisco M De La Vega Carlos D Bustamante

PLoS One 2015 25;10(6):e0129277. Epub 2015 Jun 25.

Department of Genetics, Stanford University, Stanford, California 94305, USA.

View Article and Find Full Text PDF
April 2016