Additional file 1 of Leveraging genomic diversity for discovery in an electronic health record linked biobank: the UCLA ATLAS Community Health Initiative

Additional file 2: Supplementary Methods. of Discovery of rare, diagnostic AluYb8/9 elements in diverse human populations

Julie Feusier (849813)
David Witherspoon (516992)
W. Scott Watkins (231406)
ClĂŠment Goubert (4283176)
Thomas Sasani (4283173)
Lynn Jorde (4041458)

July 2017

This file contains supplementary methods that contain the improved ME-Scan protocol (DOCX 29 kb

Additional file 2: of A database of human genes and a gene network involved in response to tick-borne encephalitis virus infection

Elena Ignatieva (3600950)
Alexander Igoshin (4724925)
Nikolay Yudin (4724928)

December 2017

Supplementary data for creation of the interactive version of gene network in Cytoscape. (XGMML 224Â...

Additional file 1: Table S1. of A SNP panel for identification of DNA and RNA specimens

Soheil Yousefi (4798917)
Tooba Abbassi-Daloii (4798923)
Thirsa Kraaijenbrink (533093)
Martijn Vermaat (4798911)
Hailiang Mei (3404261)
Peter van ât Hof (4798929)
Maarten van Iterson (184364)
Daria Zhernakova (3404231)
Annique Claringbould (4798920)
Lude Franke (102406)
Leen ât Hart (4798932)
Roderick Slieker (3404279)
Amber van der Heijden (762756)
Peter de Knijff (266636)
Peter ât Hoen (3404264)

January 2018

Four biobanks (RNA-Seq) with number of different SNP positions and number of samples. (DOC 33 kb

Additional file 3 of Leveraging genomic diversity for discovery in an electronic health record linked biobank: the UCLA ATLAS Community Health Initiative

Ruth Johnson (13770096)
Yi Ding (172783)
Vidhya Venkateswaran (8674620)
Arjun Bhattacharya (6671123)
Kristin Boulier (13770099)
Alec Chiu (12666963)
Sergey Knyazev (8592180)
Tommer Schwarz (10844573)
Malika Freund (13770102)
Lingyu Zhan (8150109)
Kathryn S. Burch (11592828)
Christa Caggiano (9234476)
Brian Hill (62178)
Nadav Rakocz (13770105)
Brunilda Balliu (663151)
Christopher T. Denny (8754663)
Jae Hoon Sul (8124677)
Noah Zaitlen (120787)
Valerie A. Arboleda (12345780)
Eran Halperin (22303)
Sriram Sankararaman (131462)
Manish J. Butte (154492)
Clara Lajonchere (13770108)
Daniel H. Geschwind (10053834)
Bogdan Pasaniuc (120790)

September 2022

Additional file 3: Table S7. Associations between genetically inferred ancestry and phecodes within ...

Additional file 4 of Leveraging genomic diversity for discovery in an electronic health record linked biobank: the UCLA ATLAS Community Health Initiative

Ruth Johnson (13770096)
Yi Ding (172783)
Vidhya Venkateswaran (8674620)
Arjun Bhattacharya (6671123)
Kristin Boulier (13770099)
Alec Chiu (12666963)
Sergey Knyazev (8592180)
Tommer Schwarz (10844573)
Malika Freund (13770102)
Lingyu Zhan (8150109)
Kathryn S. Burch (11592828)
Christa Caggiano (9234476)
Brian Hill (62178)
Nadav Rakocz (13770105)
Brunilda Balliu (663151)
Christopher T. Denny (8754663)
Jae Hoon Sul (8124677)
Noah Zaitlen (120787)
Valerie A. Arboleda (12345780)
Eran Halperin (22303)
Sriram Sankararaman (131462)
Manish J. Butte (154492)
Clara Lajonchere (13770108)
Daniel H. Geschwind (10053834)
Bogdan Pasaniuc (120790)

September 2022

Additional file 4: Table S8. Associations between genetically inferred ancestry and phecodes within ...

Additional file 2 of Leveraging genomic diversity for discovery in an electronic health record linked biobank: the UCLA ATLAS Community Health Initiative

Ruth Johnson (13770096)
Yi Ding (172783)
Vidhya Venkateswaran (8674620)
Arjun Bhattacharya (6671123)
Kristin Boulier (13770099)
Alec Chiu (12666963)
Sergey Knyazev (8592180)
Tommer Schwarz (10844573)
Malika Freund (13770102)
Lingyu Zhan (8150109)
Kathryn S. Burch (11592828)
Christa Caggiano (9234476)
Brian Hill (62178)
Nadav Rakocz (13770105)
Brunilda Balliu (663151)
Christopher T. Denny (8754663)
Jae Hoon Sul (8124677)
Noah Zaitlen (120787)
Valerie A. Arboleda (12345780)
Eran Halperin (22303)
Sriram Sankararaman (131462)
Manish J. Butte (154492)
Clara Lajonchere (13770108)
Daniel H. Geschwind (10053834)
Bogdan Pasaniuc (120790)

September 2022

Additional file 2: Table S1. Self-identified race. Table S2. Self-identified ethnicity. Table S3. Se...

Additional file 8 of Leveraging genomic diversity for discovery in an electronic health record linked biobank: the UCLA ATLAS Community Health Initiative

Ruth Johnson (13770096)
Yi Ding (172783)
Vidhya Venkateswaran (8674620)
Arjun Bhattacharya (6671123)
Kristin Boulier (13770099)
Alec Chiu (12666963)
Sergey Knyazev (8592180)
Tommer Schwarz (10844573)
Malika Freund (13770102)
Lingyu Zhan (8150109)
Kathryn S. Burch (11592828)
Christa Caggiano (9234476)
Brian Hill (62178)
Nadav Rakocz (13770105)
Brunilda Balliu (663151)
Christopher T. Denny (8754663)
Jae Hoon Sul (8124677)
Noah Zaitlen (120787)
Valerie A. Arboleda (12345780)
Eran Halperin (22303)
Sriram Sankararaman (131462)
Manish J. Butte (154492)
Clara Lajonchere (13770108)
Daniel H. Geschwind (10053834)
Bogdan Pasaniuc (120790)

September 2022

Additional file 8: Table S12. Effective sample sizes and effect sizes of correlated phenotypes for c...

Additional file 1: Table S1. of Integrating cancer genomic data into electronic health records

Jeremy Warner (3561563)
Sandeep Jain (497319)
Mia Levy (3561566)

October 2016

Nomenclatures of relevance to genomic medicine. Table S2. Terminology systems that uniquely identify...

Additional file 1 of Multi-scale structural community organisation of the human genome

Rasha E. Boulos (3919763)
Nicolas Tremblay (687827)
Alain Arneodo (173205)
Pierre Borgnat (3919766)
Benjamin Audit (1341)

April 2017

Supplementary Online Material. Additional data file 1 contains supplementary text: Graph wavelet tra...

Additional file 1: of G-DOC Plus â an integrative bioinformatics platform for precision medicine

Krithika Bhuvaneshwar (3535712)
Anas Belouali (3535709)
Varun Singh (3103644)
Robert Johnson (249015)
Lei Song (30203)
Adil Alaoui (3535718)
Michael Harris (2615422)
Robert Clarke (17961)
Louis Weiner (3535715)
Yuriy Gusev (10998)
Subha Madhavan (506120)

April 2016

Front page of G-DOC Plus showing total number of studies, and samples in various disease types. (PNG...

Additional file 2 of GenAp: a distributed SQL interface for genomic data

Christos Kozanitis (3571421)
David Patterson (188114)

February 2016

This is a file that contains the supplementary figures that we refer to in the manuscript. (PDF 615 ...

Additional file 1: of Preparing the next generation of genomicists: a laboratory-style course in medical genomics

Michael Linderman (171683)
Ali Bashir (44572)
George Diaz (3444707)
Andrew Kasarskis (6291)
Saskia Sanderson (3444704)
Randi Zinberg (3444701)
Milind Mahajan (106624)
Hardik Shah (3384089)
Sabrina Suckiel (3444698)
Micol Zweig (3440330)
Eric Schadt (105785)

August 2015

Supplemental materials including the course approval process, course organization, additional lesson...

Additional file 1: of Development and clinical application of an integrative genomic approach to personalized cancer therapy

Andrew Uzilov (840952)
Wei Ding (690)
Marc Fink (3440288)
Yevgeniy Antipin (88148)
Andrew Brohl (3440327)
Claire Davis (3440309)
Chun Lau (3440342)
Chetanya Pandya (2158300)
Hardik Shah (3384089)
Yumi Kasai (25927)
James Powell (307938)
Mark Micchelli (3440306)
Rafael Castellanos (3440336)
Zhongyang Zhang (828677)
Michael Linderman (171683)
Yayoi Kinoshita (324653)
Micol Zweig (3440330)
Katie Raustad (3440339)
Kakit Cheung (3440315)
Diane Castillo (3440285)
Melissa Wooten (840951)
Imane Bourzgui (3440333)
Leah Newman (3440345)
Gintaras Deikus (2662735)
Bino Mathew (3440300)
Jun Zhu (84054)
Benjamin Glicksberg (3440291)
Aye Moe (3440312)
Jun Liao (1402627)
Lisa Edelmann (2633281)
Joel Dudley (3440297)
Robert Maki (3440294)
Andrew Kasarskis (6291)
Randall Holcombe (3440324)
Milind Mahajan (106624)
Ke Hao (50181)
Boris Reva (88147)
Janina Longtine (3440321)
Daniela Starcevic (3440303)
Robert Sebra (840947)
Michael Donovan (3440318)
Shuyu Li (18735)
Eric Schadt (105785)
Rong Chen (29176)

June 2016

Supplementary Tables: Tables S1-S11. See Additional file 2 for detailed table legends. (XLSX 144 kb

Additional file 1: of Leveraging genetically simple traits to identify small-effect variants for complex phenotypes

K. Kemper (3511319)
M. Littlejohn (3511313)
T. Lopdell (3511301)
B. Hayes (3511316)
L. Bennett (3511307)
R. Williams (3511298)
X. Xu (771131)
P. Visscher (3511304)
M. Carrick (3511310)
M. Goddard (3486104)

November 2016

Supplementary Materials. This document contains supplementary Tables S1-S5 and supplementary Figures...

Additional file 1: of MUFFINN: cancer gene discovery via network analysis of somatic mutation data

Ara Cho (1736176)
Jung Shim (3418757)
Eiru Kim (707696)
Fran Supek (105927)
Ben Lehner (4828)
Insuk Lee (41276)

June 2016

Supplementary online information including supplementary Figures S1âS9 and supplementary Table S1....

Additional file 2: Supplementary Methods. of Discovery of rare, diagnostic AluYb8/9 elements in diverse human populations

Julie Feusier (849813)
David Witherspoon (516992)
W. Scott Watkins (231406)
ClĂŠment Goubert (4283176)
Thomas Sasani (4283173)
Lynn Jorde (4041458)

July 2017

This file contains supplementary methods that contain the improved ME-Scan protocol (DOCX 29 kb

Additional file 2: of A database of human genes and a gene network involved in response to tick-borne encephalitis virus infection

Elena Ignatieva (3600950)
Alexander Igoshin (4724925)
Nikolay Yudin (4724928)

December 2017

Supplementary data for creation of the interactive version of gene network in Cytoscape. (XGMML 224Â...

Additional file 1: Table S1. of A SNP panel for identification of DNA and RNA specimens

Soheil Yousefi (4798917)
Tooba Abbassi-Daloii (4798923)
Thirsa Kraaijenbrink (533093)
Martijn Vermaat (4798911)
Hailiang Mei (3404261)
Peter van ât Hof (4798929)
Maarten van Iterson (184364)
Daria Zhernakova (3404231)
Annique Claringbould (4798920)
Lude Franke (102406)
Leen ât Hart (4798932)
Roderick Slieker (3404279)
Amber van der Heijden (762756)
Peter de Knijff (266636)
Peter ât Hoen (3404264)

January 2018

Four biobanks (RNA-Seq) with number of different SNP positions and number of samples. (DOC 33 kb

Additional file 3 of Leveraging genomic diversity for discovery in an electronic health record linked biobank: the UCLA ATLAS Community Health Initiative

Ruth Johnson (13770096)
Yi Ding (172783)
Vidhya Venkateswaran (8674620)
Arjun Bhattacharya (6671123)
Kristin Boulier (13770099)
Alec Chiu (12666963)
Sergey Knyazev (8592180)
Tommer Schwarz (10844573)
Malika Freund (13770102)
Lingyu Zhan (8150109)
Kathryn S. Burch (11592828)
Christa Caggiano (9234476)
Brian Hill (62178)
Nadav Rakocz (13770105)
Brunilda Balliu (663151)
Christopher T. Denny (8754663)
Jae Hoon Sul (8124677)
Noah Zaitlen (120787)
Valerie A. Arboleda (12345780)
Eran Halperin (22303)
Sriram Sankararaman (131462)
Manish J. Butte (154492)
Clara Lajonchere (13770108)
Daniel H. Geschwind (10053834)
Bogdan Pasaniuc (120790)

September 2022

Additional file 3: Table S7. Associations between genetically inferred ancestry and phecodes within ...

Additional file 4 of Leveraging genomic diversity for discovery in an electronic health record linked biobank: the UCLA ATLAS Community Health Initiative

Ruth Johnson (13770096)
Yi Ding (172783)
Vidhya Venkateswaran (8674620)
Arjun Bhattacharya (6671123)
Kristin Boulier (13770099)
Alec Chiu (12666963)
Sergey Knyazev (8592180)
Tommer Schwarz (10844573)
Malika Freund (13770102)
Lingyu Zhan (8150109)
Kathryn S. Burch (11592828)
Christa Caggiano (9234476)
Brian Hill (62178)
Nadav Rakocz (13770105)
Brunilda Balliu (663151)
Christopher T. Denny (8754663)
Jae Hoon Sul (8124677)
Noah Zaitlen (120787)
Valerie A. Arboleda (12345780)
Eran Halperin (22303)
Sriram Sankararaman (131462)
Manish J. Butte (154492)
Clara Lajonchere (13770108)
Daniel H. Geschwind (10053834)
Bogdan Pasaniuc (120790)

September 2022

Additional file 4: Table S8. Associations between genetically inferred ancestry and phecodes within ...

Additional file 2 of Leveraging genomic diversity for discovery in an electronic health record linked biobank: the UCLA ATLAS Community Health Initiative

Ruth Johnson (13770096)
Yi Ding (172783)
Vidhya Venkateswaran (8674620)
Arjun Bhattacharya (6671123)
Kristin Boulier (13770099)
Alec Chiu (12666963)
Sergey Knyazev (8592180)
Tommer Schwarz (10844573)
Malika Freund (13770102)
Lingyu Zhan (8150109)
Kathryn S. Burch (11592828)
Christa Caggiano (9234476)
Brian Hill (62178)
Nadav Rakocz (13770105)
Brunilda Balliu (663151)
Christopher T. Denny (8754663)
Jae Hoon Sul (8124677)
Noah Zaitlen (120787)
Valerie A. Arboleda (12345780)
Eran Halperin (22303)
Sriram Sankararaman (131462)
Manish J. Butte (154492)
Clara Lajonchere (13770108)
Daniel H. Geschwind (10053834)
Bogdan Pasaniuc (120790)

September 2022

Additional file 2: Table S1. Self-identified race. Table S2. Self-identified ethnicity. Table S3. Se...

Additional file 8 of Leveraging genomic diversity for discovery in an electronic health record linked biobank: the UCLA ATLAS Community Health Initiative

Ruth Johnson (13770096)
Yi Ding (172783)
Vidhya Venkateswaran (8674620)
Arjun Bhattacharya (6671123)
Kristin Boulier (13770099)
Alec Chiu (12666963)
Sergey Knyazev (8592180)
Tommer Schwarz (10844573)
Malika Freund (13770102)
Lingyu Zhan (8150109)
Kathryn S. Burch (11592828)
Christa Caggiano (9234476)
Brian Hill (62178)
Nadav Rakocz (13770105)
Brunilda Balliu (663151)
Christopher T. Denny (8754663)
Jae Hoon Sul (8124677)
Noah Zaitlen (120787)
Valerie A. Arboleda (12345780)
Eran Halperin (22303)
Sriram Sankararaman (131462)
Manish J. Butte (154492)
Clara Lajonchere (13770108)
Daniel H. Geschwind (10053834)
Bogdan Pasaniuc (120790)

September 2022

Additional file 8: Table S12. Effective sample sizes and effect sizes of correlated phenotypes for c...

Additional file 1: Table S1. of Integrating cancer genomic data into electronic health records

Jeremy Warner (3561563)
Sandeep Jain (497319)
Mia Levy (3561566)

October 2016

Nomenclatures of relevance to genomic medicine. Table S2. Terminology systems that uniquely identify...

Additional file 1 of Multi-scale structural community organisation of the human genome

Rasha E. Boulos (3919763)
Nicolas Tremblay (687827)
Alain Arneodo (173205)
Pierre Borgnat (3919766)
Benjamin Audit (1341)

April 2017

Supplementary Online Material. Additional data file 1 contains supplementary text: Graph wavelet tra...

Additional file 1: of G-DOC Plus â an integrative bioinformatics platform for precision medicine

Krithika Bhuvaneshwar (3535712)
Anas Belouali (3535709)
Varun Singh (3103644)
Robert Johnson (249015)
Lei Song (30203)
Adil Alaoui (3535718)
Michael Harris (2615422)
Robert Clarke (17961)
Louis Weiner (3535715)
Yuriy Gusev (10998)
Subha Madhavan (506120)

April 2016

Front page of G-DOC Plus showing total number of studies, and samples in various disease types. (PNG...

Additional file 2 of GenAp: a distributed SQL interface for genomic data

Christos Kozanitis (3571421)
David Patterson (188114)

February 2016

This is a file that contains the supplementary figures that we refer to in the manuscript. (PDF 615 ...

Additional file 1: of Preparing the next generation of genomicists: a laboratory-style course in medical genomics

Michael Linderman (171683)
Ali Bashir (44572)
George Diaz (3444707)
Andrew Kasarskis (6291)
Saskia Sanderson (3444704)
Randi Zinberg (3444701)
Milind Mahajan (106624)
Hardik Shah (3384089)
Sabrina Suckiel (3444698)
Micol Zweig (3440330)
Eric Schadt (105785)

August 2015

Supplemental materials including the course approval process, course organization, additional lesson...

Additional file 1: of Development and clinical application of an integrative genomic approach to personalized cancer therapy

Andrew Uzilov (840952)
Wei Ding (690)
Marc Fink (3440288)
Yevgeniy Antipin (88148)
Andrew Brohl (3440327)
Claire Davis (3440309)
Chun Lau (3440342)
Chetanya Pandya (2158300)
Hardik Shah (3384089)
Yumi Kasai (25927)
James Powell (307938)
Mark Micchelli (3440306)
Rafael Castellanos (3440336)
Zhongyang Zhang (828677)
Michael Linderman (171683)
Yayoi Kinoshita (324653)
Micol Zweig (3440330)
Katie Raustad (3440339)
Kakit Cheung (3440315)
Diane Castillo (3440285)
Melissa Wooten (840951)
Imane Bourzgui (3440333)
Leah Newman (3440345)
Gintaras Deikus (2662735)
Bino Mathew (3440300)
Jun Zhu (84054)
Benjamin Glicksberg (3440291)
Aye Moe (3440312)
Jun Liao (1402627)
Lisa Edelmann (2633281)
Joel Dudley (3440297)
Robert Maki (3440294)
Andrew Kasarskis (6291)
Randall Holcombe (3440324)
Milind Mahajan (106624)
Ke Hao (50181)
Boris Reva (88147)
Janina Longtine (3440321)
Daniela Starcevic (3440303)
Robert Sebra (840947)
Michael Donovan (3440318)
Shuyu Li (18735)
Eric Schadt (105785)
Rong Chen (29176)

June 2016

Supplementary Tables: Tables S1-S11. See Additional file 2 for detailed table legends. (XLSX 144 kb

Additional file 1: of Leveraging genetically simple traits to identify small-effect variants for complex phenotypes

K. Kemper (3511319)
M. Littlejohn (3511313)
T. Lopdell (3511301)
B. Hayes (3511316)
L. Bennett (3511307)
R. Williams (3511298)
X. Xu (771131)
P. Visscher (3511304)
M. Carrick (3511310)
M. Goddard (3486104)

November 2016

Supplementary Materials. This document contains supplementary Tables S1-S5 and supplementary Figures...

Additional file 1: of MUFFINN: cancer gene discovery via network analysis of somatic mutation data

Ara Cho (1736176)
Jung Shim (3418757)
Eiru Kim (707696)
Fran Supek (105927)
Ben Lehner (4828)
Insuk Lee (41276)

June 2016

Supplementary online information including supplementary Figures S1âS9 and supplementary Table S1....

Additional file 2: Supplementary Methods. of Discovery of rare, diagnostic AluYb8/9 elements in diverse human populations

Julie Feusier (849813)
David Witherspoon (516992)
W. Scott Watkins (231406)
ClĂŠment Goubert (4283176)
Thomas Sasani (4283173)
Lynn Jorde (4041458)

July 2017

This file contains supplementary methods that contain the improved ME-Scan protocol (DOCX 29 kb

Additional file 2: of A database of human genes and a gene network involved in response to tick-borne encephalitis virus infection

Elena Ignatieva (3600950)
Alexander Igoshin (4724925)
Nikolay Yudin (4724928)

December 2017

Supplementary data for creation of the interactive version of gene network in Cytoscape. (XGMML 224Â...

Additional file 1: Table S1. of A SNP panel for identification of DNA and RNA specimens

Soheil Yousefi (4798917)
Tooba Abbassi-Daloii (4798923)
Thirsa Kraaijenbrink (533093)
Martijn Vermaat (4798911)
Hailiang Mei (3404261)
Peter van ât Hof (4798929)
Maarten van Iterson (184364)
Daria Zhernakova (3404231)
Annique Claringbould (4798920)
Lude Franke (102406)
Leen ât Hart (4798932)
Roderick Slieker (3404279)
Amber van der Heijden (762756)
Peter de Knijff (266636)
Peter ât Hoen (3404264)

January 2018

Four biobanks (RNA-Seq) with number of different SNP positions and number of samples. (DOC 33 kb

Additional file 1 of Leveraging genomic diversity for discovery in an electronic health record linked biobank: the UCLA ATLAS Community Health Initiative

Abstract

Extracted data

Additional file 1 of Leveraging genomic diversity for discovery in an electronic health record linked biobank: the UCLA ATLAS Community Health Initiative

Abstract

Extracted data

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