Additional file 2: of Investigation of multi-trait associations using pathway-based analysis of GWAS summary statistics

Additional file 1 of Identification of genetic variants that impact gene co-expression relationships using large-scale single-cell data

Li, Shuang
Schmid, Katharina T.
de Vries, Dylan H.
Korshevniuk, Maryna
Losert, Corinna
Oelen, Roy
van Blokland, Irene V.
Groot, Hilde E.
Swertz, Morris A.
van der Harst, Pim
Westra, Harm-Jan
van der Wijst, Monique G.P.
Heinig, Matthias
Franke, Lude
Faculteit Medische Wetenschappen/UMCG
University of Groningen
Wellcome Sanger Institute
University Medical Center Groningen
Institute of Epidemiology 2
Technical University of Munich
Arctic Centre, Univ. of Groningen
University Medical Center Utrecht
DZHK (German Centre for Cardiovascular Research), Partner site Greifswald

January 2023

Additional file 1: Supplementary Tables. Collection of small supplementary tables (S1-2,4-5,7-8,11-1...

Additional file 1 of Identification of genetic variants that impact gene co-expression relationships using large-scale single-cell data

Li, Shuang
Schmid, Katharina T.
de Vries, Dylan H.
Korshevniuk, Maryna
Losert, Corinna
Oelen, Roy
van Blokland, Irene V.
Groot, Hilde E.
Swertz, Morris A.
van der Harst, Pim
Westra, Harm-Jan
van der Wijst, Monique G.P.
Heinig, Matthias
Franke, Lude
Faculteit Medische Wetenschappen/UMCG
Wellcome Sanger Institute
Arctic Centre, Univ. of Groningen
University Medical Center Groningen
Institute of Epidemiology 2
Technical University of Munich
University of Groningen
University Medical Center Utrecht
DZHK (German Centre for Cardiovascular Research), Partner site Greifswald

January 2023

Additional file 1: Supplementary Tables. Collection of small supplementary tables (S1-2,4-5,7-8,11-1...

Additional file 1: Table S1. of Identification of expression patterns in the progression of disease stages by integration of transcriptomic data

Sara Aibar (3430913)
Maria Abaigar (3430910)
Francisco Campos-Laborie (3430919)
Jose SĂĄnchez-Santos (3430922)
Jesus Hernandez-Rivas (3430916)
Javier De Las Rivas (19407)

November 2016

Significant genes found in the patterns associated to the progression of MDS: A total set of 189 gen...

Additional file 5: of Investigation of multi-trait associations using pathway-based analysis of GWAS summary statistics

Guangsheng Pei (1700008)
Hua Sun (406210)
Yulin Dai (6112958)
Xiaoming Liu (47653)
Zhongming Zhao (40519)
Peilin Jia (36888)

February 2019

Figure S2. Heatmap showing the 20 most significant pathways for each trait group. (PDF 539 kb

Additional file 3: of Investigation of multi-trait associations using pathway-based analysis of GWAS summary statistics

Guangsheng Pei (1700008)
Hua Sun (406210)
Yulin Dai (6112958)
Xiaoming Liu (47653)
Zhongming Zhao (40519)
Peilin Jia (36888)

February 2019

Figure S1. Hierarchical clustering analysis for all associated pathways between 25 traits. (PDF 85 k...

Additional file 1: Table S1. of Predicting gene targets from integrative analyses of summary data from GWAS and eQTL studies for 28 human complex traits

Jennifer Pavlides (3449879)
Zhihong Zhu (227325)
Jacob Gratten (3300798)
Allan McRae (3400103)
Naomi Wray (3449882)
Jian Yang (12136)

August 2016

GWAS information. Table S2. SMR results (P SMR <8.4 × 10–6). Table S3. SMR and HEIDI results (P HEID...

Additional file 1: of Integrated genome-wide analysis of expression quantitative trait loci aids interpretation of genomic association studies

Roby Joehanes (560601)
Xiaoling Zhang (420384)
Tianxiao Huan (599733)
Chen Yao (137375)
Sai-xia Ying (705056)
Quang Nguyen (565637)
Cumhur Demirkale (3695884)
Michael Feolo (264871)
Nataliya Sharopova (3695872)
Anne Sturcke (3695869)
Alejandro SchĂ¤ffer (3412292)
Nancy Heard-Costa (165368)
Han Chen (228557)
Po-ching Liu (3695875)
Richard Wang (84158)
Kimberly Woodhouse (402116)
Kahraman Tanriverdi (100180)
Jane Freedman (3695881)
Nalini Raghavachari (41488)
JosĂŠe Dupuis (3503084)
Andrew Johnson (29446)
Christopher OâDonnell (3695890)
Daniel Levy (51573)
Peter Munson (3695878)

January 2017

Supplementary Materials, including nine figures, Supplementary Methods, and 12 tables. (PDF 1844 kb

Additional file 2: Table S1. of Collaborative cross mice in a genetic association study reveal new candidate genes for bone microarchitecture

Roei Levy (3479921)
Richard Mott (1705)
Fuad Iraqi (237899)
Yankel Gabet (264402)

November 2015

Trait means. Table S2. Trait correlations. Table S3. Candidate genes. (XLSX 17Â kb

Additional file 3: Table S2. of A new statistical framework for genetic pleiotropic analysis of high dimensional phenotype data

Panpan Wang (228835)
Mohammad Rahman (2386750)
Li Jin (40265)
Momiao Xiong (86978)

November 2016

P-values for the path coefficient, mariginal effects of single trait and multiple traits, and minimu...

Additional file 3 of Multi-locus genome-wide association studies for five yield-related traits in rice

Hua Zhong (1421908)
Shuai Liu (145969)
Tong Sun (1564231)
Weilong Kong (6454502)
Xiaoxiao Deng (4383715)
Zhaohua Peng (202922)
Yangsheng Li (11257514)

August 2021

Additional file 3: Table S1. Statistical analysis of five rice yield-related traits

Additional file 1: of Developing a network view of type 2 diabetes risk pathways through integration of genetic, genomic and functional data

Juan Fernรกndez-Tajes (6517679)
Kyle Gaulton (497560)
Martijn Bunt (6517658)
Jason Torres (6517661)
Matthias Thurner (6517664)
Anubha Mahajan (206768)
Anna Gloyn (3810184)
Kasper Lage (42180)
Mark McCarthy (157523)

March 2019

Table S1. 101 loci and candidate genes by loci used to calculate the positional candidacy score (PCS...

Additional file 1 of Identifying genes associated with brain volumetric differences through tissue specific transcriptomic inference from GWAS summary data

Hung Mai (13880416)
Jingxuan Bao (12572594)
Paul M. Thompson (135650)
Dokyoon Kim (1408678)
Li Shen (9923483)

September 2022

Additional file 1: This file contains the following supplementary tables. Supplemental Table S1a. Ge...

Additional file 2: of Genome-wide association study meta-analysis identifies five new loci for systemic lupus erythematosus

Antonio Julià (258036)
Francisco López-Longo (5319911)
José Pérez Venegas (5319926)
Silvia Bonàs-Guarch (5319914)
Àlex Olivé (4113565)
José Andreu (4113532)
Mª. Aguirre-Zamorano (5319920)
Paloma Vela (4113541)
Joan Nolla (4113535)
José de la Fuente (35632)
Antonio Zea (4113526)
José Pego-Reigosa (5319908)
Mercedes Freire (4113562)
Elvira Díez (4113550)
Esther Rodríguez-Almaraz (5319905)
Patricia Carreira (134693)
Ricardo Blanco (118684)
Víctor Taboada (5319923)
María López-Lasanta (4113538)
Mireia Corbeto (5319917)
Josep Mercader (246585)
David Torrents (17960)
Devin Absher (217357)
Sara Marsal (258049)
Antonio Fernández-Nebro (717848)

May 2018

Table S3. Association results for the 52 previously known SLE risk loci in the Spain GWAS. Table S4....

Additional file 1 of Identification of genetic variants that impact gene co-expression relationships using large-scale single-cell data

Li, Shuang
Schmid, Katharina T.
de Vries, Dylan H.
Korshevniuk, Maryna
Losert, Corinna
Oelen, Roy
van Blokland, Irene V.
Groot, Hilde E.
Swertz, Morris A.
van der Harst, Pim
Westra, Harm-Jan
van der Wijst, Monique G.P.
Heinig, Matthias
Franke, Lude
Faculteit Medische Wetenschappen/UMCG
Wellcome Sanger Institute
Arctic Centre, Univ. of Groningen
University Medical Center Groningen
Institute of Epidemiology 2
Technical University of Munich
University of Groningen
University Medical Center Utrecht
DZHK (German Centre for Cardiovascular Research), Partner site Greifswald

January 2023

Additional file 1: Supplementary Tables. Collection of small supplementary tables (S1-2,4-5,7-8,11-1...

Additional file 1 of Identification of genetic variants that impact gene co-expression relationships using large-scale single-cell data

Li, Shuang
Schmid, Katharina T.
de Vries, Dylan H.
Korshevniuk, Maryna
Losert, Corinna
Oelen, Roy
van Blokland, Irene V.
Groot, Hilde E.
Swertz, Morris A.
van der Harst, Pim
Westra, Harm-Jan
van der Wijst, Monique G.P.
Heinig, Matthias
Franke, Lude
Faculteit Medische Wetenschappen/UMCG
University of Groningen
Wellcome Sanger Institute
University Medical Center Groningen
Institute of Epidemiology 2
Technical University of Munich
Arctic Centre, Univ. of Groningen
University Medical Center Utrecht
DZHK (German Centre for Cardiovascular Research), Partner site Greifswald

January 2023

Additional file 1: Supplementary Tables. Collection of small supplementary tables (S1-2,4-5,7-8,11-1...

Additional file 1 of Identification of genetic variants that impact gene co-expression relationships using large-scale single-cell data

Li, Shuang
Schmid, Katharina T.
de Vries, Dylan H.
Korshevniuk, Maryna
Losert, Corinna
Oelen, Roy
van Blokland, Irene V.
Groot, Hilde E.
Swertz, Morris A.
van der Harst, Pim
Westra, Harm-Jan
van der Wijst, Monique G.P.
Heinig, Matthias
Franke, Lude
Faculteit Medische Wetenschappen/UMCG
University of Groningen
Wellcome Sanger Institute
University Medical Center Groningen
Institute of Epidemiology 2
Technical University of Munich
Arctic Centre, Univ. of Groningen
University Medical Center Utrecht
DZHK (German Centre for Cardiovascular Research), Partner site Greifswald

January 2023

Additional file 1: Supplementary Tables. Collection of small supplementary tables (S1-2,4-5,7-8,11-1...

Additional file 1 of Identification of genetic variants that impact gene co-expression relationships using large-scale single-cell data

Li, Shuang
Schmid, Katharina T.
de Vries, Dylan H.
Korshevniuk, Maryna
Losert, Corinna
Oelen, Roy
van Blokland, Irene V.
Groot, Hilde E.
Swertz, Morris A.
van der Harst, Pim
Westra, Harm-Jan
van der Wijst, Monique G.P.
Heinig, Matthias
Franke, Lude
Faculteit Medische Wetenschappen/UMCG
Wellcome Sanger Institute
Arctic Centre, Univ. of Groningen
University Medical Center Groningen
Institute of Epidemiology 2
Technical University of Munich
University of Groningen
University Medical Center Utrecht
DZHK (German Centre for Cardiovascular Research), Partner site Greifswald

January 2023

Additional file 1: Supplementary Tables. Collection of small supplementary tables (S1-2,4-5,7-8,11-1...

Additional file 1: Table S1. of Identification of expression patterns in the progression of disease stages by integration of transcriptomic data

Sara Aibar (3430913)
Maria Abaigar (3430910)
Francisco Campos-Laborie (3430919)
Jose SĂĄnchez-Santos (3430922)
Jesus Hernandez-Rivas (3430916)
Javier De Las Rivas (19407)

November 2016

Significant genes found in the patterns associated to the progression of MDS: A total set of 189 gen...

Additional file 5: of Investigation of multi-trait associations using pathway-based analysis of GWAS summary statistics

Guangsheng Pei (1700008)
Hua Sun (406210)
Yulin Dai (6112958)
Xiaoming Liu (47653)
Zhongming Zhao (40519)
Peilin Jia (36888)

February 2019

Figure S2. Heatmap showing the 20 most significant pathways for each trait group. (PDF 539 kb

Additional file 3: of Investigation of multi-trait associations using pathway-based analysis of GWAS summary statistics

Guangsheng Pei (1700008)
Hua Sun (406210)
Yulin Dai (6112958)
Xiaoming Liu (47653)
Zhongming Zhao (40519)
Peilin Jia (36888)

February 2019

Figure S1. Hierarchical clustering analysis for all associated pathways between 25 traits. (PDF 85 k...

Additional file 1: Table S1. of Predicting gene targets from integrative analyses of summary data from GWAS and eQTL studies for 28 human complex traits

Jennifer Pavlides (3449879)
Zhihong Zhu (227325)
Jacob Gratten (3300798)
Allan McRae (3400103)
Naomi Wray (3449882)
Jian Yang (12136)

August 2016

GWAS information. Table S2. SMR results (P SMR <8.4 × 10–6). Table S3. SMR and HEIDI results (P HEID...

Additional file 1: of Integrated genome-wide analysis of expression quantitative trait loci aids interpretation of genomic association studies

Roby Joehanes (560601)
Xiaoling Zhang (420384)
Tianxiao Huan (599733)
Chen Yao (137375)
Sai-xia Ying (705056)
Quang Nguyen (565637)
Cumhur Demirkale (3695884)
Michael Feolo (264871)
Nataliya Sharopova (3695872)
Anne Sturcke (3695869)
Alejandro SchĂ¤ffer (3412292)
Nancy Heard-Costa (165368)
Han Chen (228557)
Po-ching Liu (3695875)
Richard Wang (84158)
Kimberly Woodhouse (402116)
Kahraman Tanriverdi (100180)
Jane Freedman (3695881)
Nalini Raghavachari (41488)
JosĂŠe Dupuis (3503084)
Andrew Johnson (29446)
Christopher OâDonnell (3695890)
Daniel Levy (51573)
Peter Munson (3695878)

January 2017

Supplementary Materials, including nine figures, Supplementary Methods, and 12 tables. (PDF 1844 kb

Additional file 2: Table S1. of Collaborative cross mice in a genetic association study reveal new candidate genes for bone microarchitecture

Roei Levy (3479921)
Richard Mott (1705)
Fuad Iraqi (237899)
Yankel Gabet (264402)

November 2015

Trait means. Table S2. Trait correlations. Table S3. Candidate genes. (XLSX 17Â kb

Additional file 3: Table S2. of A new statistical framework for genetic pleiotropic analysis of high dimensional phenotype data

Panpan Wang (228835)
Mohammad Rahman (2386750)
Li Jin (40265)
Momiao Xiong (86978)

November 2016

P-values for the path coefficient, mariginal effects of single trait and multiple traits, and minimu...

Additional file 3 of Multi-locus genome-wide association studies for five yield-related traits in rice

Hua Zhong (1421908)
Shuai Liu (145969)
Tong Sun (1564231)
Weilong Kong (6454502)
Xiaoxiao Deng (4383715)
Zhaohua Peng (202922)
Yangsheng Li (11257514)

August 2021

Additional file 3: Table S1. Statistical analysis of five rice yield-related traits

Additional file 1: of Developing a network view of type 2 diabetes risk pathways through integration of genetic, genomic and functional data

Juan Fernรกndez-Tajes (6517679)
Kyle Gaulton (497560)
Martijn Bunt (6517658)
Jason Torres (6517661)
Matthias Thurner (6517664)
Anubha Mahajan (206768)
Anna Gloyn (3810184)
Kasper Lage (42180)
Mark McCarthy (157523)

March 2019

Table S1. 101 loci and candidate genes by loci used to calculate the positional candidacy score (PCS...

Additional file 1 of Identifying genes associated with brain volumetric differences through tissue specific transcriptomic inference from GWAS summary data

Hung Mai (13880416)
Jingxuan Bao (12572594)
Paul M. Thompson (135650)
Dokyoon Kim (1408678)
Li Shen (9923483)

September 2022

Additional file 1: This file contains the following supplementary tables. Supplemental Table S1a. Ge...

Additional file 2: of Genome-wide association study meta-analysis identifies five new loci for systemic lupus erythematosus

Antonio Julià (258036)
Francisco López-Longo (5319911)
José Pérez Venegas (5319926)
Silvia Bonàs-Guarch (5319914)
Àlex Olivé (4113565)
José Andreu (4113532)
Mª. Aguirre-Zamorano (5319920)
Paloma Vela (4113541)
Joan Nolla (4113535)
José de la Fuente (35632)
Antonio Zea (4113526)
José Pego-Reigosa (5319908)
Mercedes Freire (4113562)
Elvira Díez (4113550)
Esther Rodríguez-Almaraz (5319905)
Patricia Carreira (134693)
Ricardo Blanco (118684)
Víctor Taboada (5319923)
María López-Lasanta (4113538)
Mireia Corbeto (5319917)
Josep Mercader (246585)
David Torrents (17960)
Devin Absher (217357)
Sara Marsal (258049)
Antonio Fernández-Nebro (717848)

May 2018

Table S3. Association results for the 52 previously known SLE risk loci in the Spain GWAS. Table S4....

Additional file 1 of Identification of genetic variants that impact gene co-expression relationships using large-scale single-cell data

Li, Shuang
Schmid, Katharina T.
de Vries, Dylan H.
Korshevniuk, Maryna
Losert, Corinna
Oelen, Roy
van Blokland, Irene V.
Groot, Hilde E.
Swertz, Morris A.
van der Harst, Pim
Westra, Harm-Jan
van der Wijst, Monique G.P.
Heinig, Matthias
Franke, Lude
Faculteit Medische Wetenschappen/UMCG
Wellcome Sanger Institute
Arctic Centre, Univ. of Groningen
University Medical Center Groningen
Institute of Epidemiology 2
Technical University of Munich
University of Groningen
University Medical Center Utrecht
DZHK (German Centre for Cardiovascular Research), Partner site Greifswald

January 2023

Additional file 1: Supplementary Tables. Collection of small supplementary tables (S1-2,4-5,7-8,11-1...

Additional file 1 of Identification of genetic variants that impact gene co-expression relationships using large-scale single-cell data

Li, Shuang
Schmid, Katharina T.
de Vries, Dylan H.
Korshevniuk, Maryna
Losert, Corinna
Oelen, Roy
van Blokland, Irene V.
Groot, Hilde E.
Swertz, Morris A.
van der Harst, Pim
Westra, Harm-Jan
van der Wijst, Monique G.P.
Heinig, Matthias
Franke, Lude
Faculteit Medische Wetenschappen/UMCG
University of Groningen
Wellcome Sanger Institute
University Medical Center Groningen
Institute of Epidemiology 2
Technical University of Munich
Arctic Centre, Univ. of Groningen
University Medical Center Utrecht
DZHK (German Centre for Cardiovascular Research), Partner site Greifswald

January 2023

Additional file 1: Supplementary Tables. Collection of small supplementary tables (S1-2,4-5,7-8,11-1...

Additional file 1 of Identification of genetic variants that impact gene co-expression relationships using large-scale single-cell data

Li, Shuang
Schmid, Katharina T.
de Vries, Dylan H.
Korshevniuk, Maryna
Losert, Corinna
Oelen, Roy
van Blokland, Irene V.
Groot, Hilde E.
Swertz, Morris A.
van der Harst, Pim
Westra, Harm-Jan
van der Wijst, Monique G.P.
Heinig, Matthias
Franke, Lude
Faculteit Medische Wetenschappen/UMCG
University of Groningen
Wellcome Sanger Institute
University Medical Center Groningen
Institute of Epidemiology 2
Technical University of Munich
Arctic Centre, Univ. of Groningen
University Medical Center Utrecht
DZHK (German Centre for Cardiovascular Research), Partner site Greifswald

January 2023

Additional file 1: Supplementary Tables. Collection of small supplementary tables (S1-2,4-5,7-8,11-1...

Additional file 1 of Identification of genetic variants that impact gene co-expression relationships using large-scale single-cell data

Li, Shuang
Schmid, Katharina T.
de Vries, Dylan H.
Korshevniuk, Maryna
Losert, Corinna
Oelen, Roy
van Blokland, Irene V.
Groot, Hilde E.
Swertz, Morris A.
van der Harst, Pim
Westra, Harm-Jan
van der Wijst, Monique G.P.
Heinig, Matthias
Franke, Lude
Faculteit Medische Wetenschappen/UMCG
Wellcome Sanger Institute
Arctic Centre, Univ. of Groningen
University Medical Center Groningen
Institute of Epidemiology 2
Technical University of Munich
University of Groningen
University Medical Center Utrecht
DZHK (German Centre for Cardiovascular Research), Partner site Greifswald

January 2023

Additional file 1: Supplementary Tables. Collection of small supplementary tables (S1-2,4-5,7-8,11-1...

Additional file 1: Table S1. of Identification of expression patterns in the progression of disease stages by integration of transcriptomic data

Sara Aibar (3430913)
Maria Abaigar (3430910)
Francisco Campos-Laborie (3430919)
Jose SĂĄnchez-Santos (3430922)
Jesus Hernandez-Rivas (3430916)
Javier De Las Rivas (19407)

November 2016

Significant genes found in the patterns associated to the progression of MDS: A total set of 189 gen...

Additional file 2: of Investigation of multi-trait associations using pathway-based analysis of GWAS summary statistics

Abstract

Extracted data

Additional file 2: of Investigation of multi-trait associations using pathway-based analysis of GWAS summary statistics

Abstract

Extracted data

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