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Canonical correlation analysis for multi-omics: Application to cross-cohort analysis

Autor: Tracy, Russell P., VanDenBerg, David J., Smith, Josh, Sofer, Tamar, Liu, Yongmei, Durda, Peter, Rich, Stephen S., Rotter, Jerome I., Kasela, Silva, Lappalainen, Tuuli, Love, Michael I., Gabriel, Stacey B., Chen, Jiawen, Cruz, Dan, Ardlie, Kristin, Taylor, Kent D., Gerszten, Robert E., Johnson, Craig W., Raffield, Laura M., Reiner, Alex P., Wilson, James G., Lange, Leslie A., Guo, Xiuqing, Cornell, Elaine, Aguet, François, Jiang, Min-Zhi, Li, Yun, NHLBI Trans-Omics for Precision Medicine (TOPMed) Consortium, TOPMed Analysis Working Group

Publikováno v: PLoS genetics, vol 19, iss 5

Integrative approaches that simultaneously model multi-omics data have gained increasing popularity because they provide holistic system biology views of multiple or all components in a biological system of interest. Canonical correlation analysis (C

Externí odkaz: https://explore.openaire.eu/search/publication?articleId=doi_dedup___::2ca6d05d269a11cb379f20ed059fdd4e
https://escholarship.org/uc/item/7k2980px

Assessing the contribution of rare genetic variants to phenotypes of chronic obstructive pulmonary disease using whole-genome sequence data

Autor: Kim, Wonji, Hecker, Julian, Barr, R Graham, Boerwinkle, Eric, Cade, Brian, Correa, Adolfo, Dupuis, Josée, Gharib, Sina A, Lange, Leslie, London, Stephanie J, Morrison, Alanna C, O'Connor, George T, Oelsner, Elizabeth C, Psaty, Bruce M, Vasan, Ramachandran S, Redline, Susan, Rich, Stephen S, Rotter, Jerome I, Yu, Bing, Lange, Christoph, Manichaikul, Ani, Zhou, Jin J, Sofer, Tamar, Silverman, Edwin K, Qiao, Dandi, Cho, Michael H, NHLBI Trans-Omics in Precision Medicine (TOPMed) Consortium and TOPMed Lung Working Group

Publikováno v: Human molecular genetics, vol 31, iss 22

RationaleGenetic variation has a substantial contribution to chronic obstructive pulmonary disease (COPD) and lung function measurements. Heritability estimates using genome-wide genotyping data can be biased if analyses do not appropriately account

Externí odkaz: https://explore.openaire.eu/search/publication?articleId=od_______325::7161dfbf3310842285a22c0bb68622a9
https://escholarship.org/uc/item/519186vh

Whole Genome Sequence Analysis of the Plasma Proteome in Black Adults Provides Novel Insights Into Cardiovascular Disease

Autor: Daniel H. Katz, Usman A. Tahir, Alexander G. Bick, Akhil Pampana, Debby Ngo, Mark D. Benson, Zhi Yu, Jeremy M. Robbins, Zsu-Zsu Chen, Daniel E. Cruz, Shuliang Deng, Laurie Farrell, Sumita Sinha, Alec A. Schmaier, Dongxiao Shen, Yan Gao, Michael E. Hall, Adolfo Correa, Russell P. Tracy, Peter Durda, Kent D. Taylor, Yongmei Liu, W. Craig Johnson, Xiuqing Guo, Jie Yao, Yii-Der Ida Chen, Ani W. Manichaikul, Deepti Jain, Claude Bouchard, Mark A. Sarzynski, Stephen S. Rich, Jerome I. Rotter, Thomas J. Wang, James G. Wilson, Pradeep Natarajan, Robert E. Gerszten, Namiko Abe, Gonçalo Abecasis, Francois Aguet, Christine Albert, Laura Almasy, Alvaro Alonso, Seth Ament, Peter Anderson, Pramod Anugu, Deborah Applebaum-Bowden, Kristin Ardlie, Dan Arking, Donna K. Arnett, Allison Ashley-Koch, Stella Aslibekyan, Tim Assimes, Paul Auer, Dimitrios Avramopoulos, Najib Ayas, Adithya Balasubramanian, John Barnard, Kathleen Barnes, R. Graham Barr, Emily Barron-Casella, Lucas Barwick, Terri Beaty, Gerald Beck, Diane Becker, Lewis Becker, Rebecca Beer, Amber Beitelshees, Emelia Benjamin, Takis Benos, Marcos Bezerra, Larry Bielak, Joshua Bis, Thomas Blackwell, John Blangero, Eric Boerwinkle, Donald W. Bowden, Russell Bowler, Jennifer Brody, Ulrich Broeckel, Jai Broome, Deborah Brown, Karen Bunting, Esteban Burchard, Carlos Bustamante, Erin Buth, Brian Cade, Jonathan Cardwell, Vincent Carey, Julie Carrier, April Carson, Cara Carty, Richard Casaburi, Juan P. Casas Romero, James Casella, Peter Castaldi, Mark Chaffin, Christy Chang, Yi-Cheng Chang, Daniel Chasman, Sameer Chavan, Bo-Juen Chen, Wei-Min Chen, Michael Cho, Seung Hoan Choi, Lee-Ming Chuang, Mina Chung, Ren-Hua Chung, Clary Clish, Suzy Comhair, Matthew Conomos, Elaine Cornell, Carolyn Crandall, James Crapo, L. Adrienne Cupples, Joanne Curran, Jeffrey Curtis, Brian Custer, Coleen Damcott, Dawood Darbar, Sean David, Colleen Davis, Michelle Daya, Mariza de Andrade, Lisa de las Fuentes, Paul de Vries, Michael DeBaun, Ranjan Deka, Dawn DeMeo, Scott Devine, Huyen Dinh, Harsha Doddapaneni, Qing Duan, Shannon Dugan-Perez, Ravi Duggirala, Jon Peter Durda, Susan K. Dutcher, Charles Eaton, Lynette Ekunwe, Adel El Boueiz, Patrick Ellinor, Leslie Emery, Serpil Erzurum, Charles Farber, Jesse Farek, Tasha Fingerlin, Matthew Flickinger, Myriam Fornage, Nora Franceschini, Chris Frazar, Mao Fu, Stephanie M. Fullerton, Lucinda Fulton, Stacey Gabriel, Weiniu Gan, Shanshan Gao, Margery Gass, Heather Geiger, Bruce Gelb, Mark Geraci, Soren Germer, Robert Gerszten, Auyon Ghosh, Richard Gibbs, Chris Gignoux, Mark Gladwin, David Glahn, Stephanie Gogarten, Da-Wei Gong, Harald Goring, Sharon Graw, Kathryn J. Gray, Daniel Grine, Colin Gross, C. Charles Gu, Yue Guan, Namrata Gupta, David M. Haas, Jeff Haessler, Michael Hall, Yi Han, Patrick Hanly, Daniel Harris, Nicola L. Hawley, Jiang He, Ben Heavner, Susan Heckbert, Ryan Hernandez, David Herrington, Craig Hersh, Bertha Hidalgo, James Hixson, Brian Hobbs, John Hokanson, Elliott Hong, Karin Hoth, Chao (Agnes) Hsiung, Jianhong Hu, Yi-Jen Hung, Haley Huston, Chii Min Hwu, Marguerite Ryan Irvin, Rebecca Jackson, Cashell Jaquish, Jill Johnsen, Andrew Johnson, Craig Johnson, Rich Johnston, Kimberly Jones, Hyun Min Kang, Robert Kaplan, Sharon Kardia, Shannon Kelly, Eimear Kenny, Michael Kessler, Alyna Khan, Ziad Khan, Wonji Kim, John Kimoff, Greg Kinney, Barbara Konkle, Charles Kooperberg, Holly Kramer, Christoph Lange, Ethan Lange, Leslie Lange, Cathy Laurie, Cecelia Laurie, Meryl LeBoff, Jiwon Lee, Sandra Lee, Wen-Jane Lee, Jonathon LeFaive, David Levine, Dan Levy, Joshua Lewis, Xiaohui Li, Yun Li, Henry Lin, Honghuang Lin, Xihong Lin, Simin Liu, Yu Liu, Ruth J.F. Loos, Steven Lubitz, Kathryn Lunetta, James Luo, Ulysses Magalang, Michael Mahaney, Barry Make, Ani Manichaikul, Alisa Manning, JoAnn Manson, Lisa Martin, Melissa Marton, Susan Mathai, Rasika Mathias, Susanne May, Patrick McArdle, Merry-Lynn McDonald, Sean McFarland, Stephen McGarvey, Daniel McGoldrick, Caitlin McHugh, Becky McNeil, Hao Mei, James Meigs, Vipin Menon, Luisa Mestroni, Ginger Metcalf, Deborah A. Meyers, Emmanuel Mignot, Julie Mikulla, Nancy Min, Mollie Minear, Ryan L. Minster, Braxton D. Mitchell, Matt Moll, Zeineen Momin, May E. Montasser, Courtney Montgomery, Donna Muzny, Josyf C. Mychaleckyj, Girish Nadkarni, Rakhi Naik, Take Naseri, Sergei Nekhai, Sarah C. Nelson, Bonnie Neltner, Caitlin Nessner, Deborah Nickerson, Osuji Nkechinyere, Kari North, Jeff O’Connell, Tim O’Connor, Heather Ochs-Balcom, Geoffrey Okwuonu, Allan Pack, David T. Paik, Nicholette Palmer, James Pankow, George Papanicolaou, Cora Parker, Gina Peloso, Juan Manuel Peralta, Marco Perez, James Perry, Ulrike Peters, Patricia Peyser, Lawrence S. Phillips, Jacob Pleiness, Toni Pollin, Wendy Post, Julia Powers Becker, Meher Preethi Boorgula, Michael Preuss, Bruce Psaty, Pankaj Qasba, Dandi Qiao, Zhaohui Qin, Nicholas Rafaels, Laura Raffield, Mahitha Rajendran, Vasan S. Ramachandran, D.C. Rao, Laura Rasmussen-Torvik, Aakrosh Ratan, Susan Redline, Robert Reed, Catherine Reeves, Elizabeth Regan, Alex Reiner, Muagututi’a Sefuiva Reupena, Ken Rice, Stephen Rich, Rebecca Robillard, Nicolas Robine, Dan Roden, Carolina Roselli, Jerome Rotter, Ingo Ruczinski, Alexi Runnels, Pamela Russell, Sarah Ruuska, Kathleen Ryan, Ester Cerdeira Sabino, Danish Saleheen, Shabnam Salimi, Sejal Salvi, Steven Salzberg, Kevin Sandow, Vijay G. Sankaran, Jireh Santibanez, Karen Schwander, David Schwartz, Frank Sciurba, Christine Seidman, Jonathan Seidman, Frédéric Sériès, Vivien Sheehan, Stephanie L. Sherman, Amol Shetty, Aniket Shetty, Wayne Hui-Heng Sheu, M. Benjamin Shoemaker, Brian Silver, Edwin Silverman, Robert Skomro, Albert Vernon Smith, Jennifer Smith, Josh Smith, Nicholas Smith, Tanja Smith, Sylvia Smoller, Beverly Snively, Michael Snyder, Tamar Sofer, Nona Sotoodehnia, Adrienne M. Stilp, Garrett Storm, Elizabeth Streeten, Jessica Lasky Su, Yun Ju Sung, Jody Sylvia, Adam Szpiro, Daniel Taliun, Hua Tang, Margaret Taub, Matthew Taylor, Simeon Taylor, Marilyn Telen, Timothy A. Thornton, Machiko Threlkeld, Lesley Tinker, David Tirschwell, Sarah Tishkoff, Hemant Tiwari, Catherine Tong, Russell Tracy, Michael Tsai, Dhananjay Vaidya, David Van Den Berg, Peter VandeHaar, Scott Vrieze, Tarik Walker, Robert Wallace, Avram Walts, Fei Fei Wang, Heming Wang, Jiongming Wang, Karol Watson, Jennifer Watt, Daniel E. Weeks, Joshua Weinstock, Bruce Weir, Scott T. Weiss, Lu-Chen Weng, Jennifer Wessel, Cristen Willer, Kayleen Williams, L. Keoki Williams, Carla Wilson, James Wilson, Lara Winterkorn, Quenna Wong, Joseph Wu, Huichun Xu, Lisa Yanek, Ivana Yang, Ketian Yu, Seyedeh Maryam Zekavat, Yingze Zhang, Snow Xueyan Zhao, Wei Zhao, Xiaofeng Zhu, Michael Zody, Sebastian Zoellner

Publikováno v: Circulation
Circulation, vol 145, iss 5

Background: Plasma proteins are critical mediators of cardiovascular processes and are the targets of many drugs. Previous efforts to characterize the genetic architecture of the plasma proteome have been limited by a focus on individuals of European

Externí odkaz: https://explore.openaire.eu/search/publication?articleId=doi_dedup___::027a08b8289f9240dc2b3558b0b20fd1
https://doi.org/10.1161/circulationaha.121.055117

The power of TOPMed imputation for the discovery of Latino-enriched rare variants associated with type 2 diabetes

Autor: Huerta-Chagoya, Alicia, Schroeder, Philip, Mandla, Ravi, Deutsch, Aaron J., Zhu, Wanying, Petty, Lauren, Yi, Xiaoyan, Cole, Joanne B., Udler, Miriam S., Dornbos, Peter, Porneala, Bianca, DiCorpo, Daniel, Liu, Ching Ti, Li, Josephine H., Szczerbiński, Lukasz, Kaur, Varinderpal, Kim, Joohyun, Lu, Yingchang, Martin, Alicia, Eizirik, Decio L., Marchetti, Piero, Marselli, Lorella, Chen, Ling, Srinivasan, Shylaja, Todd, Jennifer, Flannick, Jason, Gubitosi-Klug, Rose, Levitsky, Lynne, Shah, Rachana, Kelsey, Megan, Burke, Brian, Dabelea, Dana M., Divers, Jasmin, Marcovina, Santica, Stalbow, Lauren, Loos, Ruth J.F., Darst, Burcu F., Kooperberg, Charles, Raffield, Laura M., Haiman, Christopher, Sun, Quan, McCormick, Joseph B., Fisher-Hoch, Susan P., Ordoñez, Maria L., Meigs, James, Baier, Leslie J., González-Villalpando, Clicerio, González-Villalpando, Maria Elena, Orozco, Lorena, García-García, Lourdes

Publikováno v: Huerta-Chagoya, A, Schroeder, P, Mandla, R, Deutsch, A J, Zhu, W, Petty, L, Yi, X, Cole, J B, Udler, M S, Dornbos, P, Porneala, B, DiCorpo, D, Liu, C T, Li, J H, Szczerbiński, L, Kaur, V, Kim, J, Lu, Y, Martin, A, Eizirik, D L, Marchetti, P, Marselli, L, Chen, L, Srinivasan, S, Todd, J, Flannick, J, Gubitosi-Klug, R, Levitsky, L, Shah, R, Kelsey, M, Burke, B, Dabelea, D M, Divers, J, Marcovina, S, Stalbow, L, Loos, R J F, Darst, B F, Kooperberg, C, Raffield, L M, Haiman, C, Sun, Q, McCormick, J B, Fisher-Hoch, S P, Ordoñez, M L, Meigs, J, Baier, L J, González-Villalpando, C, González-Villalpando, M E, Orozco, L, García-García, L & Mexican Biobank 2023, ' The power of TOPMed imputation for the discovery of Latino-enriched rare variants associated with type 2 diabetes ', Diabetologia, vol. 66, pp. 1273-1288 . https://doi.org/10.1007/s00125-023-05912-9

Aims/hypothesis: The Latino population has been systematically underrepresented in large-scale genetic analyses, and previous studies have relied on the imputation of ungenotyped variants based on the 1000 Genomes (1000G) imputation panel, which resu

Externí odkaz: https://explore.openaire.eu/search/publication?articleId=od______2751::77edfc8430d20d058c77d3c8175249c2
https://curis.ku.dk/portal/da/publications/the-power-of-topmed-imputation-for-the-discovery-of-latinoenriched-rare-variants-associated-with-type-2-diabetes(c5232ffc-52a1-46e8-ba1c-d15b43642df3).html