Data from St. Jude Cloud: A Pediatric Cancer Genomic Data-Sharing Ecosystem

Autor: Jinghui Zhang, James R. Downing, Keith Perry, Richard Daly, Michael Rusch, Scott Newman, Geralyn Miller, Michael A. Dyer, Suzanne J. Baker, Charles G. Mullighan, Chaitanya Bangur, David W. Ellison, Kim E. Nichols, Yutaka Yasui, Leslie L. Robison, Gregory T. Armstrong, Mitchell J. Weiss, Ludmil B. Alexandrov, Soheil Meshinchi, Yong Cheng, Carmen L. Wilson, Zhaoming Wang, Alberto S. Pappo, Matthew Lear, James McMurry, Leigh Tanner, Ed Suh, Gang Wu, Lance E. Palmer, Xing Tang, Darrell Gentry, Nedra Robison, Irina McGuire, Omar Serang, Tuan Nguyen, Singer Ma, Vijay Kandali, Pamella Tater, Naina Thangaraj, Christopher Meyer, S.M. Ashiqul Islam, Shaohua Lei, Liqing Tian, Ti-Cheng Chang, Andrew M. Frantz, Mark R. Wilkinson, Michael N. Edmonson, Aman Patel, Xiaotu Ma, Yu Liu, J. Robert Michael, Shuoguo Wang, Edgar Sioson, Jian Wang, Scott Foy, Stephanie Wiggins, Andrew Swistak, Arthur Chiao, Tracy K. Ard, Bob Davidson, Madison Treadway, Brent A. Orr, Rahul Mudunuri, Jobin Sunny, David Finkelstein, Kirby Birch, Michael Macias, Samuel W. Brady, Delaram Rahbarinia, Andrew Thrasher, Xin Zhou, Alexander M. Gout, Clay McLeod

Effective data sharing is key to accelerating research to improve diagnostic precision, treatment efficacy, and long-term survival in pediatric cancer and other childhood catastrophic diseases. We present St. Jude Cloud (https://www.stjude.cloud), a

Externí odkaz: https://explore.openaire.eu/search/publication?articleId=doi_dedup___::295fe8106b2241e04d5ff533a5cfd3e5
https://doi.org/10.1158/2159-8290.c.6549434.v1

Antigen cross-presentation in young tumor-bearing hosts promotes CD8+T cell terminal differentiation

Autor: Ardiana Moustaki, Jeremy Chase Crawford, Shanta Alli, Yiping Fan, Shannon Boi, Anthony E. Zamora, Natalie M. N. McDonald, Gang Wu, Joy Nakitandwe, Scott Newman, Scott Foy, Antonina Silkov, Paul G. Thomas, Alberto Pappo, Michael A. Dyer, Elizabeth Stewart, Sara Federico, Ben Youngblood

Publikováno v: Science Immunology. 7

The immune system undergoes a progressive functional remodeling with age. Understanding how age bias shapes antitumor immunity is essential in designing effective immunotherapies, especially for pediatric patients. Here, we explore antitumor CD8+T ce

Externí odkaz: https://explore.openaire.eu/search/publication?articleId=doi_________::85d7de6e726fde5af0adc5f3824baf06
https://doi.org/10.1126/sciimmunol.abf6136

The genomic landscape of pediatric acute lymphoblastic leukemia

Autor: Samuel W. Brady, Kathryn G. Roberts, Zhaohui Gu, Lei Shi, Stanley Pounds, Deqing Pei, Cheng Cheng, Yunfeng Dai, Meenakshi Devidas, Chunxu Qu, Ashley N. Hill, Debbie Payne-Turner, Xiaotu Ma, Ilaria Iacobucci, Pradyuamna Baviskar, Lei Wei, Sasi Arunachalam, Kohei Hagiwara, Yanling Liu, Diane A. Flasch, Yu Liu, Matthew Parker, Xiaolong Chen, Abdelrahman H. Elsayed, Omkar Pathak, Yongjin Li, Yiping Fan, J. Robert Michael, Michael Rusch, Mark R. Wilkinson, Scott Foy, Dale J. Hedges, Scott Newman, Xin Zhou, Jian Wang, Colleen Reilly, Edgar Sioson, Stephen V. Rice, Victor Pastor Loyola, Gang Wu, Evadnie Rampersaud, Shalini C. Reshmi, Julie Gastier-Foster, Jaime M. Guidry Auvil, Patee Gesuwan, Malcolm A. Smith, Naomi Winick, Andrew J. Carroll, Nyla A. Heerema, Richard C. Harvey, Cheryl L. Willman, Eric Larsen, Elizabeth A. Raetz, Michael J. Borowitz, Brent L. Wood, William L. Carroll, Patrick A. Zweidler-McKay, Karen R. Rabin, Leonard A. Mattano, Kelly W. Maloney, Stuart S. Winter, Michael J. Burke, Wanda Salzer, Kimberly P. Dunsmore, Anne L. Angiolillo, Kristine R. Crews, James R. Downing, Sima Jeha, Ching-Hon Pui, William E. Evans, Jun J. Yang, Mary V. Relling, Daniela S. Gerhard, Mignon L. Loh, Stephen P. Hunger, Jinghui Zhang, Charles G. Mullighan

Publikováno v: Nat Genet

Acute lymphoblastic leukemia (ALL) is the most common childhood cancer. Here, using whole-genome, exome and transcriptome sequencing of 2,754 childhood patients with ALL, we find that, despite a generally low mutation burden, ALL cases harbor a media

Externí odkaz: https://explore.openaire.eu/search/publication?articleId=doi_dedup___::da28edb235a257ae47b26e5df446208d
https://pubmed.ncbi.nlm.nih.gov/36050548

Units: Universal True SDSA (Structure-Dependent Sequence Alignment)

Autor: Gerald J. Wyckoff, Scott Foy

Publikováno v: Journal of Data Mining in Genomics & Proteomics.

Motivation: The Universal True SDSA (Structure-dependent Sequence Alignment), or UniTS, program calculates the most probable amino acid sequence alignment derived from multiple superimposed protein three-dimensional structures. Additionally, utilizin

Externí odkaz: https://explore.openaire.eu/search/publication?articleId=doi_________::8a12d9513313a4488bbae35679704a68
https://doi.org/10.4172/2153-0602.1000152