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Your search keyword '"Gout, A. M."' showing total 12 results
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12 results on '"Gout, A. M."'

1. Etiology of oncogenic fusions in 5,190 childhood cancers and its clinical and therapeutic implication

Author

Liu, Yanling, Klein, Jonathon, Bajpai, Richa, Dong, Li, Tran, Quang, Kolekar, Pandurang, Smith, Jenny L, Ries, Rhonda E, Huang, Benjamin J, Wang, Yi-Cheng, Alonzo, Todd A, Tian, Liqing, Mulder, Heather L, Shaw, Timothy I, Ma, Jing, Walsh, Michael P, Song, Guangchun, Westover, Tamara, Autry, Robert J, Gout, Alexander M, Wheeler, David A, Wan, Shibiao, Wu, Gang, Yang, Jun J, Evans, William E, Loh, Mignon, Easton, John, Zhang, Jinghui, Klco, Jeffery M, Meshinchi, Soheil, Brown, Patrick A, Pruett-Miller, Shondra M, and Ma, Xiaotu

Subjects
Biological Sciences, Bioinformatics and Computational Biology, Biomedical and Clinical Sciences, Oncology and Carcinogenesis, Genetics, Human Genome, Biotechnology, Pediatric Research Initiative, Pediatric Cancer, Rare Diseases, Cancer, Pediatric, 5.1 Pharmaceuticals, Development of treatments and therapeutic interventions, Aetiology, 2.1 Biological and endogenous factors, Humans, Child, Core Binding Factor Alpha 2 Subunit, Oncogene Fusion, Precursor Cell Lymphoblastic Leukemia-Lymphoma, Transcriptome, Causality, Oncogene Proteins, Fusion
Abstract

Oncogenic fusions formed through chromosomal rearrangements are hallmarks of childhood cancer that define cancer subtype, predict outcome, persist through treatment, and can be ideal therapeutic targets. However, mechanistic understanding of the etiology of oncogenic fusions remains elusive. Here we report a comprehensive detection of 272 oncogenic fusion gene pairs by using tumor transcriptome sequencing data from 5190 childhood cancer patients. We identify diverse factors, including translation frame, protein domain, splicing, and gene length, that shape the formation of oncogenic fusions. Our mathematical modeling reveals a strong link between differential selection pressure and clinical outcome in CBFB-MYH11. We discover 4 oncogenic fusions, including RUNX1-RUNX1T1, TCF3-PBX1, CBFA2T3-GLIS2, and KMT2A-AFDN, with promoter-hijacking-like features that may offer alternative strategies for therapeutic targeting. We uncover extensive alternative splicing in oncogenic fusions including KMT2A-MLLT3, KMT2A-MLLT10, C11orf95-RELA, NUP98-NSD1, KMT2A-AFDN and ETV6-RUNX1. We discover neo splice sites in 18 oncogenic fusion gene pairs and demonstrate that such splice sites confer therapeutic vulnerability for etiology-based genome editing. Our study reveals general principles on the etiology of oncogenic fusions in childhood cancer and suggests profound clinical implications including etiology-based risk stratification and genome-editing-based therapeutics.

Published
2023

3. Data from Genomes for Kids: The Scope of Pathogenic Mutations in Pediatric Cancer Revealed by Comprehensive DNA and RNA Sequencing

Author

Newman, Scott, primary, Nakitandwe, Joy, primary, Kesserwan, Chimene A., primary, Azzato, Elizabeth M., primary, Wheeler, David A., primary, Rusch, Michael, primary, Shurtleff, Sheila, primary, Hedges, Dale J., primary, Hamilton, Kayla V., primary, Foy, Scott G., primary, Edmonson, Michael N., primary, Thrasher, Andrew, primary, Bahrami, Armita, primary, Orr, Brent A., primary, Klco, Jeffery M., primary, Gu, Jiali, primary, Harrison, Lynn W., primary, Wang, Lu, primary, Clay, Michael R., primary, Ouma, Annastasia, primary, Silkov, Antonina, primary, Liu, Yanling, primary, Zhang, Zhaojie, primary, Liu, Yu, primary, Brady, Samuel W., primary, Zhou, Xin, primary, Chang, Ti-Cheng, primary, Pande, Manjusha, primary, Davis, Eric, primary, Becksfort, Jared, primary, Patel, Aman, primary, Wilkinson, Mark R., primary, Rahbarinia, Delaram, primary, Kubal, Manish, primary, Maciaszek, Jamie L., primary, Pastor, Victor, primary, Knight, Jay, primary, Gout, Alexander M., primary, Wang, Jian, primary, Gu, Zhaohui, primary, Mullighan, Charles G., primary, McGee, Rose B., primary, Quinn, Emily A., primary, Nuccio, Regina, primary, Mostafavi, Roya, primary, Gerhardt, Elsie L., primary, Taylor, Leslie M., primary, Valdez, Jessica M., primary, Hines-Dowell, Stacy J., primary, Pappo, Alberto S., primary, Robinson, Giles, primary, Johnson, Liza-Marie, primary, Pui, Ching-Hon, primary, Ellison, David W., primary, Downing, James R., primary, Zhang, Jinghui, primary, and Nichols, Kim E., primary

Published
2023
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4. Supplementary Figure S2 from Genomes for Kids: The Scope of Pathogenic Mutations in Pediatric Cancer Revealed by Comprehensive DNA and RNA Sequencing

Author

Newman, Scott, primary, Nakitandwe, Joy, primary, Kesserwan, Chimene A., primary, Azzato, Elizabeth M., primary, Wheeler, David A., primary, Rusch, Michael, primary, Shurtleff, Sheila, primary, Hedges, Dale J., primary, Hamilton, Kayla V., primary, Foy, Scott G., primary, Edmonson, Michael N., primary, Thrasher, Andrew, primary, Bahrami, Armita, primary, Orr, Brent A., primary, Klco, Jeffery M., primary, Gu, Jiali, primary, Harrison, Lynn W., primary, Wang, Lu, primary, Clay, Michael R., primary, Ouma, Annastasia, primary, Silkov, Antonina, primary, Liu, Yanling, primary, Zhang, Zhaojie, primary, Liu, Yu, primary, Brady, Samuel W., primary, Zhou, Xin, primary, Chang, Ti-Cheng, primary, Pande, Manjusha, primary, Davis, Eric, primary, Becksfort, Jared, primary, Patel, Aman, primary, Wilkinson, Mark R., primary, Rahbarinia, Delaram, primary, Kubal, Manish, primary, Maciaszek, Jamie L., primary, Pastor, Victor, primary, Knight, Jay, primary, Gout, Alexander M., primary, Wang, Jian, primary, Gu, Zhaohui, primary, Mullighan, Charles G., primary, McGee, Rose B., primary, Quinn, Emily A., primary, Nuccio, Regina, primary, Mostafavi, Roya, primary, Gerhardt, Elsie L., primary, Taylor, Leslie M., primary, Valdez, Jessica M., primary, Hines-Dowell, Stacy J., primary, Pappo, Alberto S., primary, Robinson, Giles, primary, Johnson, Liza-Marie, primary, Pui, Ching-Hon, primary, Ellison, David W., primary, Downing, James R., primary, Zhang, Jinghui, primary, and Nichols, Kim E., primary

Published
2023
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5. Data from St. Jude Cloud: A Pediatric Cancer Genomic Data-Sharing Ecosystem

Author

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

Published
2023
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6. Supplementary Tables from Genomes for Kids: The Scope of Pathogenic Mutations in Pediatric Cancer Revealed by Comprehensive DNA and RNA Sequencing

Author

Newman, Scott, primary, Nakitandwe, Joy, primary, Kesserwan, Chimene A., primary, Azzato, Elizabeth M., primary, Wheeler, David A., primary, Rusch, Michael, primary, Shurtleff, Sheila, primary, Hedges, Dale J., primary, Hamilton, Kayla V., primary, Foy, Scott G., primary, Edmonson, Michael N., primary, Thrasher, Andrew, primary, Bahrami, Armita, primary, Orr, Brent A., primary, Klco, Jeffery M., primary, Gu, Jiali, primary, Harrison, Lynn W., primary, Wang, Lu, primary, Clay, Michael R., primary, Ouma, Annastasia, primary, Silkov, Antonina, primary, Liu, Yanling, primary, Zhang, Zhaojie, primary, Liu, Yu, primary, Brady, Samuel W., primary, Zhou, Xin, primary, Chang, Ti-Cheng, primary, Pande, Manjusha, primary, Davis, Eric, primary, Becksfort, Jared, primary, Patel, Aman, primary, Wilkinson, Mark R., primary, Rahbarinia, Delaram, primary, Kubal, Manish, primary, Maciaszek, Jamie L., primary, Pastor, Victor, primary, Knight, Jay, primary, Gout, Alexander M., primary, Wang, Jian, primary, Gu, Zhaohui, primary, Mullighan, Charles G., primary, McGee, Rose B., primary, Quinn, Emily A., primary, Nuccio, Regina, primary, Mostafavi, Roya, primary, Gerhardt, Elsie L., primary, Taylor, Leslie M., primary, Valdez, Jessica M., primary, Hines-Dowell, Stacy J., primary, Pappo, Alberto S., primary, Robinson, Giles, primary, Johnson, Liza-Marie, primary, Pui, Ching-Hon, primary, Ellison, David W., primary, Downing, James R., primary, Zhang, Jinghui, primary, and Nichols, Kim E., primary

Published
2023
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7. Supplementary Tables from St. Jude Cloud: A Pediatric Cancer Genomic Data-Sharing Ecosystem

Author

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

Published
2023
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8. Supplementary Figures 1-7 from Malignant Progression of an Ancestral Bone Marrow Clone Harboring a CIC-NUTM2A Fusion in Isolated Myeloid Sarcoma

Author

Kamens, Jennifer L., primary, Dang, Jinjun, primary, Shaw, Timothy I., primary, Gout, Alexander M., primary, Newman, Scott, primary, Hagiwara, Kohei, primary, Smith, Amelia M.R., primary, Obermayer, Alyssa N., primary, Aldridge, Sarah, primary, Ma, Jing, primary, Zhang, Yang, primary, Wu, Gang, primary, Leventaki, Vasiliki, primary, Santiago, Teresa, primary, Raimondi, Susana, primary, Nakitandwe, Joy, primary, Pappo, Alberto, primary, Li, Chunliang, primary, Zhang, Jinghui, primary, and Gruber, Tanja A., primary

Published
2023
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9. Supplementary Data from St. Jude Cloud: A Pediatric Cancer Genomic Data-Sharing Ecosystem

Author

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

Published
2023
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10. Supplementary Tables 1-5 from Malignant Progression of an Ancestral Bone Marrow Clone Harboring a CIC-NUTM2A Fusion in Isolated Myeloid Sarcoma

Author

Kamens, Jennifer L., primary, Dang, Jinjun, primary, Shaw, Timothy I., primary, Gout, Alexander M., primary, Newman, Scott, primary, Hagiwara, Kohei, primary, Smith, Amelia M.R., primary, Obermayer, Alyssa N., primary, Aldridge, Sarah, primary, Ma, Jing, primary, Zhang, Yang, primary, Wu, Gang, primary, Leventaki, Vasiliki, primary, Santiago, Teresa, primary, Raimondi, Susana, primary, Nakitandwe, Joy, primary, Pappo, Alberto, primary, Li, Chunliang, primary, Zhang, Jinghui, primary, and Gruber, Tanja A., primary

Published
2023
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11. Malignant Progression of an Ancestral Bone Marrow Clone Harboring a CIC-NUTM2A Fusion in Isolated Myeloid Sarcoma

Author

Kamens, Jennifer L., primary, Dang, Jinjun, additional, Shaw, Timothy I., additional, Gout, Alexander M., additional, Newman, Scott, additional, Hagiwara, Kohei, additional, Smith, Amelia M.R., additional, Obermayer, Alyssa N., additional, Aldridge, Sarah, additional, Ma, Jing, additional, Zhang, Yang, additional, Wu, Gang, additional, Leventaki, Vasiliki, additional, Santiago, Teresa, additional, Raimondi, Susana, additional, Nakitandwe, Joy, additional, Pappo, Alberto, additional, Li, Chunliang, additional, Zhang, Jinghui, additional, and Gruber, Tanja A., additional

Published
2023
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12. Abstract 1901: VisComm: A cloud-based platform for accessing and creating scientific visualization for the pediatric cancer research community

Author

Finkelstein, David B., primary, Madson, James, additional, Vacaroiu, Lucian, additional, Gout, Alexander M., additional, Hirja, Leonard, additional, Sandor, Stephanie, additional, Thrasher, Andrew, additional, Reilly, Colleen, additional, Wang, Jian, additional, Chen, Xiaolong, additional, Zhou, Xin, additional, Zhang, Jinghui, additional, and McLeod, Clay, additional

Published
2022
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