Zobrazeno 1 - 10
of 22
pro vyhledávání: '"A. Geoffrey Lyle"'
Autor:
Lauren M. Sanders, Rahul Chandra, Navid Zebarjadi, Holly C. Beale, A. Geoffrey Lyle, Analiz Rodriguez, Ellen Towle Kephart, Jacob Pfeil, Allison Cheney, Katrina Learned, Rob Currie, Leonid Gitlin, David Vengerov, David Haussler, Sofie R. Salama, Olena M. Vaske
Publikováno v:
Communications Biology, Vol 5, Iss 1, Pp 1-11 (2022)
Using a support vector machine learning approach and multi-omics data, dysregulation of key cancer driver pathways is revealed in cancer cell lines compared to primary tumors.
Externí odkaz:
https://doaj.org/article/ae37f4fd1afe478ab8fe248e3f11b99f
Autor:
Megan R. Reed, Annick De Loose, Grace Guzman, A. Geoffrey Lyle, Katrina Learned, Olena M. Vaske, Analiz Rodriguez
Publikováno v:
Journal of Clinical and Translational Science, Vol 7, Pp 95-95 (2023)
OBJECTIVES/GOALS: MGMT methylation status is used to predict the response to TMZ. However, a subpopulation of patients lacking MGMT methylation still respond to TMZ. We applied omics approaches and functional studies to a cohort of GBM patients to id
Externí odkaz:
https://doaj.org/article/7bf4b3824955461aa533092e3e2800e6
Autor:
Megan R. Reed, A. Geoffrey Lyle, Annick De Loose, Katrina Learned, Cecile Rose T. Vibat, Christopher P. Wardell, Robert L. Eoff, Olena M. Vaske, Analiz Rodriguez
Publikováno v:
Journal of Clinical and Translational Science, Vol 6, Pp 58-58 (2022)
OBJECTIVES/GOALS: A functional precision medicine platform to identify therapeutic targets for a glioblastoma patient with Li Fraumeni syndrome was performed. Comparative transcriptomics identified druggable targets and patient derived organoids and
Externí odkaz:
https://doaj.org/article/c2c3317ab6de45a186e45d9014a1a342
Autor:
Megan R. Reed, A. Geoffrey Lyle, Annick De Loose, Leena Maddukuri, Katrina Learned, Holly C. Beale, Ellen T. Kephart, Allison Cheney, Anouk van den Bout, Madison P. Lee, Kelsey N. Hundley, Ashley M. Smith, Teresa M. DesRochers, Cecile Rose T. Vibat, Murat Gokden, Sofie Salama, Christopher P. Wardell, Robert L. Eoff, Olena M. Vaske, Analiz Rodriguez
Publikováno v:
Cells, Vol 10, Iss 12, p 3400 (2021)
Li Fraumeni syndrome (LFS) is a hereditary cancer predisposition syndrome caused by germline mutations in TP53. TP53 is the most common mutated gene in human cancer, occurring in 30–50% of glioblastomas (GBM). Here, we highlight a precision medicin
Externí odkaz:
https://doaj.org/article/9dc85f09d7834fddbaa84d2a1a8e9843
Autor:
Gina D. Mawla, A. Geoffrey Lyle, Ellen T. Kephart, Katrina Learned, Holly C. Beale, Joshua E. Goldford, Olena M. Vaske
Publikováno v:
Cancer Research. 82:LB059-LB059
Pediatric high-grade glioma (pHGG) is a highly malignant and poorly understood cancer driven by diverse genetic and epigenetic mechanisms. Here, we use comparative RNA sequencing, outlier analysis, and spectral clustering approaches to analyze transc
Externí odkaz:
https://explore.openaire.eu/search/publication?articleId=doi_________::56cc8a84daec9ca0c5e52932b040e2bd
https://doi.org/10.1158/1538-7445.am2022-lb059
https://doi.org/10.1158/1538-7445.am2022-lb059
Autor:
A. Geoffrey Lyle, Jacquelyn M. Roger, Matthew A. Cattle, Katrina Learned, Robert Currie, Sofie R. Salama, Holly C. Beale, Lauren Sanders, John Vivian, Olena M. Vaske, Du Linh Lam, Ellen Kephart, Drew K A Thompson, Isabel Bjork, Jacob Pfeil, David Haussler, Liam T. McKay
Publikováno v:
GigaScience, vol 10, iss 3
GigaScience
GigaScience
Background The reproducibility of gene expression measured by RNA sequencing (RNA-Seq) is dependent on the sequencing depth. While unmapped or non-exonic reads do not contribute to gene expression quantification, duplicate reads contribute to the qua
Externí odkaz:
https://explore.openaire.eu/search/publication?articleId=doi_dedup___::e0c41d1a09b6a7b588df765f9b7c0686
https://escholarship.org/uc/item/2fq331n9
https://escholarship.org/uc/item/2fq331n9
Autor:
Phuong T. Dinh, Holly C. Beale, Isabel Bjork, Alana S. Weinstein, Stanley G. Leung, E. Alejandro Sweet-Cordero, David Haussler, Ioannis N. Anastopoulos, Jacob Pfeil, Avanthi Tayi Shah, W. Patrick Devine, Yuanqing Xue, Lauren Sanders, Alex G. Lee, Sofie R. Salama, Olena M. Vaske, Marcus R. Breese, A. Geoffrey Lyle, Andrew Blair
Publikováno v:
PLoS computational biology, vol 16, iss 4
PLoS Computational Biology
PLoS Computational Biology, Vol 16, Iss 4, p e1007753 (2020)
PLoS Computational Biology
PLoS Computational Biology, Vol 16, Iss 4, p e1007753 (2020)
Precision oncology has primarily relied on coding mutations as biomarkers of response to therapies. While transcriptome analysis can provide valuable information, incorporation into workflows has been difficult. For example, the relative rather than
Externí odkaz:
https://explore.openaire.eu/search/publication?articleId=doi_dedup___::36883de655dc99d8481ddfda8b794f36
https://escholarship.org/uc/item/4fp081x6
https://escholarship.org/uc/item/4fp081x6
Autor:
Christopher P. Wardell, Robert L. Eoff, Annick De Loose, Sofie R. Salama, Anouk van den Bout, Teresa M. DesRochers, A. Geoffrey Lyle, Murat Gokden, Madison P Lee, Kelsey Hundley, Analiz Rodriguez, Allison Cheney, Katrina Learned, Leena Maddukuri, Olena M. Vaske, Megan R. Reed, Holly C. Beale, Cecile Rose T. Vibat, Ashley M. Smith, Ellen Kephart
Publikováno v:
Cells, Vol 10, Iss 3400, p 3400 (2021)
Cells
Cells; Volume 10; Issue 12; Pages: 3400
Cells
Cells; Volume 10; Issue 12; Pages: 3400
Li Fraumeni syndrome (LFS) is a hereditary cancer predisposition syndrome caused by germline mutations in TP53. TP53 is the most common mutated gene in human cancer, occurring in 30–50% of glioblastomas (GBM). Here, we highlight a precision medicin
Externí odkaz:
https://explore.openaire.eu/search/publication?articleId=doi_dedup___::2f35e9765ca24ba4181d07b0b2ccd621
https://doi.org/10.3390/cells10123400
https://doi.org/10.3390/cells10123400
Autor:
Olena M. Vaske, Yvonne A. Vasquez, Sofie R. Salama, Alfred Geoffrey Lyle, Letitia Mueller, Sahar Hosseinzadeh, Ellen Kephart, Allison Cheney, Holly C. Beale, Katrina Learned, Anouk van den Bout, Lauren Sanders, Jacob Pfeil, Isabel Bjork
Publikováno v:
Cancer Research. 81:3035-3035
Synovial sarcoma (SS) is an aggressive soft-tissue malignancy, accounting for 10% of all soft-tissue sarcomas. These tumors can occur at any age but most often affect young adults and adolescents, developing deep in the distal extremities. The progno
Externí odkaz:
https://explore.openaire.eu/search/publication?articleId=doi_________::3e5691726ed720ba2884342b09a48e30
https://doi.org/10.1158/1538-7445.am2021-3035
https://doi.org/10.1158/1538-7445.am2021-3035
Autor:
Holly C. Beale, Jacquelyn M. Roger, Matthew A. Cattle, Liam T. McKay, Drew K. A. Thomson, Katrina Learned, A. Geoffrey Lyle, Ellen T. Kephart, Rob Currie, Du Linh Lam, Lauren Sanders, Jacob Pfeil, John Vivian, Isabel Bjork, Sofie R. Salama, David Haussler, Olena M. Vaske
BackgroundThe accuracy of gene expression as measured by RNA sequencing (RNA-Seq) is dependent on the amount of sequencing performed. However, some types of reads are not informative for determining this accuracy. Unmapped and non-exonic reads do not
Externí odkaz:
https://explore.openaire.eu/search/publication?articleId=doi_________::f597a2c6c45837e76d97375425292e85
https://doi.org/10.1101/716829
https://doi.org/10.1101/716829