Zobrazeno 1 - 7
of 7
pro vyhledávání: '"Burçak Otlu"'
Autor:
Burçak Otlu, Marcos Díaz-Gay, Ian Vermes, Erik N. Bergstrom, Maria Zhivagui, Mark Barnes, Ludmil B. Alexandrov
Publikováno v:
Cell Reports, Vol 42, Iss 8, Pp 112930- (2023)
Summary: The somatic mutations found in a cancer genome are imprinted by different mutational processes. Each process exhibits a characteristic mutational signature, which can be affected by the genome architecture. However, the interplay between mut
Externí odkaz:
https://doaj.org/article/2bad3d2278f34f4d858be7fc84bbc8cd
Autor:
Burçak Otlu, Tolga Can
Publikováno v:
BMC Bioinformatics, Vol 20, Iss 1, Pp 1-14 (2019)
Abstract Background Next-generation sequencing (NGS) technologies have produced large volumes of genomic data. One common operation on heterogeneous genomic data is genomic interval intersection. Most of the existing tools impose restrictions such as
Externí odkaz:
https://doaj.org/article/fb2fee7b21514990928aaa20e8e72932
Autor:
S.M. Ashiqul Islam, Marcos Díaz-Gay, Yang Wu, Mark Barnes, Raviteja Vangara, Erik N. Bergstrom, Yudou He, Mike Vella, Jingwei Wang, Jon W. Teague, Peter Clapham, Sarah Moody, Sergey Senkin, Yun Rose Li, Laura Riva, Tongwu Zhang, Andreas J. Gruber, Christopher D. Steele, Burçak Otlu, Azhar Khandekar, Ammal Abbasi, Laura Humphreys, Natalia Syulyukina, Samuel W. Brady, Boian S. Alexandrov, Nischalan Pillay, Jinghui Zhang, David J. Adams, Iñigo Martincorena, David C. Wedge, Maria Teresa Landi, Paul Brennan, Michael R. Stratton, Steven G. Rozen, Ludmil B. Alexandrov
Publikováno v:
Cell genomics, vol 2, iss 11
Mutational signature analysis is commonly performed in cancer genomic studies. Here, we present SigProfilerExtractor, an automated tool for de novo extraction of mutational signatures, and benchmark it against another 13 bioinformatics tools by using
Externí odkaz:
https://explore.openaire.eu/search/publication?articleId=doi_dedup___::d66650f68920d43fde2ce688d861fe80
https://escholarship.org/uc/item/9b82739r
https://escholarship.org/uc/item/9b82739r
Autor:
S M Ashiqul, Islam, Marcos, Díaz-Gay, Yang, Wu, Mark, Barnes, Raviteja, Vangara, Erik N, Bergstrom, Yudou, He, Mike, Vella, Jingwei, Wang, Jon W, Teague, Peter, Clapham, Sarah, Moody, Sergey, Senkin, Yun Rose, Li, Laura, Riva, Tongwu, Zhang, Andreas J, Gruber, Christopher D, Steele, Burçak, Otlu, Azhar, Khandekar, Ammal, Abbasi, Laura, Humphreys, Natalia, Syulyukina, Samuel W, Brady, Boian S, Alexandrov, Nischalan, Pillay, Jinghui, Zhang, David J, Adams, Iñigo, Martincorena, David C, Wedge, Maria Teresa, Landi, Paul, Brennan, Michael R, Stratton, Steven G, Rozen, Ludmil B, Alexandrov
Publikováno v:
Cell genomics. 2(11)
Mutational signature analysis is commonly performed in cancer genomic studies. Here, we present SigProfilerExtractor, an automated tool for
Autor:
Maria Zhivagui, Areebah Hoda, Noelia Valenzuela, Yi-Yu Yeh, Jason Dai, Yudou He, Shuvro P. Nandi, Burcak Otlu, Bennett Van Houten, Ludmil B. Alexandrov
Publikováno v:
Nature Communications, Vol 14, Iss 1, Pp 1-14 (2023)
Nail polish dryers commonly emit ultraviolet A (UVA) light, but the effects of this irradiation on mammalian cells remain unclear. Here, the authors examine the effects of UVA irradiation by a nail polish dryer on the genomes of mammalian cell lines,
Externí odkaz:
https://doaj.org/article/2c6c07a729a443be94d04a7debf38b91
Autor:
Maria Zhivagui, Areebah Hoda, Noelia Valenzuela, Yi-Yu Yeh, Jason Dai, Yudou He, Shuvro P. Nandi, Burcak Otlu, Bennett Van Houten, Ludmil B. Alexandrov
Publikováno v:
Nature Communications, Vol 14, Iss 1, Pp 1-1 (2023)
Externí odkaz:
https://doaj.org/article/e7d53443ff974bf9958b92bb10480497
Autor:
Bin Zhu, Maria Luana Poeta, Manuela Costantini, Tongwu Zhang, Jianxin Shi, Steno Sentinelli, Wei Zhao, Vincenzo Pompeo, Maurizio Cardelli, Boian S. Alexandrov, Burcak Otlu, Xing Hua, Kristine Jones, Seth Brodie, Malgorzata Ewa Dabrowska, Jorge R. Toro, Meredith Yeager, Mingyi Wang, Belynda Hicks, Ludmil B. Alexandrov, Kevin M. Brown, David C. Wedge, Stephen Chanock, Vito Michele Fazio, Michele Gallucci, Maria Teresa Landi
Publikováno v:
Nature Communications, Vol 11, Iss 1, Pp 1-13 (2020)
Many tumours are heterogenous, which calls into question whether multiple biopsies are required to accurately assess the cancer. Here, the authors show that papillary renal cell carcinoma is clonal in nature, suggesting that in this cancer one biopsy
Externí odkaz:
https://doaj.org/article/ffda5b58926c4a49be8ed66041ae4d4b