Zobrazeno 1 - 10
of 250
pro vyhledávání: '"Mathew J, Garnett"'
Autor:
Sarah E. Cooper, Matthew A. Coelho, Magdalena E. Strauss, Aleksander M. Gontarczyk, Qianxin Wu, Mathew J. Garnett, John C. Marioni, Andrew R. Bassett
Publikováno v:
Genome Biology, Vol 25, Iss 1, Pp 1-15 (2024)
Abstract CRISPR screens with single-cell transcriptomic readouts are a valuable tool to understand the effect of genetic perturbations including single nucleotide variants (SNVs) associated with diseases. Interpretation of these data is currently lim
Externí odkaz:
https://doaj.org/article/4c193bbedf4540be9bb8f17996d96fe8
Autor:
Nishanth Ulhas Nair, Patricia Greninger, Xiaohu Zhang, Adam A. Friedman, Arnaud Amzallag, Eliane Cortez, Avinash Das Sahu, Joo Sang Lee, Anahita Dastur, Regina K. Egan, Ellen Murchie, Michele Ceribelli, Giovanna S. Crowther, Erin Beck, Joseph McClanaghan, Carleen Klump-Thomas, Jessica L. Boisvert, Leah J. Damon, Kelli M. Wilson, Jeffrey Ho, Angela Tam, Crystal McKnight, Sam Michael, Zina Itkin, Mathew J. Garnett, Jeffrey A. Engelman, Daniel A. Haber, Craig J. Thomas, Eytan Ruppin, Cyril H. Benes
Publikováno v:
Nature Communications, Vol 14, Iss 1, Pp 1-19 (2023)
Abstract Combination of anti-cancer drugs is broadly seen as way to overcome the often-limited efficacy of single agents. The design and testing of combinations are however very challenging. Here we present a uniquely large dataset screening over 500
Externí odkaz:
https://doaj.org/article/74d18fafe3754d38962c3b1365fa27b3
Autor:
Stacey Price, Shriram Bhosle, Emanuel Gonçalves, Xiaodun Li, Dylan P. McClurg, Syd Barthorpe, Alex Beck, Caitlin Hall, Howard Lightfoot, Luke Farrow, Rizwan Ansari, David A. Jackson, Laura Allen, Kirsty Roberts, Charlotte Beaver, Hayley E. Francies, Mathew J. Garnett
Publikováno v:
Scientific Reports, Vol 12, Iss 1, Pp 1-11 (2022)
Abstract Organoid cell culture methodologies are enabling the generation of cell models from healthy and diseased tissue. Patient-derived cancer organoids that recapitulate the genetic and histopathological diversity of patient tumours are being syst
Externí odkaz:
https://doaj.org/article/a7bae74b80b04ee1836d4572e3824812
Autor:
Alessandro Vinceti, Emre Karakoc, Clare Pacini, Umberto Perron, Riccardo Roberto De Lucia, Mathew J. Garnett, Francesco Iorio
Publikováno v:
BMC Genomics, Vol 22, Iss 1, Pp 1-16 (2021)
Abstract Background CRISPR-Cas9 genome-wide screens are being increasingly performed, allowing systematic explorations of cancer dependencies at unprecedented accuracy and scale. One of the major computational challenges when analysing data derived f
Externí odkaz:
https://doaj.org/article/f7df6232fdbd4a2691e1047e936b4957
Autor:
Clare Pacini, Joshua M. Dempster, Isabella Boyle, Emanuel Gonçalves, Hanna Najgebauer, Emre Karakoc, Dieudonne van der Meer, Andrew Barthorpe, Howard Lightfoot, Patricia Jaaks, James M. McFarland, Mathew J. Garnett, Aviad Tsherniak, Francesco Iorio
Publikováno v:
Nature Communications, Vol 12, Iss 1, Pp 1-14 (2021)
The integration of independent pan-cancer CRISPR-Cas9 datasets allows better representation of genomic heterogeneity across different cancer types. Here, the authors propose a strategy for the integration of two large CRISPR-Cas9 screens and report i
Externí odkaz:
https://doaj.org/article/fdd2ad5966004da891cf74b4446afacf
Autor:
Nicola A. Thompson, Marco Ranzani, Louise van der Weyden, Vivek Iyer, Victoria Offord, Alastair Droop, Fiona Behan, Emanuel Gonçalves, Anneliese Speak, Francesco Iorio, James Hewinson, Victoria Harle, Holly Robertson, Elizabeth Anderson, Beiyuan Fu, Fengtang Yang, Guido Zagnoli-Vieira, Phil Chapman, Martin Del Castillo Velasco-Herrera, Mathew J. Garnett, Stephen P. Jackson, David J. Adams
Publikováno v:
Nature Communications, Vol 12, Iss 1, Pp 1-11 (2021)
Systematic screens for synthetic lethal gene pairs represent a powerful approach to define interactions that may be exploited in the clinic. Here, the authors use a dual-guide CRISPR screening approach to screen a curated selection of gene pairs acro
Externí odkaz:
https://doaj.org/article/15ae5ef51cdf48aab01435241bfc2c36
Autor:
Emanuel Gonçalves, Mark Thomas, Fiona M. Behan, Gabriele Picco, Clare Pacini, Felicity Allen, Alessandro Vinceti, Mamta Sharma, David A. Jackson, Stacey Price, Charlotte M. Beaver, Oliver Dovey, David Parry-Smith, Francesco Iorio, Leopold Parts, Kosuke Yusa, Mathew J. Garnett
Publikováno v:
Genome Biology, Vol 22, Iss 1, Pp 1-14 (2021)
Abstract CRISPR guide RNA libraries have been iteratively improved to provide increasingly efficient reagents, although their large size is a barrier for many applications. We design an optimised minimal genome-wide human CRISPR-Cas9 library (MinLibC
Externí odkaz:
https://doaj.org/article/2fa4d024f7b14d10b1fef8e9f3b2d270
Autor:
Federica Eduati, Patricia Jaaks, Jessica Wappler, Thorsten Cramer, Christoph A Merten, Mathew J Garnett, Julio Saez‐Rodriguez
Publikováno v:
Molecular Systems Biology, Vol 16, Iss 2, Pp 1-13 (2020)
Abstract Mechanistic modeling of signaling pathways mediating patient‐specific response to therapy can help to unveil resistance mechanisms and improve therapeutic strategies. Yet, creating such models for patients, in particular for solid malignan
Externí odkaz:
https://doaj.org/article/d18b8d99458349968a5075a15775b322
Autor:
Joshua M. Dempster, Clare Pacini, Sasha Pantel, Fiona M. Behan, Thomas Green, John Krill-Burger, Charlotte M. Beaver, Scott T. Younger, Victor Zhivich, Hanna Najgebauer, Felicity Allen, Emanuel Gonçalves, Rebecca Shepherd, John G. Doench, Kosuke Yusa, Francisca Vazquez, Leopold Parts, Jesse S. Boehm, Todd R. Golub, William C. Hahn, David E. Root, Mathew J. Garnett, Aviad Tsherniak, Francesco Iorio
Publikováno v:
Nature Communications, Vol 10, Iss 1, Pp 1-14 (2019)
Integrating independent large-scale pharmacogenomic screens can enable unprecedented characterization of genetic vulnerabilities in cancers. Here, the authors show that the two largest independent CRISPR-Cas9 gene-dependency screens are concordant, p
Externí odkaz:
https://doaj.org/article/7101cce4933e4a7a88c0656de01f28e5
Autor:
Tiannan Guo, Augustin Luna, Vinodh N. Rajapakse, Ching Chiek Koh, Zhicheng Wu, Wei Liu, Yaoting Sun, Huanhuan Gao, Michael P. Menden, Chao Xu, Laurence Calzone, Loredana Martignetti, Chiara Auwerx, Marija Buljan, Amir Banaei-Esfahani, Alessandro Ori, Murat Iskar, Ludovic Gillet, Ran Bi, Jiangnan Zhang, Huanhuan Zhang, Chenhuan Yu, Qing Zhong, Sudhir Varma, Uwe Schmitt, Peng Qiu, Qiushi Zhang, Yi Zhu, Peter J. Wild, Mathew J. Garnett, Peer Bork, Martin Beck, Kexin Liu, Julio Saez-Rodriguez, Fathi Elloumi, William C. Reinhold, Chris Sander, Yves Pommier, Ruedi Aebersold
Publikováno v:
iScience, Vol 21, Iss , Pp 664-680 (2019)
Summary: Here we describe a proteomic data resource for the NCI-60 cell lines generated by pressure cycling technology and SWATH mass spectrometry. We developed the DIA-expert software to curate and visualize the SWATH data, leading to reproducible d
Externí odkaz:
https://doaj.org/article/ccb6206f1f4f4ccf946fcd290d879f5e