Mixed responses to targeted therapy driven by chromosomal instability through p53 dysfunction and genome doubling

Autor: Sebastijan Hobor, Maise Al Bakir, Crispin T. Hiley, Marcin Skrzypski, Alexander M. Frankell, Bjorn Bakker, Thomas B. K. Watkins, Aleksandra Markovets, Jonathan R. Dry, Andrew P. Brown, Jasper van der Aart, Hilda van den Bos, Diana Spierings, Dahmane Oukrif, Marco Novelli, Turja Chakrabarti, Adam H. Rabinowitz, Laila Ait Hassou, Saskia Litière, D. Lucas Kerr, Lisa Tan, Gavin Kelly, David A. Moore, Matthew J. Renshaw, Subramanian Venkatesan, William Hill, Ariana Huebner, Carlos Martínez-Ruiz, James R. M. Black, Wei Wu, Mihaela Angelova, Nicholas McGranahan, Julian Downward, Juliann Chmielecki, Carl Barrett, Kevin Litchfield, Su Kit Chew, Collin M. Blakely, Elza C. de Bruin, Floris Foijer, Karen H. Vousden, Trever G. Bivona, TRACERx consortium, Robert E. Hynds, Nnennaya Kanu, Simone Zaccaria, Eva Grönroos, Charles Swanton

Publikováno v: Nature Communications, Vol 15, Iss 1, Pp 1-21 (2024)

Abstract The phenomenon of mixed/heterogenous treatment responses to cancer therapies within an individual patient presents a challenging clinical scenario. Furthermore, the molecular basis of mixed intra-patient tumor responses remains unclear. Here

Externí odkaz: https://doaj.org/article/a58c4b29e1d8491b8078212067633916

Refphase: Multi-sample phasing reveals haplotype-specific copy number heterogeneity.

Autor: Thomas B K Watkins, Emma C Colliver, Matthew R Huska, Tom L Kaufmann, Emilia L Lim, Cody B Duncan, Kerstin Haase, Peter Van Loo, Charles Swanton, Nicholas McGranahan, Roland F Schwarz

Publikováno v: PLoS Computational Biology, Vol 19, Iss 10, p e1011379 (2023)

Most computational methods that infer somatic copy number alterations (SCNAs) from bulk sequencing of DNA analyse tumour samples individually. However, the sequencing of multiple tumour samples from a patient's disease is an increasingly common pract

Externí odkaz: https://doaj.org/article/813504d2d9cb4d0b820b2c0d5e22969e

MEDICC2: whole-genome doubling aware copy-number phylogenies for cancer evolution

Autor: Tom L. Kaufmann, Marina Petkovic, Thomas B. K. Watkins, Emma C. Colliver, Sofya Laskina, Nisha Thapa, Darlan C. Minussi, Nicholas Navin, Charles Swanton, Peter Van Loo, Kerstin Haase, Maxime Tarabichi, Roland F. Schwarz

Publikováno v: Genome Biology, Vol 23, Iss 1, Pp 1-27 (2022)

Abstract Aneuploidy, chromosomal instability, somatic copy-number alterations, and whole-genome doubling (WGD) play key roles in cancer evolution and provide information for the complex task of phylogenetic inference. We present MEDICC2, a method for

Externí odkaz: https://doaj.org/article/e4b330fa56874857bbfdc7ede9300d31

Fabrication of stoichiometric U3Si2 fuel pellets

Autor: Adrian R. Wagner, Jason M. Harp, Kip E. Archibald, Seth C. Ashby, Jennifer K. Watkins, Kevin R. Tolman

Publikováno v: MethodsX, Vol 6, Iss , Pp 1252-1260 (2019)

Uranium silicide, U3Si2, is an accident tolerant fuel type which is gaining momentum as a replacement fuel for uranium dioxide (UO2). Idaho National Laboratories has been fabricating phase pure U3Si2 fuel pellets for use in various irradiation and ma

Externí odkaz: https://doaj.org/article/ec1abfc82ecb44fbaab202ffba73bfab

Immunometabolic Signatures Predict Risk of Progression to Active Tuberculosis and Disease Outcome

Autor: Fergal J. Duffy, January Weiner, Scott Hansen, David L. Tabb, Sara Suliman, Ethan Thompson, Jeroen Maertzdorf, Smitha Shankar, Gerard Tromp, Shreemanta Parida, Drew Dover, Michael K. Axthelm, Jayne S. Sutherland, Hazel M. Dockrell, Tom H. M. Ottenhoff, Thomas J. Scriba, Louis J. Picker, Gerhard Walzl, Stefan H. E. Kaufmann, Daniel E. Zak, The GC6-74 Consortium, S. H. E. Kaufmann, S. K. Parida, R. Golinski, J. Maertzdorf, J. Weiner, M. Jacobson, G. McEwen, G. Walzl, G. F. Black, G. van der Spuy, K. Stanley, M. Kriel, N. Du Plessis, N. Nene, A. G. Loxton, N. N. Chegou, S. Suliman, T. Scriba, M. Fisher, H. Mahomed, J. Hughes, K. Downing, A. Penn-Nicholson, H. Mulenga, B. Abel, M. Bowmaker, B. Kagina, W. Kwong, C. W. Hanekom, T. H. M. Ottenhoff, M. R. Klein, M. C. Haks, K. L. Franken, A. Geluk, K. E. van Meijgaarden, S. A. Joosten, D. van Baarle, F. Miedema, W. H. Boom, B. Thiel, J. Sadoff, D. Sizemore, S. Ramachandran, L. Barker, M. Brennan, F. Weichold, S. Muller, L. Geiter, G. Schoolnik, G. Dolganov, T. Van, H. Mayanja-Kizza, M. Joloba, S. Zalwango, M. Nsereko, B. Okwera, H. Kisingo, H. M. Dockrell, S. Smith, P. Gorak-Stolinska, Y.-G. Hur, M. Lalor, J.-S. Lee, A. C. Crampin, N. French, B. Ngwira, A. B. Smith, K. Watkins, L. Ambrose, F. Simukonda, H. Mvula, F. Chilongo, J. Saul, K. Branson, D. Kassa, A. Abebe, T. Mesele, B. Tegbaru, R. Howe, A. Mihret, A. Aseffa, Y. Bekele, R. Iwnetu, M. Tafesse, L. Yamuah, M. Ota, J. Sutherland, P. Hill, R. Adegbola, T. Corrah, M. Antonio, T. Togun, I. Adetifa, S. Donkor, P. Andersen, I. Rosenkrands, M. Doherty, K. Weldingh

Publikováno v: Frontiers in Immunology, Vol 10 (2019)

There remains a pressing need for biomarkers that can predict who will progress to active tuberculosis (TB) after exposure to Mycobacterium tuberculosis (MTB) bacterium. By analyzing cohorts of household contacts of TB index cases (HHCs) and a string

Externí odkaz: https://doaj.org/article/1eba36dc045c44aa95b786e37918a63e