Recent Publications

Crowd-sourced benchmarking of single-sample tumor subclonal reconstruction
Genomic, Bioinformatic, Cancer Aleks Genomic, Bioinformatic, Cancer Aleks

Crowd-sourced benchmarking of single-sample tumor subclonal reconstruction

Adriana Salcedo, Maxime Tarabichi, Alex Buchanan, Shadrielle MG Espiritu, Hongjiu Zhang, Kaiyi Zhu, Tai-Hsien Ou Yang, Ignaty Leshchiner, Dimitris Anastassiou, Yuanfang Guan, Gun Ho Jang, Mohammed FE Mootor, Kerstin Haase, Amit G Deshwar, William Zou, Imaad Umar, Stefan Dentro, Jeff A Wintersinger, Kami Chiotti, Jonas Demeulemeester, Clemency Jolly, Lesia Sycza, Minjeong Ko, David C Wedge, Quaid D Morris, Kyle Ellrott, Peter Van Loo, Paul C Boutros. Nature Biotechnology 2024/6/11

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Preclinical evaluation of CDK4 phosphorylation predicts high sensitivity of pleural mesotheliomas to CDK4/6 inhibition
Cell Cycle, Cancer Aleks Cell Cycle, Cancer Aleks

Preclinical evaluation of CDK4 phosphorylation predicts high sensitivity of pleural mesotheliomas to CDK4/6 inhibition

Sabine Paternot, Eric Raspé, Clément Meiller, Maxime Tarabichi, Jean‐Baptiste Assié, Frederick Libert, Myriam Remmelink, Xavier Bisteau, Patrick Pauwels, Yuna Blum, Nolwenn Le Stang, Séverine Tabone‐Eglinger, Françoise Galateau‐Sallé, Christophe Blanquart, Jan P Van Meerbeeck, Thierry Berghmans, Didier Jean, Pierre P Roger.

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Genomic evolution shapes prostate cancer disease type
Genomic, Bioinformatic, Cancer Aleks Genomic, Bioinformatic, Cancer Aleks

Genomic evolution shapes prostate cancer disease type

Dan J Woodcock, Atef Sahli, Ruxandra Teslo, Vinayak Bhandari, Andreas J Gruber, Aleksandra Ziubroniewicz, Gunes Gundem, Yaobo Xu, Adam Butler, Ezequiel Anokian, Bernard J Pope, Chol-Hee Jung, Maxime Tarabichi, Stefan C Dentro, J Henry R Farmery, Peter Van Loo, Anne Y Warren, Vincent Gnanapragasam, Freddie C Hamdy, G Steven Bova, Christopher S Foster, David E Neal, Yong-Jie Lu, Zsofia Kote-Jarai, Michael Fraser, Robert G Bristow, Paul C Boutros, Anthony J Costello, Niall M Corcoran, Christopher M Hovens, Charlie E Massie, Andy G Lynch, Daniel S Brewer, Rosalind A Eeles, Colin S Cooper, David C Wedge. Cell Genomics 2024/3/13 https://www.cell.com/cell-genomics/fulltext/S2666-979X(24)00038-7

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Pan-cancer subclonal mutation analysis of 7,827 tumors predicts clinical outcome
Genomic, Bioinformatic, Cancer Aleks Genomic, Bioinformatic, Cancer Aleks

Pan-cancer subclonal mutation analysis of 7,827 tumors predicts clinical outcome

Yujie Jiang, Matthew D Montierth, Kaixian Yu, Shuangxi Ji, Shuai Guo, Quang Tran, Xiaoqian Liu, Seung Jun Shin, Shaolong Cao, Ruonan Li, Yuxin Tang, Tom Lesluyes, Scott Kopetz, Jaffer Ajani, Pavlos Msaouel, Sumit K Subudhi, Ana Aparicio, Padmanee Sharma, John Paul Shen, Anil K Sood, Maxime Tarabichi, Jennifer R Wang, Marek Kimmel, Peter Van Loo, Hongtu Zhu, Wenyi Wang. bioRxiv 2024.07. 03.601939 https://www.biorxiv.org/content/10.1101/2024.07.03.601939v1.abstract

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Single nuclei and spatial transcriptomes suggest a stratification of papillary and anaplastic thyroid cancer cells
Transcriptomic, Thyroid, Cancer, Organoids Aleks Transcriptomic, Thyroid, Cancer, Organoids Aleks

Single nuclei and spatial transcriptomes suggest a stratification of papillary and anaplastic thyroid cancer cells

Adrien Tourneur, Joel Rodrigues Vitoria, Manuel Saiselet, Ligia Craciun, Denis Larsimont, Anne Lefort, Frederick Libert, Carine Maenhaut, Sabine Costagliola, Maxime Tarabichi, Mirian Romitti, Vincent Detours. bioRxiv 2024.02. 15.580495 https://www.biorxiv.org/content/10.1101/2024.02.15.580495v2.abstract

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Duodenal organoids from metabolic dysfunction-associated steatohepatitis patients exhibit absorptive and barrier alterations
Organoids, Gut Aleks Organoids, Gut Aleks

Duodenal organoids from metabolic dysfunction-associated steatohepatitis patients exhibit absorptive and barrier alterations

Alia Hadefi, Morgane Leprovots, Gilles Dinsart, Maryam Marefati, Marjorie Vermeersch, Daniel Monteyne, David Pérez-Morga, Anne Lefort, Frédérick Libert, Laurine Verset, Claire Liefferinckx, Christophe Moreno, Jacques Devière, Eric Trépo, Marie-Isabelle Garcia, Gastro Hep Advances, 2024, 100599, ISSN 2772-5723, https://doi.org/10.1016/j.gastha.2024.100599.

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STR mutations on chromosome 15q cause thyrotropin resistance by activating a primate-specific enhancer of MIR7-2/MIR1179
Genetic, Thyroid, TSH Resistance Syndrome, Hypothyroidism Aleks Genetic, Thyroid, TSH Resistance Syndrome, Hypothyroidism Aleks

STR mutations on chromosome 15q cause thyrotropin resistance by activating a primate-specific enhancer of MIR7-2/MIR1179

Grasberger H, Dumitrescu A M, Liao X-H, Swanson E G, Weiss R E, Srichomkwun P, Pappa T, Chen J, Yoshimura T, Hoffmann P, França M M, Tagett R, Onigata K, Costagliola S, Ranchalis J, Vollger M R, Stergachis A B, Chong J X, Bamshad M J, Smits G, Vassart G and Refetoff S, Nature Genetics (2024) https://doi.org/10.1038/s41588-024-01717-7

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Dual targeting of MAPK and PI3K pathways unlocks redifferentiation of Braf-mutated thyroid cancer organoids
Thyroid cancer, Braf, Organoids Aleks Thyroid cancer, Braf, Organoids Aleks

Dual targeting of MAPK and PI3K pathways unlocks redifferentiation of Braf-mutated thyroid cancer organoids

H. Lasolle, A. Schiavo, A. Tourneur, P. Gillotay, B. de F. da Fonseca, L. Ceolin, O. Monestier, B. Aganahi, L. Chomette, M. M. L. Kizys, L. Haenebalcke, T. Pieters, S. Goossens, J. Haigh, V. Detours, A. L. S. Maia, S. Costagliola, and M. Romitti, Oncogene 1–16 (2023) doi:10.1038/s41388-023-02889-y.

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