Big data in basic and translational cancer research

P Jiang, S Sinha, K Aldape, S Hannenhalli… - Nature Reviews …, 2022 - nature.com
Historically, the primary focus of cancer research has been molecular and clinical studies of
a few essential pathways and genes. Recent years have seen the rapid accumulation of …

A landscape of response to drug combinations in non-small cell lung cancer

NU Nair, P Greninger, X Zhang, AA Friedman… - Nature …, 2023 - nature.com
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 …

Synthetic lethality-mediated precision oncology via the tumor transcriptome

JS Lee, NU Nair, G Dinstag, L Chapman, Y Chung… - Cell, 2021 - cell.com
Precision oncology has made significant advances, mainly by targeting actionable mutations
in cancer driver genes. Aiming to expand treatment opportunities, recent studies have begun …

MAPK-pathway inhibition mediates inflammatory reprogramming and sensitizes tumors to targeted activation of innate immunity sensor RIG-I

J Brägelmann, C Lorenz, S Borchmann, K Nishii… - Nature …, 2021 - nature.com
Kinase inhibitors suppress the growth of oncogene driven cancer but also enforce the
selection of treatment resistant cells that are thought to promote tumor relapse in patients …

Translational reprogramming marks adaptation to asparagine restriction in cancer

G Pathria, JS Lee, E Hasnis, K Tandoc, DA Scott… - Nature cell …, 2019 - nature.com
While amino acid restriction remains an attractive strategy for cancer therapy, metabolic
adaptations limit its effectiveness. Here we demonstrate a role of translational …

[HTML][HTML] Potential biomarkers of skin melanoma resistance to targeted therapy—present state and perspectives

M Olbryt - Cancers, 2022 - mdpi.com
Simple Summary Around 5–10% of advanced melanoma patients progress early on anti-
BRAF targeted therapy and 20–30% respond only with the stabilization of the disease …

Clinically oriented prediction of patient response to targeted and immunotherapies from the tumor transcriptome

G Dinstag, ED Shulman, E Elis, DS Ben-Zvi, O Tirosh… - Med, 2023 - cell.com
Background Precision oncology is gradually advancing into mainstream clinical practice,
demonstrating significant survival benefits. However, eligibility and response rates remain …

[HTML][HTML] Genomic and transcriptomic analyses identify a prognostic gene signature and predict response to therapy in pleural and peritoneal mesothelioma

NU Nair, Q Jiang, JS Wei, VA Misra, B Morrow… - Cell Reports …, 2023 - cell.com
Malignant mesothelioma is an aggressive cancer with limited treatment options and poor
prognosis. A better understanding of mesothelioma genomics and transcriptomics could …

A systematic analysis of the landscape of synthetic lethality-driven precision oncology

AA Schäffer, Y Chung, AV Kammula, E Ruppin, JS Lee - Med, 2024 - cell.com
Background Synthetic lethality (SL) denotes a genetic interaction between two genes whose
co-inactivation is detrimental to cells. Because more than 25 years have passed since SL …

CTR-DB 2.0: an updated cancer clinical transcriptome resource, expanding primary drug resistance and newly adding acquired resistance datasets and enhancing …

J Jiang, Y Ma, L Yang, S Ma, Z Yu, X Ren… - Nucleic Acids …, 2025 - academic.oup.com
Drug resistance is a principal limiting factor in cancer treatment. CTR-DB, the Cancer
Treatment Response gene signature DataBase, is the first data resource for clinical …