A review on trends in development and translation of omics signatures in cancer

Ma, Wei; Tang, Wenshu; Kwok, Jamie S.L.; Tong, Amy H.Y.; Lo, Cario W.S.; Chu, Annie T.W.; Chung, Brian H.Y.

doi:10.1016/j.csbj.2024.01.024

Cited by 2 publications

(1 citation statement)

References 278 publications

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“…Below, we first describe computational studies in NDDs. While we do not dedicate a separate section to cancer-related computational studies, we encourage interested readers to explore recent reviews that focus on cancer and machine learning ( Zhang et al, 2023 ; Ma et al, 2024 ; Unger and Kather, 2024 ) in addition to the ones mentioned earlier. We then proceed to the connection between NDDs and cancer.…”

Section: Ai ML Dl and Other Computational Methods In Tackling Nddsmentioning

confidence: 99%

Review: Cancer and neurodevelopmental disorders: multi-scale reasoning and computational guide

Nussinov,

Yavuz,

Demirel

et al. 2024

Front. Cell Dev. Biol.

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The connection and causality between cancer and neurodevelopmental disorders have been puzzling. How can the same cellular pathways, proteins, and mutations lead to pathologies with vastly different clinical presentations? And why do individuals with neurodevelopmental disorders, such as autism and schizophrenia, face higher chances of cancer emerging throughout their lifetime? Our broad review emphasizes the multi-scale aspect of this type of reasoning. As these examples demonstrate, rather than focusing on a specific organ system or disease, we aim at the new understanding that can be gained. Within this framework, our review calls attention to computational strategies which can be powerful in discovering connections, causalities, predicting clinical outcomes, and are vital for drug discovery. Thus, rather than centering on the clinical features, we draw on the rapidly increasing data on the molecular level, including mutations, isoforms, three-dimensional structures, and expression levels of the respective disease-associated genes. Their integrated analysis, together with chromatin states, can delineate how, despite being connected, neurodevelopmental disorders and cancer differ, and how the same mutations can lead to different clinical symptoms. Here, we seek to uncover the emerging connection between cancer, including pediatric tumors, and neurodevelopmental disorders, and the tantalizing questions that this connection raises.

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Section: Ai ML Dl and Other Computational Methods In Tackling Nddsmentioning

confidence: 99%

Review: Cancer and neurodevelopmental disorders: multi-scale reasoning and computational guide

Nussinov,

Yavuz,

Demirel

et al. 2024

Front. Cell Dev. Biol.

View full text Add to dashboard Cite

show abstract

Exploring the potential of multiomics liquid biopsy testing in the clinical setting of lung cancer

Gottardo,

Russo,

Perez

et al. 2024

Cytopathology

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The transformative role of artificial intelligence (AI) and multiomics could enhance the diagnostic and prognostic capabilities of liquid biopsy (LB) for lung cancer (LC). Despite advances, the transition from tissue biopsies to more sophisticated, non‐invasive methods like LB has been impeded by challenges such as the heterogeneity of biomarkers and the low concentration of tumour‐related analytes. The advent of multiomics – enabled by deep learning algorithms – offers a solution by allowing the simultaneous analysis of various analytes across multiple biological fluids, presenting a paradigm shift in cancer diagnostics. Through multi‐marker, multi‐analyte and multi‐source approaches, this review showcases how AI and multiomics are identifying clinically valuable biomarker combinations that correlate with patients' health statuses. However, the path towards clinical implementation is fraught with challenges, including study reproducibility and lack of methodological standardization, thus necessitating urgent solutions to solve these common issues.

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A review on trends in development and translation of omics signatures in cancer

Cited by 2 publications

References 278 publications

Review: Cancer and neurodevelopmental disorders: multi-scale reasoning and computational guide

Review: Cancer and neurodevelopmental disorders: multi-scale reasoning and computational guide

Exploring the potential of multiomics liquid biopsy testing in the clinical setting of lung cancer

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