The need for multi-omics biomarker signatures in precision medicine

M Olivier, R Asmis, GA Hawkins, TD Howard… - International journal of …, 2019 - mdpi.com
Recent advances in omics technologies have led to unprecedented efforts characterizing
the molecular changes that underlie the development and progression of a wide array of …

Cancer biomarker discovery: current status and future perspectives

K Mäbert, M Cojoc, C Peitzsch, I Kurth… - … journal of radiation …, 2014 - Taylor & Francis
Purpose: Cancer is a multigene disease which arises as a result of mutational and
epigenetic changes coupled with activation of complex signaling networks. The use of …

Development and validation of an individualized immune prognostic signature in early-stage nonsquamous non–small cell lung cancer

B Li, Y Cui, M Diehn, R Li - JAMA oncology, 2017 - jamanetwork.com
Importance The prevalence of early-stage non–small cell lung cancer (NSCLC) is expected
to increase with recent implementation of annual screening programs. Reliable prognostic …

Online survival analysis software to assess the prognostic value of biomarkers using transcriptomic data in non-small-cell lung cancer

B Győrffy, P Surowiak, J Budczies, A Lánczky - PloS one, 2013 - journals.plos.org
In the last decade, optimized treatment for non-small cell lung cancer had lead to improved
prognosis, but the overall survival is still very short. To further understand the molecular …

Pan-cancer analysis of immune cell infiltration identifies a prognostic immune-cell characteristic score (ICCS) in lung adenocarcinoma

S Zuo, M Wei, S Wang, J Dong, J Wei - Frontiers in immunology, 2020 - frontiersin.org
Background: The tumor microenvironment (TME) consists of heterogeneous cell
populations, including malignant cells and nonmalignant cells that support tumor …

Correlating transcriptional networks to breast cancer survival: a large-scale coexpression analysis

C Clarke, SF Madden, P Doolan, ST Aherne… - …, 2013 - academic.oup.com
Weighted gene coexpression network analysis (WGCNA) is a powerful 'guilt-by-association'-
based method to extract coexpressed groups of genes from large heterogeneous …

Development and validation of an immune‐related prognostic signature in lung adenocarcinoma

S Sun, W Guo, Z Wang, X Wang, G Zhang… - Cancer …, 2020 - Wiley Online Library
Background Lung adenocarcinomas (LUAD) is the most common histological subtype of
lung cancers. Tumor immune microenvironment (TIME) is involved in tumorigeneses …

Identification of a cytokine-dominated immunosuppressive class in squamous cell lung carcinoma with implications for immunotherapy resistance

M Yang, C Lin, Y Wang, K Chen, H Zhang, W Li - Genome Medicine, 2022 - Springer
Background Immune checkpoint blockade (ICB) therapy has revolutionized the treatment of
lung squamous cell carcinoma (LUSC). However, a significant proportion of patients with …

[HTML][HTML] Identification and validation of hypoxia-derived gene signatures to predict clinical outcomes and therapeutic responses in stage I lung adenocarcinoma …

R Shi, X Bao, K Unger, J Sun, S Lu, F Manapov… - Theranostics, 2021 - ncbi.nlm.nih.gov
Rationale: The current tumour-node-metastasis (TNM) staging system is insufficient for
precise treatment decision-making and accurate survival prediction for patients with stage I …

Optimization and expansion of non-negative matrix factorization

X Lin, PC Boutros - BMC bioinformatics, 2020 - Springer
Background Non-negative matrix factorization (NMF) is a technique widely used in various
fields, including artificial intelligence (AI), signal processing and bioinformatics. However …