Missing data in multi-omics integration: Recent advances through artificial intelligence

JE Flores, DM Claborne, ZD Weller… - Frontiers in Artificial …, 2023 - frontiersin.org
Biological systems function through complex interactions between various 'omics
(biomolecules), and a more complete understanding of these systems is only possible …

Heterogeneous data integration methods for patient similarity networks

J Gliozzo, M Mesiti, M Notaro, A Petrini… - Briefings in …, 2022 - academic.oup.com
Patient similarity networks (PSNs), where patients are represented as nodes and their
similarities as weighted edges, are being increasingly used in clinical research. These …

Deep learning in cancer genomics and histopathology

M Unger, JN Kather - Genome Medicine, 2024 - Springer
Histopathology and genomic profiling are cornerstones of precision oncology and are
routinely obtained for patients with cancer. Traditionally, histopathology slides are manually …

Identifying a distinct fibrosis subset of NAFLD via molecular profiling and the involvement of profibrotic macrophages

W He, Y Huang, X Shi, Q Wang, M Wu, H Li… - Journal of Translational …, 2023 - Springer
Background There are emerging studies suggesting that non-alcoholic fatty liver disease
(NAFLD) is a heterogeneous disease with multiple etiologies and molecular phenotypes …

[HTML][HTML] Dissecting depression symptoms: multi-omics clustering uncovers immune-related subgroups and cell-type specific dysregulation

J Hagenberg, TM Brückl, M Erhart, J Kopf-Beck… - Brain, Behavior, and …, 2025 - Elsevier
In a subset of patients with mental disorders, such as depression, low-grade inflammation
and altered immune marker concentrations are observed. However, these immune …

Proteomic profile distinguishes new subpopulations of breast cancer patients with different survival outcomes

J Tobiasz, J Polanska - Cancers, 2023 - mdpi.com
Simple Summary Breast cancer is a heterogeneous disease, and several attempts have
been made to subtype it. Based on the abundance of 86 proteins, we identified six …

MoNETA: MultiOmics Network Embedding for SubType Analysis

G Scala, L Ferraro, A Brandi, Y Guo… - NAR Genomics and …, 2024 - academic.oup.com
Cells are complex systems whose behavior emerges from a huge number of reactions
taking place within and among different molecular districts. The availability of bulk and …

Integration of Multi-Omics Data for the Classification of Glioma Types and Identification of Novel Biomarkers

FG Vieira, R Bispo, MB Lopes - Bioinformatics and Biology …, 2024 - journals.sagepub.com
Glioma is currently one of the most prevalent types of primary brain cancer. Given its high
level of heterogeneity along with the complex biological molecular markers, many efforts …

Subtype-WGME enables whole-genome-wide multi-omics cancer subtyping

H Yang, L Zhao, D Li, C An, X Fang, Y Chen, J Liu… - Cell Reports …, 2024 - cell.com
We present an innovative strategy for integrating whole-genome-wide multi-omics data,
which facilitates adaptive amalgamation by leveraging hidden layer features derived from …

Connection and Curation of Corpus (Labeled and Unlabeled)

S Dev, A Sharan - Text Mining Approaches for Biomedical Data, 2024 - Springer
The availability of large amount of unlabeled and unstructured real-time textual data poses a
challenge for training models in various tasks. Labeled data is essential for both training and …