Targeting stressor-induced dysfunctions in protein–protein interaction networks via epichaperomes

SD Ginsberg, S Sharma, L Norton, G Chiosis - Trends in pharmacological …, 2023 - cell.com
Diseases are manifestations of complex changes in protein–protein interaction (PPI)
networks whereby stressors, genetic, environmental, and combinations thereof, alter …

[HTML][HTML] Application of proteomics in the discovery of radiosensitive cancer biomarkers

H Luo, H Ge - Frontiers in Oncology, 2022 - frontiersin.org
Radiation therapy remains an important component of cancer treatment. Gene-encoded
proteins were the actual executors of cellular functions. Proteomic was a novel technology …

EPGAT: gene essentiality prediction with graph attention networks

J Schapke, A Tavares… - … /ACM Transactions on …, 2021 - ieeexplore.ieee.org
Identifying essential genes and proteins is a critical step towards a better understanding of
human biology and pathology. Computational approaches helped to mitigate experimental …

[HTML][HTML] Functional module detection through integration of single-cell RNA sequencing data with protein–protein interaction networks

F Klimm, EM Toledo, T Monfeuga, F Zhang, CM Deane… - BMC genomics, 2020 - Springer
Background Recent advances in single-cell RNA sequencing have allowed researchers to
explore transcriptional function at a cellular level. In particular, single-cell RNA sequencing …

Optimization of a modeling platform to predict oncogenes from genome‐scale metabolic networks of non‐small‐cell lung cancers

YT Wang, MR Lin, WC Chen, WH Wu… - FEBS Open Bio, 2021 - Wiley Online Library
Cancer cell dysregulations result in the abnormal regulation of cellular metabolic pathways.
By simulating this metabolic reprogramming using constraint‐based modeling approaches …

[HTML][HTML] Genome-scale metabolic modeling with protein expressions of normal and cancerous colorectal tissues for oncogene inference

FS Wang, WH Wu, WS Hsiu, YJ Liu, KW Chuang - Metabolites, 2019 - mdpi.com
Although cancer has historically been regarded as a cell proliferation disorder, it has
recently been considered a metabolic disease. The first discovery of metabolic alterations in …

[HTML][HTML] Network-based approach and IVI methodologies, a combined data investigation identified probable key genes in cardiovascular disease and chronic kidney …

MM Ahmed, S Tazyeen, S Haque… - Frontiers in …, 2022 - frontiersin.org
In fact, the risk of dying from CVD is significant when compared to the risk of developing end-
stage renal disease (ESRD). Moreover, patients with severe CKD are often excluded from …

Prospects and challenges of cancer systems medicine: from genes to disease networks

MR Karimi, AH Karimi, S Abolmaali… - Briefings in …, 2022 - academic.oup.com
It is becoming evident that holistic perspectives toward cancer are crucial in deciphering the
overwhelming complexity of tumors. Single-layer analysis of genome-wide data has greatly …

[HTML][HTML] Lysozyme activity as an indicator of innate immunity of tilapia (Oreochromis niloticus) when challenged with LPS and Streptococcus agalactiae

JD Biller, GV Polycarpo, BS Moromizato… - Revista Brasileira de …, 2021 - SciELO Brasil
The objective of this study was to fully describe the protocol with standardized modifications
and evaluate the lysozyme activity, an indicator of innate immunity in tilapia, to compare …

[HTML][HTML] Next-Generation Sequencing and Quantitative Proteomics of Hutchinson-Gilford progeria syndrome-derived cells point to a role of nucleotide metabolism in …

J Mateos, J Fafian-Labora, M Morente-Lopez… - PLoS …, 2018 - journals.plos.org
Hutchinson-Gilford progeria syndrome (HGPS) is a very rare fatal disease characterized for
accelerated aging. Although the causal agent, a point mutation in LMNA gene, was …