Systematic transcriptional analysis of human cell lines for gene expression landscape and tumor representation

H Jin, C Zhang, M Zwahlen, K Von Feilitzen… - Nature …, 2023 - nature.com
Cell lines are valuable resources as model for human biology and translational medicine. It
is thus important to explore the concordance between the expression in various cell lines vis …

Discovery of drug targets and therapeutic agents based on drug repositioning to treat lung adenocarcinoma

OK Graves, W Kim, M Özcan, S Ashraf, H Turkez… - Biomedicine & …, 2023 - Elsevier
Background Lung adenocarcinoma (LUAD) is the one of the most common subtypes in lung
cancer. Although various targeted therapies have been used in the clinical practice, the 5 …

[HTML][HTML] Integration of transcriptomics, metabolomics, and lipidomics reveals the mechanisms of doxorubicin-induced inflammatory responses and myocardial …

X Tan, R Zhang, M Lan, C Wen, H Wang, J Guo… - Biomedicine & …, 2023 - Elsevier
Doxorubicin (DOX) is an anthracycline antineoplastic agent that has limited clinical utility
due to its dose-dependent cardiotoxicity. Although the exact mechanism remains unknown …

Open MoA: revealing the mechanism of action (MoA) based on network topology and hierarchy

X Liao, M Ozcan, M Shi, W Kim, H Jin, X Li… - …, 2023 - academic.oup.com
Motivation Many approaches in systems biology have been applied in drug repositioning
due to the increased availability of the omics data and computational biology tools. Using a …

Drug repositioning targeting glutaminase reveals drug candidates for the treatment of Alzheimer's disease patients

A Bayraktar, X Li, W Kim, C Zhang, H Turkez… - Journal of translational …, 2023 - Springer
Background Despite numerous clinical trials and decades of endeavour, there is still no
effective cure for Alzheimer's disease. Computational drug repositioning approaches may be …

Combination of pioglitazone and metformin actions on liver lipid metabolism in obese mice

J Liu, D Wang, Z Xie, L Ding, S Li, X Ma, J Liu, J Ren… - Biomolecules, 2023 - mdpi.com
Background: Despite the increasing prevalence rate of nonalcoholic fatty liver disease
(NAFLD) worldwide, efficient pharmacotherapeutic regimens against NAFLD still need to be …

Characterization of an in vitro steatosis model simulating activated de novo lipogenesis in MAFLD patients

W Kim, M Li, H Jin, H Yang, H Türkez, M Uhlén… - Iscience, 2023 - cell.com
Activated de novo lipogenesis (DNL) is the critical pathway involved in the progression of
metabolic-associated fatty liver disease (MAFLD). We present an in vitro steatosis model for …

[HTML][HTML] Novel drug targets and molecular mechanisms for sarcopenia based on systems biology

AB Ceyhan, M Ozcan, W Kim, X Li, O Altay… - Biomedicine & …, 2024 - Elsevier
Sarcopenia is a major public health concern among older adults, leading to disabilities, falls,
fractures, and mortality. This study aimed to elucidate the pathophysiological mechanisms of …

[HTML][HTML] SAH is a major metabolic sensor mediating worsening metabolic crosstalk in metabolic syndrome

R Cueto, W Shen, L Liu, X Wang, S Wu, S Mohsin… - Redox Biology, 2024 - Elsevier
In this study, we observed worsening metabolic crosstalk in mouse models with concomitant
metabolic disorders such as hyperhomocysteinemia (HHcy), hyperlipidemia, and …

[HTML][HTML] Discovery of a Therapeutic Agent for Glioblastoma Using a Systems Biology-Based Drug Repositioning Approach

A Kaynar, M Ozcan, X Li, H Turkez, C Zhang… - International Journal of …, 2024 - mdpi.com
Glioblastoma (GBM), a highly malignant tumour of the central nervous system, presents with
a dire prognosis and low survival rates. The heterogeneous and recurrent nature of GBM …