Role of Arginine and its Metabolism in TGF-β-Induced Activation of Lung Fibroblasts.

Autor: Hamanaka RB; Department of Medicine, Section of Pulmonary and Critical Care Medicine, The University of Chicago, Chicago, IL, 60637.; Equal Contribution., Shin KWD; Department of Medicine, Section of Pulmonary and Critical Care Medicine, The University of Chicago, Chicago, IL, 60637.; Equal Contribution., Atalay MV; Department of Information Systems, Loyola University Chicago, Chicago, IL, 60611., Cetin-Atalay R; Department of Medicine, Section of Pulmonary and Critical Care Medicine, The University of Chicago, Chicago, IL, 60637., Shah H; Metabolomics Platform, Comprehensive Cancer Center, The University of Chicago, Chicago, IL, 60637., Szafran JCH; Department of Medicine, Section of Pulmonary and Critical Care Medicine, The University of Chicago, Chicago, IL, 60637., Woods PS; Department of Medicine, Section of Pulmonary and Critical Care Medicine, The University of Chicago, Chicago, IL, 60637., Meliton AY; Department of Medicine, Section of Pulmonary and Critical Care Medicine, The University of Chicago, Chicago, IL, 60637., Shamaa OR; Department of Medicine, Section of Pulmonary and Critical Care Medicine, The University of Chicago, Chicago, IL, 60637., Tian Y; Department of Medicine, Section of Pulmonary and Critical Care Medicine, The University of Chicago, Chicago, IL, 60637., Cho T; Department of Medicine, Section of Pulmonary and Critical Care Medicine, The University of Chicago, Chicago, IL, 60637., Mutlu GM; Department of Medicine, Section of Pulmonary and Critical Care Medicine, The University of Chicago, Chicago, IL, 60637.

Publikováno v: BioRxiv : the preprint server for biology [bioRxiv] 2024 Nov 01. Date of Electronic Publication: 2024 Nov 01.

ATF4 and mTOR regulate metabolic reprogramming in TGF-β-treated lung fibroblasts.

Autor: Shin KWD; Department of Medicine, Section of Pulmonary and Critical Care Medicine, The University of Chicago, Chicago, IL 60637., Atalay MV; Middle East Technical University, Ankara, Turkey., Cetin-Atalay R; Department of Medicine, Section of Pulmonary and Critical Care Medicine, The University of Chicago, Chicago, IL 60637., O'Leary EM; Department of Medicine, Section of Pulmonary and Critical Care Medicine, The University of Chicago, Chicago, IL 60637., Glass ME; Department of Medicine, Section of Pulmonary and Critical Care Medicine, The University of Chicago, Chicago, IL 60637., Szafran JCH; Department of Medicine, Section of Pulmonary and Critical Care Medicine, The University of Chicago, Chicago, IL 60637., Woods PS; Department of Medicine, Section of Pulmonary and Critical Care Medicine, The University of Chicago, Chicago, IL 60637., Meliton AY; Department of Medicine, Section of Pulmonary and Critical Care Medicine, The University of Chicago, Chicago, IL 60637., Shamaa OR; Department of Medicine, Section of Pulmonary and Critical Care Medicine, The University of Chicago, Chicago, IL 60637., Tian Y; Department of Medicine, Section of Pulmonary and Critical Care Medicine, The University of Chicago, Chicago, IL 60637., Mutlu GM; Department of Medicine, Section of Pulmonary and Critical Care Medicine, The University of Chicago, Chicago, IL 60637., Hamanaka RB; Department of Medicine, Section of Pulmonary and Critical Care Medicine, The University of Chicago, Chicago, IL 60637.

Publikováno v: BioRxiv : the preprint server for biology [bioRxiv] 2024 Jun 13. Date of Electronic Publication: 2024 Jun 13.

Data Centric Molecular Analysis and Evaluation of Hepatocellular Carcinoma Therapeutics Using Machine Intelligence-Based Tools.

Autor: Cetin-Atalay R; Section of Pulmonary and Critical Care Medicine, University of Chicago, Chicago, IL, 60637, USA. rengul@uchicago.edu., Kahraman DC; Cancer Systems Biology Laboratory, Graduate School of Informatics, METU, Ankara, 06800, Turkey. cansen@metu.edu.tr., Nalbat E; Cancer Systems Biology Laboratory, Graduate School of Informatics, METU, Ankara, 06800, Turkey., Rifaioglu AS; Department of Computer Engineering, Iskenderun Technical University, Iskenderun, Hatay, 31200, Turkey.; Department of Computer Engineering, METU, Ankara, 06800, Turkey., Atakan A; Department of Computer Engineering, METU, Ankara, 06800, Turkey.; Department of Computer Engineering, EBYU, Ankara, 24002, Turkey., Donmez A; Department of Computer Engineering, METU, Ankara, 06800, Turkey.; Department of Computer Science, University of Maryland, College Park, MD, 20742, USA., Atas H; Cancer Systems Biology Laboratory, Graduate School of Informatics, METU, Ankara, 06800, Turkey., Atalay MV; Cancer Systems Biology Laboratory, Graduate School of Informatics, METU, Ankara, 06800, Turkey.; Department of Computer Engineering, METU, Ankara, 06800, Turkey., Acar AC; Cancer Systems Biology Laboratory, Graduate School of Informatics, METU, Ankara, 06800, Turkey., Doğan T; Cancer Systems Biology Laboratory, Graduate School of Informatics, METU, Ankara, 06800, Turkey. tuncadogan@hacettepe.edu.tr.; Department of Computer Engineering, Hacettepe University, Ankara, 06800, Turkey. tuncadogan@hacettepe.edu.tr.

Publikováno v: Journal of gastrointestinal cancer [J Gastrointest Cancer] 2021 Dec; Vol. 52 (4), pp. 1266-1276. Date of Electronic Publication: 2021 Dec 15.

Predicting functions of maize proteins using graph convolutional network.

Autor: Zhou, Guangjie^1,2 (AUTHOR), Wang, Jun² (AUTHOR), Zhang, Xiangliang³ (AUTHOR), Guo, Maozu⁴ (AUTHOR) guomaozu@bucea.edu.cn, Yu, Guoxian^1,2,3 (AUTHOR) guoxian85@gmail.com

Publikováno v: BMC Bioinformatics. 12/16/2020 Supplement 16, Vol. 21 Issue 16, p1-16. 16p.

ECPred: a tool for the prediction of the enzymatic functions of protein sequences based on the EC nomenclature.

Autor: Dalkiran, Alperen^1,2 dalkiran@ceng.metu.edu.tr, Rifaioglu, Ahmet Sureyya^1,3 arifaioglu@ceng.metu.edu.tr, Martin, Maria Jesus⁴ martin@ebi.ac.uk, Cetin-Atalay, Rengul^5,6 rengul@metu.edu.tr, Atalay, Volkan^1,5 vatalay@metu.edu.tr, Doğan, Tunca^4,5,6 tdogan@ebi.ac.uk

Publikováno v: BMC Bioinformatics. 9/21/2018, Vol. 19 Issue 1, p1-13. 13p. 3 Diagrams, 14 Charts.