Results 41 to 50 of about 335,580 (367)

The link between ferroptosis and airway inflammatory diseases: A novel target for treatment

Frontiers in Molecular Biosciences, 2022
Ferroptosis is an iron-dependent mode of cell death characterized by intracellular lipid peroxide accumulation and a redox reaction imbalance. Compared with other modes of cell death, ferroptosis has specific biological and morphological features.
Zhiwei Lin, Xiaojing Yang, Lili Guan, Lijie Qin, Jiabin Ding, Luqian Zhou   +5 more
doaj   +1 more source

Benchmarking procedures for high-throughput context specific reconstruction algorithms

Frontiers in Physiology, 2016
Recent progress in high-throughput data acquisition has shifted the focus from data generation to processing and understanding of how to integrate collected information.
Maria ePires Pacheco, Thomas ePfau, Thomas eSauter   +2 more
doaj   +1 more source

Signatures of arithmetic simplicity in metabolic network architecture [PDF]

, 2010
Metabolic networks perform some of the most fundamental functions in living cells, including energy transduction and building block biosynthesis. While these are the best characterized networks in living systems, understanding their evolutionary history ...
A Hintze, A Ricardo, A Varma, A Varma, AP Burgard, AV Kamp, B Papp, BO Palsson, CS Cockell, D Segrè, Daniel Segrè, DE Knuth, DL Nelson, E Meléndez-Hevia, E Meléndez-Hevia, E Meléndez-Hevia, E Ravasz, E Reznik, EG Thurber, G Hernández-Montes, G Murtas, G Ourisson, G Wächtershäuser, GR Desiraju, H Akashi, HJ Morowitz, HJ Morowitz, J Raymond, JARP Sarma, Jason A. Papin, JC Venter, JE Baldwin, JL Reed, JS Edwards, JS Edwards, KH Nealson, KJ Kauffman, LF de Figueiredo, M Kanehisa, M Lee, ML Mo, MY Galperin, O Ebenhöh, O Ebenhöh, P Dittrich, P Downey, Paul L. Krapivsky, PC Hallenbeck, PG Conrad, R Breslow, R Caspi, R Heinrich, R Schuetz, RE Lenski, S Klamt, S Maslov, SA Kauffman, Shi Jianghong, Sidney Redner, SS Fong, SS Shen-Orr, T Gánti, T Handorf, V Srinivasan, W Fontana, William J. Riehl   +65 more
core   +6 more sources

Beyond the Biosynthetic Gene Cluster Paradigm: Genome-Wide Coexpression Networks Connect Clustered and Unclustered Transcription Factors to Secondary Metabolic Pathways

Microbiology Spectrum, 2021
Fungal secondary metabolites are widely used as therapeutics and are vital components of drug discovery programs. A major challenge hindering discovery of novel secondary metabolites is that the underlying pathways involved in their biosynthesis are ...
Min Jin Kwon, Charlotte Steiniger, Timothy C. Cairns, Jennifer H. Wisecaver, Abigail L. Lind, Carsten Pohl, Carmen Regner, Antonis Rokas, Vera Meyer   +8 more
doaj   +1 more source

Metabolic PathFinding: inferring relevant pathways in biochemical networks [PDF]

Nucleic Acids Research, 2005
Our knowledge of metabolism can be represented as a network comprising several thousands of nodes (compounds and reactions). Several groups applied graph theory to analyse the topological properties of this network and to infer metabolic pathways by path finding.
Croes, Didier, Couche, Fabian, Wodak, Shoshana, van Helden, Jacques   +3 more
openaire   +6 more sources

Pathway discovery in metabolic networks by subgraph extraction

Bioinformatics, 2010
Abstract Motivation: Subgraph extraction is a powerful technique to predict pathways from biological networks and a set of query items (e.g. genes, proteins, compounds, etc.). It can be applied to a variety of different data types, such as gene expression, protein levels, operons or phylogenetic profiles.
Faust, Karoline, Dupont, Pierre, Callut, Jérôme, van Helden, Jacques   +3 more
openaire   +5 more sources

Metabolic network visualization eliminating node redundance and preserving metabolic pathways [PDF]

BMC Systems Biology, 2007
AbstractBackgroundThe tools that are available to draw and to manipulate the representations of metabolism are usually restricted to metabolic pathways. This limitation becomes problematic when studying processes that span several pathways. The various attempts that have been made to draw genome-scale metabolic networks are confronted with two ...
Bourqui, Romain, Cottret, L., Lacroix, Vincent, Auber, D., Mary, P., Sagot, M.-F., Jourdan, F.   +6 more
openaire   +6 more sources

Role of Ferroptosis in Lung Diseases

Journal of Inflammation Research, 2021
Wenting Xu,1,2,* Huimin Deng,2,* Song Hu,2,3,* Yiguo Zhang,2,3 Li Zheng,1,2 Meiyun Liu,2 Yuanli Chen,2 Juan Wei,2 Hao Yang,2 Xin Lv1– 3 1Department of Anesthesiology, Fuyang Hospital of Anhui Medical University, Fuyang, Anhui, 236000, People&rsquo ...
Xu W, Deng H, Hu S, Zhang Y, Zheng L, Liu M, Chen Y, Wei J, Yang H, Lv X   +9 more
doaj  

Evolution and regulation of nitrogen flux through compartmentalized metabolic networks in a marine diatom

Nature Communications, 2019
Diatoms outcompete other phytoplankton for nitrate, yet little is known about the mechanisms underpinning this ability. Genomes and genome-enabled studies have shown that diatoms possess unique features of nitrogen metabolism however, the implications ...
Sarah R. Smith, C. Dupont, James K. McCarthy, Jared T. Broddrick, M. Oborník, A. Horák, Zoltán Füssy, Jaromír Cihlář, Sabrina Kleessen, Hong Zheng, J. McCrow, K. Hixson, W. Araújo, A. Nunes‐Nesi, A. Fernie, Z. Nikoloski, B. Palsson, A. Allen   +17 more
semanticscholar   +1 more source

Reconstruction of metabolic pathways by combining probabilistic graphical model-based and knowledge-based methods [PDF]

, 2014
Automatic reconstruction of metabolic pathways for an organism from genomics and transcriptomics data has been a challenging and important problem in bioinformatics.
Jianlin Cheng, Jilong Li, Qi Qi
core   +2 more sources