Prediction of biochemical mechanism of anti-inflammation explained from two marine-derived bioactive compounds

Antonazzo, 2017, Expansion of the gene ontology knowledgebase and resources, Nucleic Acids Res., 45, D331, 10.1093/nar/gkw1108 Apweiler, 2004, UniProt: the Universal protein knowledgebase, Nucleic Acids Res., 32, D115, 10.1093/nar/gkh131 Ashburner, 2000, Gene ontology: tool for the unification of biology, Nat. Genet., 25, 25, 10.1038/75556 Assenov, 2008, Computing topological parameters of biological networks, Bioinformatics, 24, 282, 10.1093/bioinformatics/btm554 Bader, 2003, An automated method for finding molecular complexes in large protein interaction networks, BMC Bioinf., 4, 2, 10.1186/1471-2105-4-2 Brennan, 2008, Evidence that cytokines play a role in rheumatoid arthritis, J. Clin. Invest., 118, 3537, 10.1172/JCI36389 Davies, 2015, ChEMBL web services: streamlining access to drug discovery data and utilities, Nucleic Acids Res., 43, W612, 10.1093/nar/gkv352 Eisenhut, 2006, Changes in ion transport in inflammatory disease, J. Inflamm. (Lond), 3, 5, 10.1186/1476-9255-3-5 Eisenhut, 2011, Ion channels in inflammation, Pflügers Archiv, 461, 401, 10.1007/s00424-010-0917-y Evans, 2015, Fever and the thermal regulation of immunity: the immune system feels the heat, Nat. Rev. Immunol., 15, 335, 10.1038/nri3843 Faisal, 2015, The post-genomic era of biological network alignment, EURASIP J. Bioinf. Syst. Biol., 2015 Fernando, 2016, Potential anti-inflammatory natural products from marine algae, Environ. Toxicol. Pharmacol., 48, 22, 10.1016/j.etap.2016.09.023 Gan, 2015, Prediction of the anti-inflammatory mechanisms of curcumin by module-based protein interaction network analysis, Acta Pharm. Sin. B., 5, 590, 10.1016/j.apsb.2015.09.005 Ham, 2015, Anti-inflammatory effects of isoketocharbroic acid from brown alga, Sargassum micracanthum, EXCLI J., 14, 1116 Heo, 2010, Evaluation of anti-inflammatory effect of fucoxanthin isolated from brown algae in lipopolysaccharide-stimulated RAW 264.7 macrophages, Food Chem. Toxicol., 48, 2045, 10.1016/j.fct.2010.05.003 Heo, 2012, Anti-inflammatory effect of fucoxanthin derivatives isolated from Sargassum siliquastrum in lipopolysaccharide-stimulated RAW 264.7 macrophage, Food Chem. Toxicol., 50, 3336, 10.1016/j.fct.2012.06.025 Kim, 2010, Fucoxanthin induces apoptosis in human leukemia HL-60 cells through a ROS-mediated Bcl-xL pathway, Toxicol. Vitro, 24, 1648, 10.1016/j.tiv.2010.05.023 Kim, 2010, Fucoxanthin inhibits the inflammatory response by suppressing the activation of NF-κB and MAPKs in lipopolysaccharide-induced RAW 264.7 macrophages, Eur. J. Pharmacol., 649, 369, 10.1016/j.ejphar.2010.09.032 Kuzmanov, 2013, Protein-protein interaction networks: probing disease mechanisms using model systems, Genome Med., 5, 37, 10.1186/gm441 Lee, 2009, Two enone fatty acids isolated from Gracilaria verrucosa suppress the production of inflammatory mediators by down-regulating NF-kappaB and STAT1 activity in lipopolysaccharide-stimulated RAW 264.7 cells, Arch Pharm. Res., 32, 453, 10.1007/s12272-009-1320-0 Maere, 2005, BiNGO: a Cytoscape plugin to assess overrepresentation of gene ontology categories in biological networks, Bioinformatics, 21, 3448, 10.1093/bioinformatics/bti551 McKusick, 2007, Mendelian inheritance in man and its online version, OMIM, Am. J. Hum. Genet., 80, 588, 10.1086/514346 Oliveros, 2007 Pavlopoulos, 2011, Using graph theory to analyze biological networks, BioData Min., 4, 10, 10.1186/1756-0381-4-10 Piñero, 2015, DisGeNET: a discovery platform for the dynamical exploration of human diseases and their genes, Database, 2015, 10.1093/database/bav028 Ren, 2014, Mechanism of action of salvianolic acid B by module-based network analysis, Bio Med. Mater. Eng., 24, 1333, 10.3233/BME-130936 Shannon, 2003, Cytoscape: a software environment for integrated models of biomolecular interaction networks, Genome Res., 13, 2498, 10.1101/gr.1239303 Simpi, 2013, Evaluation of marine brown algae Sargassum ilicifolium extract for analgesic and anti-inflammatory activity, Pharmacogn. Res., 5, 146, 10.4103/0974-8490.112413 Szklarczyk, 2017, The STRING database in 2017: quality-controlled protein–protein association networks, made broadly accessible, Nucleic Acids Res., 45, D362, 10.1093/nar/gkw937 Szklarczyk, 2016, STITCH 5: augmenting protein-chemical interaction networks with tissue and affinity data, Nucleic Acids Res., 44, D380, 10.1093/nar/gkv1277 Yang, 2013, Sargachromenol from Sargassum micracanthum inhibits the lipopolysaccharide-induced production of inflammatory mediators in RAW 264.7 macrophages, Sci. World J., 2013, 712303, 10.1155/2013/712303 Yangthong, 2009, Antioxidant activities of four edible seaweeds from the southern coast of Thailand, Plant Foods Hum. Nutr., 64, 218, 10.1007/s11130-009-0127-y Yende, 2014, Therapeutic potential and health benefits of Sargassum species, Phcog. Rev., 8, 1, 10.4103/0973-7847.125514 Zhang, 2015, Fucoxanthin: a promising medicinal and nutritional ingredient, Evid. Base Compl. Alternative Med., 2015, 723515 Zheng, 2014, Anti-inflammatory mechanism research of tanshinone II A by module-based network analysis, Bio Med. Mater. Eng., 24, 3815, 10.3233/BME-141211 Zheng, 2015, The mechanism research of Qishen Yiqi formula by module-network analysis, Evid. Base Compl. Alternative Med., 2015, 497314