{"status":"ok","message-type":"work","message-version":"1.0.0","message":{"indexed":{"date-parts":[[2026,10,16]],"date-time":"2026-10-16T02:49:21Z","timestamp":1792118961930,"version":"4.4.0"},"reference-count":46,"publisher":"Springer Science and Business Media LLC","issue":"1","license":[{"start":{"date-parts":[[2013,3,26]],"date-time":"2013-03-26T00:00:00Z","timestamp":1364256000000},"content-version":"tdm","delay-in-days":0,"URL":"https:\/\/creativecommons.org\/licenses\/by-nc-nd\/3.0\/"},{"start":{"date-parts":[[2013,3,26]],"date-time":"2013-03-26T00:00:00Z","timestamp":1364256000000},"content-version":"vor","delay-in-days":0,"URL":"https:\/\/creativecommons.org\/licenses\/by-nc-nd\/3.0\/"}],"content-domain":{"domain":["link.springer.com"],"crossmark-restriction":false},"short-container-title":["Sci Rep"],"DOI":"10.1038\/srep01543","type":"journal-article","created":{"date-parts":[[2013,3,26]],"date-time":"2013-03-26T10:06:02Z","timestamp":1364292362000},"update-policy":"https:\/\/doi.org\/10.1007\/springer_crossmark_policy","source":"Crossref","is-referenced-by-count":84,"title":["Imbalanced network biomarkers for traditional Chinese medicine Syndrome in gastritis patients"],"prefix":"10.1038","volume":"3","author":[{"given":"Rui","family":"Li","sequence":"first","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Tao","family":"Ma","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Jin","family":"Gu","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Xujun","family":"Liang","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Shao","family":"Li","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]}],"member":"297","published-online":{"date-parts":[[2013,3,26]]},"reference":[{"key":"BFsrep01543_CR1","doi-asserted-by":"crossref","first-page":"558","DOI":"10.1016\/j.tips.2005.09.006","volume":"26","author":"WY Jiang","year":"2005","unstructured":"Jiang, W. Y. Therapeutic wisdom in traditional Chinese medicine: a perspective from modern science. Trends Pharmacol Sci, 26, 558\u2013563 (2005).","journal-title":"Trends Pharmacol Sci"},{"key":"BFsrep01543_CR2","doi-asserted-by":"crossref","first-page":"219","DOI":"10.1016\/j.artmed.2006.07.005","volume":"38","author":"Y Feng","year":"2006","unstructured":"Feng, Y. et al. Knowledge discovery in traditional Chinese medicine: state of the art and perspectives. Artif Intell Med, 38, 219\u2013236 (2006).","journal-title":"Artif Intell Med"},{"key":"BFsrep01543_CR3","doi-asserted-by":"crossref","first-page":"2","DOI":"10.1186\/gm2","volume":"1","author":"C Auffray","year":"2009","unstructured":"Auffray, C. et al. Systems medicine: the future of medical genomics and healthcare. Genome Med, 1, 2 (2009).","journal-title":"Genome Med"},{"key":"BFsrep01543_CR4","doi-asserted-by":"crossref","first-page":"1580","DOI":"10.1001\/jama.300.13.1580","volume":"300","author":"HH Heng","year":"2008","unstructured":"Heng, H. H. The conflict between complex systems and reductionism. JAMA, 300, 1580\u20131581 (2008).","journal-title":"JAMA"},{"key":"BFsrep01543_CR5","doi-asserted-by":"crossref","first-page":"126","DOI":"10.1038\/448126a","volume":"448","author":"J Qiu","year":"2007","unstructured":"Qiu, J. Traditional medicine: a culture in the balance. Nature, 448, 126\u2013128 (2007).","journal-title":"Nature"},{"issue":"7378","key":"BFsrep01543_CR6","doi-asserted-by":"crossref","first-page":"S87","DOI":"10.1038\/480S87a","volume":"480","author":"Jan van der Greef","year":"2011","unstructured":"van der Greef, J. PERSPECTIVE All systems go. Nature, 480, S87\u2013S87 (2011).","journal-title":"Nature"},{"key":"BFsrep01543_CR7","doi-asserted-by":"crossref","first-page":"189","DOI":"10.1038\/msb.2008.27","volume":"4","author":"X Wu","year":"2008","unstructured":"Wu, X. et al. Network-based global inference of human disease genes. Mol Syst Biol, 4, 189 (2008).","journal-title":"Mol Syst Biol"},{"key":"BFsrep01543_CR8","doi-asserted-by":"crossref","first-page":"e11764","DOI":"10.1371\/journal.pone.0011764","volume":"5","author":"S Zhao","year":"2010","unstructured":"Zhao, S. & Li, S. Network-based relating pharmacological and genomic spaces for drug target identification. PLoS One, 5, e11764 (2010).","journal-title":"PLoS One"},{"key":"BFsrep01543_CR9","doi-asserted-by":"crossref","first-page":"859S","DOI":"10.1093\/ajcn\/88.3.859S","volume":"88","author":"M Olivares","year":"2008","unstructured":"Olivares, M. et al. Present situation of biomarkers for copper status. Am J Clin Nutr, 88, 859S\u2013862S (2008).","journal-title":"Am J Clin Nutr"},{"key":"BFsrep01543_CR10","doi-asserted-by":"crossref","first-page":"36","DOI":"10.1186\/1752-0509-3-36","volume":"3","author":"Z Dezso","year":"2009","unstructured":"Dezso, Z. et al. Identifying disease-specific genes based on their topological significance in protein networks. BMC Syst Biol, 3, 36 (2009).","journal-title":"BMC Syst Biol"},{"key":"BFsrep01543_CR11","doi-asserted-by":"crossref","first-page":"12","DOI":"10.1186\/1471-2105-13-12","volume":"13","author":"R Yang","year":"2012","unstructured":"Yang, R. et al. Core module biomarker identification with network exploration for breast cancer metastasis. BMC Bioinformatics, 13, 12 (2012).","journal-title":"BMC Bioinformatics"},{"key":"BFsrep01543_CR12","doi-asserted-by":"crossref","first-page":"51","DOI":"10.1049\/iet-syb:20060032","volume":"1","author":"S Li","year":"2007","unstructured":"Li, S. et al. Understanding ZHENG in traditional Chinese medicine in the context of neuro-endocrine-immune network. IET Syst Biol, 1, 51\u201360 (2007).","journal-title":"IET Syst Biol"},{"key":"BFsrep01543_CR13","doi-asserted-by":"crossref","first-page":"613","DOI":"10.1039\/b914024g","volume":"6","author":"T Ma","year":"2010","unstructured":"Ma, T. et al. Bridging the gap between traditional Chinese medicine and systems biology: the connection of Cold Syndrome and NEI network. Mol Biosyst, 6, 613\u2013619 (2010).","journal-title":"Mol Biosyst"},{"key":"BFsrep01543_CR14","doi-asserted-by":"crossref","first-page":"936","DOI":"10.1038\/srep00936","volume":"2","author":"B Jiang","year":"2012","unstructured":"Jiang, B. et al. Integrating next-generation sequencing and traditional tongue diagnosis to determine tongue coating microbiome. Sci Rep, 2, 936 (2012).","journal-title":"Sci Rep"},{"key":"BFsrep01543_CR15","doi-asserted-by":"crossref","first-page":"1161","DOI":"10.1097\/00000478-199610000-00001","volume":"20","author":"MF Dixon","year":"1996","unstructured":"Dixon, M. F. et al. Classification and grading of gastritis - The updated Sydney System. Am J of Surg Pathol, 20, 1161\u20131181 (1996).","journal-title":"Am J of Surg Pathol"},{"key":"BFsrep01543_CR16","doi-asserted-by":"crossref","first-page":"591","DOI":"10.1155\/2001\/367832","volume":"15","author":"M Stolte","year":"2001","unstructured":"Stolte, M. & Meining, A. The updated Sydney system: classification and grading of gastritis as the basis of diagnosis and treatment. Can J Gastroenterol, 15, 591\u2013598 (2001).","journal-title":"Can J Gastroenterol"},{"key":"BFsrep01543_CR17","doi-asserted-by":"crossref","first-page":"23","DOI":"10.1016\/j.ctim.2011.10.005","volume":"20","author":"G Chen","year":"2012","unstructured":"Chen, G. et al. A network-based analysis of traditional Chinese medicine cold and hot patterns in rheumatoid arthritis. Complement Ther Med, 20, 23\u201330 (2012).","journal-title":"Complement Ther Med"},{"key":"BFsrep01543_CR18","doi-asserted-by":"crossref","unstructured":"van Wietmarschen, H. A. et al. Characterization of Rheumatoid Arthritis Subtypes Using Symptom Profiles, Clinical Chemistry and Metabolomics Measurements. PLoS One, 7, e44331.","DOI":"10.1371\/journal.pone.0044331"},{"key":"BFsrep01543_CR19","doi-asserted-by":"crossref","unstructured":"Su, S. et al. A Metabolomic Study of Biochemical Changes in the Plasma and Urine of Primary Dysmenorrhea Patients Using UPLC - MS Coupled with Pattern Recognition Approach. J Proteome Res (2013).","DOI":"10.1021\/pr300935x"},{"key":"BFsrep01543_CR20","doi-asserted-by":"crossref","first-page":"3749","DOI":"10.1210\/en.2003-0241","volume":"144","author":"JM Zigman","year":"2003","unstructured":"Zigman, J. M. & Elmquist, J. K. Minireview: From anorexia to obesity--the yin and yang of body weight control. Endocrinology, 144, 3749\u20133756 (2003).","journal-title":"Endocrinology"},{"key":"BFsrep01543_CR21","doi-asserted-by":"crossref","first-page":"156","DOI":"10.1038\/nrd2466","volume":"7","author":"JO Lundberg","year":"2008","unstructured":"Lundberg, J. O. et al. The nitrate-nitrite-nitric oxide pathway in physiology and therapeutics. Nat Rev Drug Discov, 7, 156\u2013167 (2008).","journal-title":"Nat Rev Drug Discov"},{"key":"BFsrep01543_CR22","doi-asserted-by":"crossref","first-page":"2157","DOI":"10.1016\/S0002-9440(10)63265-8","volume":"165","author":"TR Kyriakides","year":"2004","unstructured":"Kyriakides, T. R. et al. The CC chemokine ligand, CCL2\/MCP1, participates in macrophage fusion and foreign body giant cell formation. American Journal of Pathology, 165, 2157\u20132166 (2004).","journal-title":"American Journal of Pathology"},{"key":"BFsrep01543_CR23","doi-asserted-by":"crossref","first-page":"93","DOI":"10.1016\/j.jneuroim.2010.05.010","volume":"224","author":"G Conductier","year":"2010","unstructured":"Conductier, G. et al. The role of monocyte chemoattractant protein MCP1\/CCL2 in neuroinflammatory diseases. J Neuroimmunol. 224, 93\u2013100 (2010).","journal-title":"J Neuroimmunol."},{"key":"BFsrep01543_CR24","first-page":"363","volume":"15","author":"I Copaci","year":"2006","unstructured":"Copaci, I. et al. The role of cytokines in non-alcoholic steatohepatitis. A review. J Gastrointestin Liver Dis, 15, 363\u2013373 (2006).","journal-title":"J Gastrointestin Liver Dis"},{"key":"BFsrep01543_CR25","doi-asserted-by":"crossref","first-page":"137","DOI":"10.1146\/annurev.immunol.16.1.137","volume":"16","author":"JJ Letterio","year":"1998","unstructured":"Letterio, J. J. & Roberts, A. B. Regulation of immune responses by TGF-beta. Annu Rev Immunol, 16, 137\u2013161 (1998).","journal-title":"Annu Rev Immunol"},{"key":"BFsrep01543_CR26","doi-asserted-by":"crossref","first-page":"177","DOI":"10.3748\/wjg.v10.i2.177","volume":"10","author":"W Wang","year":"2004","unstructured":"Wang, W. et al. Expression of NF-kappaB and human telomerase reverse transcriptase in gastric cancer and precancerous lesions. World J Gastroenterol, 10, 177\u2013181 (2004).","journal-title":"World J Gastroenterol"},{"key":"BFsrep01543_CR27","doi-asserted-by":"crossref","first-page":"1753","DOI":"10.1172\/JCI43922","volume":"121","author":"M Soutto","year":"2011","unstructured":"Soutto, M. et al. Loss of TFF1 is associated with activation of NF-kappaB-mediated inflammation and gastric neoplasia in mice and humans. J Clin Invest, 121, 1753\u20131767 (2011).","journal-title":"J Clin Invest"},{"key":"BFsrep01543_CR28","first-page":"pe29","volume":"3","author":"B Razani","year":"2010","unstructured":"Razani, B. & Cheng, G. NF-kappaB: much learned, much to learn. Sci Signal, 3, pe29 (2010).","journal-title":"Sci Signal"},{"key":"BFsrep01543_CR29","doi-asserted-by":"crossref","first-page":"252","DOI":"10.1016\/S0166-2236(96)01035-1","volume":"20","author":"LA O'Neill","year":"1997","unstructured":"O'Neill, L. A. & Kaltschmidt, C. NF-kappa B: a crucial transcription factor for glial and neuronal cell function. Trends Neurosci, 20, 252\u2013258 (1997).","journal-title":"Trends Neurosci"},{"key":"BFsrep01543_CR30","doi-asserted-by":"crossref","first-page":"475","DOI":"10.1007\/s00428-005-1264-9","volume":"446","author":"X Dolcet","year":"2005","unstructured":"Dolcet, X. et al. NF-kB in development and progression of human cancer. Virchows Arch, 446, 475\u2013482 (2005).","journal-title":"Virchows Arch"},{"key":"BFsrep01543_CR31","doi-asserted-by":"crossref","first-page":"7","DOI":"10.1172\/JCI11830","volume":"107","author":"PP Tak","year":"2001","unstructured":"Tak, P. P. & Firestein, G. S. NF-kappaB: a key role in inflammatory diseases. J Clin Invest, 107, 7\u201311 (2001).","journal-title":"J Clin Invest"},{"key":"BFsrep01543_CR32","doi-asserted-by":"crossref","first-page":"1291","DOI":"10.1038\/nm1201-1291","volume":"7","author":"T Lawrence","year":"2001","unstructured":"Lawrence, T. et al. Possible new role for NF-kappaB in the resolution of inflammation. Nat Med, 7, 1291\u20131297 (2001).","journal-title":"Nat Med"},{"key":"BFsrep01543_CR33","doi-asserted-by":"crossref","first-page":"807","DOI":"10.1038\/nature06905","volume":"453","author":"J Rius","year":"2008","unstructured":"Rius, J. et al. NF-kappaB links innate immunity to the hypoxic response through transcriptional regulation of HIF-1alpha. Nature, 453, 807\u2013811 (2008).","journal-title":"Nature"},{"key":"BFsrep01543_CR34","doi-asserted-by":"crossref","first-page":"67","DOI":"10.1146\/annurev.pharmtox.39.1.67","volume":"39","author":"TP Dalton","year":"1999","unstructured":"Dalton, T. P. et al. Regulation of gene expression by reactive oxygen. Annu Rev Pharmacol Toxicol, 39, 67\u2013101 (1999).","journal-title":"Annu Rev Pharmacol Toxicol"},{"key":"BFsrep01543_CR35","doi-asserted-by":"crossref","first-page":"749","DOI":"10.1038\/nri1703","volume":"5","author":"M Karin","year":"2005","unstructured":"Karin, M. & Greten, F. R. NF-kappaB: linking inflammation and immunity to cancer development and progression. Nat Rev Immunol, 5, 749\u2013759 (2005).","journal-title":"Nat Rev Immunol"},{"key":"BFsrep01543_CR36","doi-asserted-by":"crossref","first-page":"6758","DOI":"10.1038\/sj.onc.1209943","volume":"25","author":"MS Hayden","year":"2006","unstructured":"Hayden, M. S. et al. NF-kappaB and the immune response. Oncogene, 25, 6758\u20136780 (2006).","journal-title":"Oncogene"},{"key":"BFsrep01543_CR37","doi-asserted-by":"crossref","first-page":"725","DOI":"10.1038\/nri910","volume":"2","author":"Q Li","year":"2002","unstructured":"Li, Q. & Verma, I. M. NF-kappaB regulation in the immune system. Nat Rev Immunol, 2, 725\u2013734 (2002).","journal-title":"Nat Rev Immunol"},{"key":"BFsrep01543_CR38","doi-asserted-by":"crossref","first-page":"16495","DOI":"10.1074\/jbc.M312999200","volume":"279","author":"P Rouet-Benzineb","year":"2004","unstructured":"Rouet-Benzineb, P. et al. Leptin counteracts sodium butyrate-induced apoptosis in human colon cancer HT-29 cells via NF-kappaB signaling. J Biol Chem, 279, 16495\u201316502 (2004).","journal-title":"J Biol Chem"},{"key":"BFsrep01543_CR39","doi-asserted-by":"crossref","first-page":"1231","DOI":"10.1096\/fasebj.13.10.1231","volume":"13","author":"A Bouloumie","year":"1999","unstructured":"Bouloumie, A. et al. Leptin induces oxidative stress in human endothelial cells. FASEB J, 13, 1231\u20131238 (1999).","journal-title":"FASEB J"},{"key":"BFsrep01543_CR40","doi-asserted-by":"crossref","first-page":"696","DOI":"10.1096\/fj.03-0422fje","volume":"18","author":"S Sitaraman","year":"2004","unstructured":"Sitaraman, S. et al. Colonic leptin: source of a novel proinflammatory cytokine involved in IBD. FASEB J, 18, 696\u2013698 (2004).","journal-title":"FASEB J"},{"key":"BFsrep01543_CR41","doi-asserted-by":"crossref","first-page":"684","DOI":"10.1161\/01.CIR.95.3.684","volume":"95","author":"HH Birdsall","year":"1997","unstructured":"Birdsall, H. H. et al. Complement C5a, TGF-beta 1 and MCP-1, in sequence, induce migration of monocytes into ischemic canine myocardium within the first one to five hours after reperfusion. Circulation, 95, 684\u2013692 (1997).","journal-title":"Circulation"},{"key":"BFsrep01543_CR42","doi-asserted-by":"crossref","first-page":"31","DOI":"10.1073\/pnas.98.1.31","volume":"98","author":"C Li","year":"2001","unstructured":"Li, C. & Wong, W. H. Model-based analysis of oligonucleotide arrays: expression index computation and outlier detection. Proc Natl Acad Sci U S A, 98, 31\u201336 (2001).","journal-title":"Proc Natl Acad Sci U S A"},{"key":"BFsrep01543_CR43","doi-asserted-by":"crossref","first-page":"1461","DOI":"10.1093\/bioinformatics\/btn209","volume":"24","author":"K Strimmer","year":"2008","unstructured":"Strimmer, K. fdrtool: a versatile R package for estimating local and tail area-based false discovery rates. Bioinformatics, 24, 1461\u20131462 (2008).","journal-title":"Bioinformatics"},{"key":"BFsrep01543_CR44","doi-asserted-by":"crossref","first-page":"2363","DOI":"10.1101\/gr.1680803","volume":"13","author":"S Peri","year":"2003","unstructured":"Peri, S. et al. Development of human protein reference database as an initial platform for approaching systems biology in humans. Genome Res, 13, 2363\u20132371 (2003).","journal-title":"Genome Res"},{"key":"BFsrep01543_CR45","doi-asserted-by":"crossref","first-page":"25","DOI":"10.1038\/75556","volume":"25","author":"M Ashburner","year":"2000","unstructured":"Ashburner, M. et al. Gene ontology: tool for the unification of biology. The Gene Ontology Consortium. Nat Genet, 25, 25\u201329 (2000).","journal-title":"Nat Genet"},{"key":"BFsrep01543_CR46","doi-asserted-by":"crossref","first-page":"1","DOI":"10.1093\/nar\/gkn923","volume":"37","author":"W Huang da","year":"2009","unstructured":"Huang da, W. et al. Bioinformatics enrichment tools: paths toward the comprehensive functional analysis of large gene lists. Nucleic Acids Res, 37, 1\u201313 (2009).","journal-title":"Nucleic Acids Res"}],"container-title":["Scientific Reports"],"original-title":[],"language":"en","link":[{"URL":"https:\/\/www.nature.com\/articles\/srep01543","content-type":"text\/html","content-version":"vor","intended-application":"text-mining"},{"URL":"https:\/\/www.nature.com\/articles\/srep01543.pdf","content-type":"application\/pdf","content-version":"vor","intended-application":"text-mining"},{"URL":"https:\/\/www.nature.com\/articles\/srep01543.pdf","content-type":"application\/pdf","content-version":"vor","intended-application":"similarity-checking"}],"deposited":{"date-parts":[[2023,1,6]],"date-time":"2023-01-06T06:00:05Z","timestamp":1672984805000},"score":1,"resource":{"primary":{"URL":"https:\/\/www.nature.com\/articles\/srep01543"}},"subtitle":[],"short-title":[],"issued":{"date-parts":[[2013,3,26]]},"references-count":46,"journal-issue":{"issue":"1","published-online":{"date-parts":[[2013,12,20]]}},"alternative-id":["BFsrep01543"],"URL":"https:\/\/doi.org\/10.1038\/srep01543","relation":{},"ISSN":["2045-2322"],"issn-type":[{"value":"2045-2322","type":"electronic"}],"subject":[],"published":{"date-parts":[[2013,3,26]]},"assertion":[{"value":"21 December 2012","order":1,"name":"received","label":"Received","group":{"name":"ArticleHistory","label":"Article History"}},{"value":"11 March 2013","order":2,"name":"accepted","label":"Accepted","group":{"name":"ArticleHistory","label":"Article History"}},{"value":"26 March 2013","order":3,"name":"first_online","label":"First Online","group":{"name":"ArticleHistory","label":"Article History"}},{"value":"The authors declare no competing financial interests.","order":1,"name":"Ethics","group":{"name":"EthicsHeading","label":"Competing interests"}}],"article-number":"1543"}}