Ringold S, Wallace CA: Measuring clinical response and remission in juvenile idiopathic arthritis. Curr Opin Rheumatol. 2007, 19: 471-476. 10.1097/BOR.0b013e32825a6a68.
Article
PubMed
Google Scholar
Jarvis JN: Juvenile rheumatoid arthritis: a guide for pediatricians. Pediatr Ann. 2002, 31: 437-446. 10.3928/0090-4481-20020701-08.
Article
PubMed
Google Scholar
Shenoi S, Wallace CA: Remission in juvenile idiopathic arthritis: current facts. Curr Rheumatol Reports. 2010, 12: 80-86. 10.1007/s11926-010-0085-2.
Article
Google Scholar
Wallace CA, Ruperto N, Giannini E, Childhood Arthritis and Rheumatology Research Alliance, Pediatric Rheumatology International Trials Organization, Pediatric Rheumatology Collaborative Study Group: Preliminary criteria for clinical remission for select categories of juvenile idiopathic arthritis. J Rheumatol. 2004, 31: 2290-2294.
PubMed
Google Scholar
Jarvis JN, Jiang K, Frank MB, Knowlton N, Aggarwal A, Wallace CA, McKee R, Chaser B, Tung C, Smith LB, McGhee JL, Chen Y, Osban J, O'Neil KN, Centola M: Gene expression profiling in neutrophils of children with polyarticular juvenile idiopathic arthritis. Arthritis Rheum. 2009, 60: 1488-1495. 10.1002/art.24450.
Article
PubMed Central
PubMed
Google Scholar
Knowlton N, Jiang K, Frank MB, Aggarwal A, Wallace C, McKee R, Chaser B, Tung C, Smith L, Chen Y, Osban J, O'Neil K, Centola M, McGhee JL, Jarvis JN: The meaning of clinical remission in polyarticular juvenile idiopathic arthritis: gene expression profiling in peripheral blood mononuclear cells identifies distinct disease states. Arthritis Rheum. 2009, 60: 892-900. 10.1002/art.24298.
Article
PubMed Central
CAS
PubMed
Google Scholar
Wallace CA, Huang B, Bandeira M, Ravelli A, Giannini EH: Patterns of clinical remission in select categories of juvenile idiopathic arthritis. Arthritis Rheum. 2005, 52: 3354-3562.
Article
Google Scholar
Shenoi S, Wallace CA: Tumor necrosis factor inhibitors in the management of juvenile idiopathic arthritis: an evidence-based review. Paediatric Drugs. 2010, 12: 367-377. 10.2165/11532610-000000000-00000.
Article
PubMed
Google Scholar
Petty RE, Southwood TR, Manners P, Baum J, Glass DN, Goldenberg J, He X, Maldonado-Cocco J, Orozco-Alcala J, Prieur AM, Suarez-Almazor ME, Woo P: International League of Associations for Rheumatology classification of juvenile idiopathic arthritis: second revision Edmonton, 2001. J Rheumatol. 2004, 31: 390-392.
PubMed
Google Scholar
Diehn M, Sherlock G, Binkley G, Jin H, Matese JC, Hernandez-Boussard T, Rees CA, Cherry JM, Botstein D, Brown PO, Alizadeh AA: SOURCE: a unified genomic resource of functional annotations, ontologies, and gene expression data. Nucleic Acids Research. 2003, 31: 219-223. 10.1093/nar/gkg014.
Article
PubMed Central
CAS
PubMed
Google Scholar
Ashburner M, Ball CA, Blake JA, Botstein D, Butler H, Cherry JM, Davis AP, Dolinski K, Dwight SS, Eppig JT, Harris MA, Hill DP, Issel-Tarver L, Kasarskis A, Lewis S, Matese JC, Richardson JE, Ringwald M, Rubin GM, Sherlock G: Gene ontology: tool for the unification of biology. The Gene Ontology Consortium. Nature Genet. 2000, 25: 25-29. 10.1038/75556.
Article
PubMed Central
CAS
PubMed
Google Scholar
Gentleman RC, Carey VJ, Bates DM, Bolstad B, Dettling M, Dudoit S, Ellis B, Gautier L, Ge Y, Gentry J, Hornik K, Hothorn T, Huber W, Iacus S, Irizarry R, Leisch F, Li C, Maechler M, Rossini AJ, Sawitzki G, Smith C, Smyth G, Tierney L, Yang JY, Zhang J: Bioconductor: open software development for computational biology and bioinformatics. Genome Biology. 2004, 5: R80-10.1186/gb-2004-5-10-r80.
Article
PubMed Central
PubMed
Google Scholar
Piekorz RP, Nemetz C, Hocke GM: Members of the family of IL-6-type cytokines activate Stat5a in various cell types. Biochem Biophys Res Commun. 1997, 236: 438-443. 10.1006/bbrc.1997.6976.
Article
CAS
PubMed
Google Scholar
Huang Q, Jin X, Gaillard ET, Knight BL, Pack FD, Stoltz JH, Jayadev S, Blanchard KT: Gene expression profiling reveals multiple toxicity endpoints induced by hepatotoxicants. Mutat Res. 2004, 549: 147-167. 10.1016/j.mrfmmm.2003.12.020.
Article
CAS
PubMed
Google Scholar
Kim YJ, Song M, Ryu JC: Inflammation in methotrexate-induced pulmonary toxicity occurs via the p38 MAPK pathway. Toxicology. 2009, 256: 183-190. 10.1016/j.tox.2008.11.016.
Article
CAS
PubMed
Google Scholar
Sower LE, Froelich CJ, Allegretto N, Rose PM, Hanna WD, Klimpel GR: Extracellular activities of human granzyme A. Monocyte activation by granzyme A versus alpha-thrombin. J Immunol. 1996, 156: 2585-2590.
CAS
PubMed
Google Scholar
Takeda K, Akira S: STAT family of transcription factors in cytokine-mediated biological responses. Cytokine Growth Factor Rev. 2000, 11: 199-207. 10.1016/S1359-6101(00)00005-8.
Article
CAS
PubMed
Google Scholar
Proskuryakov SY, Konoplyannikov AG, Gabai VL: Necrosis: a specific form of programmed cell death?. Exp Cell Res. 2003, 283: 1-16. 10.1016/S0014-4827(02)00027-7.
Article
CAS
PubMed
Google Scholar
Lovo E, Zhang M, Wang L, Ashton-Rickardt PG: Serine protease inhibitor 6 is required to protect dendritic cells from the kiss of death. J Immunol. 2012, 188: 1057-1063. 10.4049/jimmunol.1102667.
Article
PubMed Central
CAS
PubMed
Google Scholar
Sutherland CL, Chalupny NJ, Schooley K, VandenBos T, Kubin M, Cosman D: UL16-binding proteins, novel MHC class I-related proteins, bind to NKG2D and activate multiple signaling pathways in primary NK cells. J Immunol. 2002, 168: 671-679. 10.4049/jimmunol.168.2.671.
Article
CAS
PubMed
Google Scholar
Andreakos E, Sacre S, Foxwell BM, Feldmann M: The toll-like receptor-nuclear factor kappaB pathway in rheumatoid arthritis. Front Biosci. 2005, 10: 2478-2488. 10.2741/1712.
Article
CAS
PubMed
Google Scholar
Jarvis JN, Petty HR, Tang Y, Frank MB, Tessier PA, Dozmorov I, Jiang K, Kindzelski A, Chen Y, Cadwell C, Turner M, Szodoray P, McGhee JL, Centola M: Evidence for chronic peripheral activation of neutrophils in polyarticular juvenile rheumatoid arthritis. Arthritis Res Ther. 2006, 8: R154-10.1186/ar2048.
Article
PubMed Central
PubMed
Google Scholar
Nakamura N, Shimaoka Y, Tougan T, Onda H, Okuzaki D, Zhao H, Fujimori A, Yabuta N, Nagamori I, Tanigawa A, Sato J, Oda T, Hayashida K, Suzuki R, Yukioka M, Nojima H, Ochi T: Isolation and expression profiling of genes upregulated in bone marrow-derived mononuclear cells of rheumatoid arthritis patients. DNA Res. 2006, 13: 169-183. 10.1093/dnares/dsl006.
Article
CAS
PubMed
Google Scholar
Goëb V, Thomas-L'Otellier M, Daveau R, Charlionet R, Fardellone P, Le Loët X, Tron F, Gilbert D, Vittecoq O: Candidate autoantigens identified by mass spectrometry in early rheumatoid arthritis are chaperones and citrullinated glycolytic enzymes. Arthritis Res Ther. 2009, 11: R38-10.1186/ar2644.
Article
PubMed Central
PubMed
Google Scholar
Belinsky GS, Parke AL, Huang Q, Blanchard K, Jayadev S, Stoll R, Rothe M, Achenie LE, Gupta RR, Wu GY, Rosenberg DW: The contribution of methotrexate exposure and host factors on transcriptional variance in human liver. Toxicol Sci. 2007, 97: 582-594. 10.1093/toxsci/kfm067.
Article
CAS
PubMed
Google Scholar
Cyster JG, Goodnow CC: Tuning antigen receptor signaling by CD22: integrating cues from antigens and the microenvironment. Immunity. 1997, 6: 509-517. 10.1016/S1074-7613(00)80339-8.
Article
CAS
PubMed
Google Scholar
Nitschke L, Carsetti R, Ocker B, Köhler G, Lamers MC: CD22 is a negative regulator of B-cell receptor signalling. Curr Biol. 1997, 7: 133-143. 10.1016/S0960-9822(06)00057-1.
Article
CAS
PubMed
Google Scholar
Netea MG, Azam T, Ferwerda G, Girardin SE, Kim SH, Dinarello CA: Triggering receptor expressed on myeloid cells-1 (TREM-1) amplifies the signals induced by the NACHT-LRR (NLR) pattern recognition receptors. J Leukoc Biol. 2006, 80: 1454-1461. 10.1189/jlb.1205758.
Article
CAS
PubMed
Google Scholar
Dower K, Ellis DK, Saraf K, Jelinsky SA, Lin LL: Innate immune responses to TREM-1 activation: overlap, divergence, and positive and negative cross-talk with bacterial lipopolysaccharide. J Immunol. 2008, 180: 3520-3534. 10.4049/jimmunol.180.5.3520.
Article
CAS
PubMed
Google Scholar
Modur V, Nagarajan R, Evers BM, Milbrandt J: FOXO proteins regulate tumor necrosis factor-related apoptosis inducing ligand expression. Implications for PTEN mutation in prostate cancer. J Biol Chem. 2002, 277: 47928-47937. 10.1074/jbc.M207509200.
Article
CAS
PubMed
Google Scholar
Renshaw SA, Parmar JS, Singleton V, Rowe SJ, Dockrell DH, Dower SK, Bingle CD, Chilvers ER, Whyte MK: Acceleration of human neutrophil apoptosis by TRAIL. J Immunol. 2003, 170: 1027-1033. 10.4049/jimmunol.170.2.1027.
Article
CAS
PubMed
Google Scholar
Wright HL, Moots RJ, Bucknall RC, Edwards SW: Neutrophil function in inflammation and inflammatory diseases. Rheumatology (Oxford). 2010, 49: 1618-1631. 10.1093/rheumatology/keq045.
Article
CAS
Google Scholar
Grivennikov SI, Tumanov AV, Liepinsh DJ, Kruglov AA, Marakusha BI, Shakhov AN, Murakami T, Drutskaya LN, Förster I, Clausen BE, Tessarollo L, Ryffel B, Kuprash DV, Nedospasov SA: Distinct and nonredundant in vivo functions of TNF produced by t cells and macrophages/neutrophils: protective and deleterious effects. Immunity. 2005, 22: 93-104.
CAS
PubMed
Google Scholar
Salamone G, Giordano M, Trevani AS, Gamberale R, Vermeulen M, Schettinni J, Geffner JR: Promotion of neutrophil apoptosis by TNF-alpha. J Immunol. 2001, 3476-3483. 166
van den Berg JM, Weyer S, Weening JJ, Roos D, Kuijpers TW: Divergent effects of tumor necrosis factor alpha on apoptosis of human neutrophils. J Leukoc Biol. 2001, 69: 467-473.
CAS
PubMed
Google Scholar
Cross A, Moots RJ, Edwards SW: The dual effects of TNFalpha on neutrophil apoptosis are mediated via differential effects on expression of Mcl-1 and Bfl-1. Blood. 2008, 111: 878-884. 10.1182/blood-2007-05-087833.
Article
CAS
PubMed
Google Scholar
Barbasi AL, Albert A: Emergence of scaling in networks. Science. 1999, 286: 509-512. 10.1126/science.286.5439.509.
Article
Google Scholar
Jeong H, Tombor B, Oltval ZN, Barabasi A-L: The large-scale organization of metabolic networks. Nature. 2000, 407: 651-654. 10.1038/35036627.
Article
CAS
PubMed
Google Scholar
Frank MB, Wang S, Aggarwal A, Knowlton N, Jiang K, Chen Y, McKee R, Chaser B, McGhee T, Osban J, Jarvis JN: Disease-associated pathophysiologic structures in pediatric rheumatic diseases show characteristics of scale-free networks seen in physiologic systems: implications for pathogenesis and treatment. BMC Med Genomics. 2009, 2: 9-23. 10.1186/1755-8794-2-9.
Article
PubMed Central
CAS
PubMed
Google Scholar
Odom DT, Zizlsperger N, Gordon DB, Bell GW, Rinaldi NJ, Murray HL, Volkert TL, Schreiber J, Rolfe PA, Gifford DK, Fraenkel E, Bell GI, Young RA: Control of pancreas and liver gene expression by HNF transcription factors. Science. 2004, 303: 1378-1381. 10.1126/science.1089769.
Article
PubMed Central
CAS
PubMed
Google Scholar
Ihara A, Yamagata K, Nammo T, Miura A, Yuan M, Tanaka T, Sladek FM, Matsuzawa Y, Miyagawa J, Shimomura I: Functional characterization of the HNF4alpha isoform (HNF4alpha8) expressed in pancreatic beta-cells. Biochem Biophys Res Commun. 2005, 329: 984-990. 10.1016/j.bbrc.2005.02.072.
Article
CAS
PubMed
Google Scholar
Richard M, Drouin R, Beaulieu AD: ABC50, a novel human ATP-binding cassette protein found in tumor necrosis factor-alpha-stimulated synoviocytes. Genomics. 1998, 53: 137-145. 10.1006/geno.1998.5480.
Article
CAS
PubMed
Google Scholar
Wisniewski HG, Hua JC, Poppers DM, Naime D, VilEek J, Cronsteint BN: TNF/IL-1 -inducible protein TSG-6 potentiates plasmin inhibition by inter-alpha-inhibitor and exerts a strong anti-inflammatory effect in vivo. J Immunol. 1996, 156: 1609-1615.
CAS
PubMed
Google Scholar
Fujikado N, Saijo S, Iwakura Y: Identification of arthritis-related gene clusters by microarray analysis of two independent mouse models for rheumatoid arthritis. Arthritis Res Ther. 2006, 8: R100-10.1186/ar1985.
Article
PubMed Central
PubMed
Google Scholar
Chiarini A, Armato U, Pacchiana R, DalPra I: Proteomic analysis of GTP cyclohydrolase 1 multiprotein complexes in cultured normal adult human astrocytes under both basal and cytokine-activated conditions. Proteomics. 2009, 9: 1850-1860. 10.1002/pmic.200800561.
Article
CAS
PubMed
Google Scholar
Sanna MG, da Silva Correia J, Luo Y, Chuang B, Paulson LM, Nguyen B, Deveraux QL, Ulevitch RJ: ILPIP, a novel anti-apoptotic protein that enhances XIAP-mediated activation of JNK1 and protection against apoptosis. J Biol Chem. 2002, 277: 30454-30462. 10.1074/jbc.M203312200.
Article
CAS
PubMed
Google Scholar
Krieg A, Correa RG, Garrison JB, Le Negrate G, Welsh K, Huang Z, Knoefel WT, Reed JC: XIAP mediates NOD signaling via interaction with RIP2. Proc Natl Acad Sci USA. 2009, 106: 14524-14529. 10.1073/pnas.0907131106.
Article
PubMed Central
CAS
PubMed
Google Scholar
Montfort A, de Badts B, Douin-Echinard V, Martin PG, Iacovoni J, Nevoit C, Therville N, Garcia V, Bertrand MA, Bessières MH, Trombe MC, Levade T, Benoist H, Ségui B: FAN stimulates TNF(alpha)-induced gene expression, leukocyte recruitment, and humoral response. J Immunol. 2009, 183: 5369-5378. 10.4049/jimmunol.0803384.
Article
CAS
PubMed
Google Scholar
Cheung C, Akiyama TE, Kudo G, Gonzalez FJ: Hepatic expression of cytochrome P450s in hepatocyte nuclear factor 1-alpha (HNF1alpha)-deficient mice. Biochem Pharmacol. 2003, 66: 2011-2020. 10.1016/S0006-2952(03)00586-0.
Article
CAS
PubMed
Google Scholar
Wang Z, Bishop EP, Burke PA: Expression profile analysis of the inflammatory response regulated by hepatocyte nuclear factor 4 α. BMC Genomics. 2011, 12: 128-10.1186/1471-2164-12-128.
Article
PubMed Central
CAS
PubMed
Google Scholar
Li R, Pei H, Watson DK: Regulation of Ets function by protein-protein interactions. Oncogene. 2000, 19: 6514-6523. 10.1038/sj.onc.1204035.
Article
CAS
PubMed
Google Scholar