A Comprehensive Gene Expression Meta-analysis Identifies Novel Immune Signatures in Rheumatoid Arthritis Patients
Open accessAbstract
Rheumatoid Arthritis (RA), a symmetric polyarticular arthritis, has long been feared as one of the most disabling forms of arthritis. Identification of gene signatures associated with RA onset and progression would lead towards development of novel diagnostics and therapeutic interventions. This study was undertaken to identify unique gene signatures of RA patients through large-scale meta-profiling of a diverse collection of gene expression data sets. We carried out a meta-analysis of 8 publicly available RA patients’ (107 RA patients and 76 healthy controls) gene expression data sets and further validated a few meta-signatures in RA patients through quantitative Real time PCR (RTq-PCR). We identified a robust meta-profile comprising of 33 differentially expressed genes, which were consistently and significantly expressed across all the data sets. Our meta-analysis unearthed upregulation of a few novel gene signatures including PLCG2, HLA-DOB, HLA-F, EIF4E2, and CYFIP2, which were validated in PBMC samples of RA patients. Further, functional and pathway enrichment analysis reveals perturbation of several meta-genes involved in signaling pathways pertaining to inflammation, antigen presentation, hypoxia, and apoptosis during RA. Additionally, PLCG2 (phospholipase Cγ2) popped out as a novel meta-gene involved in most of the pathways relevant to RA including inflammasome activation, platelet aggregation, and activation, thereby suggesting PLCG2 as a potential therapeutic target for controlling excessive inflammation during RA. In conclusion, these findings highlight the utility of meta-analysis approach in identifying novel gene signatures that might provide mechanistic insights into disease onset, progression and possibly lead towards the development of better diagnostic and therapeutic interventions against RA.
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PLCγ2 gene signature is upregulated in peripheral blood mononuclear cells of patients with rheumatoid arthritis.
“PLCγ2 also appears to play a role in the chronic inflammatory disorder, rheumatoid arthritis (RA), as evident by an upregulation of the PLCγ2 gene signature of patient peripheral blood mononuclear cells (111).”
From The role of PLCγ2 in immunological disorders, cancer, and neurodegeneration (2021) · cites this paper as [111]
PLCγ2 is involved in RA-related gene pathways such as inflammasome activation and both platelet aggregation and activation.
“Indeed, PLCγ2 was revealed to be involved in RA-related gene pathways such as inflammasome activation and both platelet aggregation and activation, which makes it a promising drug target to stem inflammation in RA (111).”
From The role of PLCγ2 in immunological disorders, cancer, and neurodegeneration (2021) · cites this paper as [111]
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Controlling the False Discovery Rate: A Practical and Powerful Approach to Multiple Testing
Benjamini, Y., & Hochberg, Y. (1995) · Journal of the Royal Statistical Society Series B: Statistical Methodology · doi:10.1111/j.2517-6161.1995.tb02031.x · Cited by 109,482 · see citing works
Cytoscape: A software Environment for integrated models of biomolecular interaction networks
Shannon, P., Markiel, A., Ozier, O., Baliga, N. S., Wang, J. T., Ramage, D., Amin, N., Schwikowski, B., & Ideker, T. (2003) · Genome Research · doi:10.1101/gr.1239303 · Cited by 51,888 · see citing works
limma powers differential expression analyses for RNA-sequencing and microarray studies
Ritchie, M. E., Phipson, B., Wu, D., Hu, Y., Law, C. W., Shi, W., & Smyth, G. K. (2015) · Nucleic Acids Research · doi:10.1093/nar/gkv007 · Cited by 40,458 · see citing works
Enrichr: interactive and collaborative HTML5 gene list enrichment analysis tool
Chen, E. Y., Tan, C. M., Kou, Y., Duan, Q., Wang, Z., Meirelles, G. V., Clark, N. R., & Ma’ayan, A. (2013) · BMC Bioinformatics · doi:10.1186/1471-2105-14-128 · Cited by 7,814 · see citing works
The Reactome pathway Knowledgebase
Fabregat, A., Sidiropoulos, K., Garapati, P. V., Gillespie, M. E., Hausmann, K., Haw, R., Jassal, B., Jupe, S., Korninger, F., McKay, S., et al. (2015) · Nucleic Acids Research · doi:10.1093/nar/gkv1351 · Cited by 5,568 · see citing works
The Pathogenesis of Rheumatoid Arthritis
McInnes, I. B., & Schett, G. (2011) · New England Journal of Medicine · doi:10.1056/nejmra1004965 · Cited by 5,514 · see citing works
affy—analysis of Affymetrix GeneChip data at the probe level
Gautier, L., Cope, L., Bolstad, B. M., & Irizarry, R. A. (2004) · Bioinformatics · doi:10.1093/bioinformatics/btg405 · Cited by 5,221 · see citing works
Bone Resorption by Osteoclasts
Teitelbaum, S. L. (2000) · Science · doi:10.1126/science.289.5484.1504 · Cited by 3,962 · see citing works
BioGRID: a general repository for interaction datasets
Stark, C. (2006) · Nucleic Acids Research · doi:10.1093/nar/gkj109 · Cited by 3,960 · see citing works
Evolving concepts of rheumatoid arthritis
Firestein, G. S. (2003) · Nature · doi:10.1038/nature01661 · Cited by 3,601 · see citing works
Human Protein Reference Database--2009 update
Prasad, T. S. K., Goel, R., Kandasamy, K., Keerthikumar, S., Kumar, S., Mathivanan, S., Telikicherla, D., Raju, R., Shafreen, R. B., Venugopal, A., et al. (2008) · Nucleic Acids Research · doi:10.1093/nar/gkn892 · Cited by 3,241 · see citing works
Cytokines in the pathogenesis of rheumatoid arthritis
McInnes, I. B., & Schett, G. A. (2007) · Nature reviews. Immunology · doi:10.1038/nri2094 · Cited by 2,523 · see citing works
The Database of Interacting Proteins: 2004 update
Salwinski, L. (2004) · Nucleic Acids Research · doi:10.1093/nar/gkh086 · Cited by 2,271 · see citing works
DrugBank 4.0: shedding new light on drug metabolism
Law, V., Knox, C., Djoumbou-Feunang, Y., Jewison, T., Guo, A. C., Liu, Y., Maciejewski, A., Arndt, D., Wilson, M., Neveu, V., et al. (2013) · Nucleic Acids Research · doi:10.1093/nar/gkt1068 · Cited by 1,995 · see citing works
The Reactome pathway knowledgebase
Croft, D., Mundo, A. F., Haw, R., Milacic, M., Weiser, J., Wu, G., Caudy, M., Garapati, P., Gillespie, M., Kamdar, M. R., et al. (2014) · Nucleic Acids Research · doi:10.1093/nar/gkt1102 · Cited by 1,889 · see citing works
The MIntAct project—IntAct as a common curation platform for 11 molecular interaction databases
Orchard, S. E., Ammari, M. G., Aranda, B., Breuza, L., Briganti, L., Broackes-Carter, F. C., Campbell, N. H., Chavali, G. B., Chen, C. C. L., del‐Toro, N., et al. (2013) · Nucleic Acids Research · doi:10.1093/nar/gkt1115 · Cited by 1,835 · see citing works
Activities at the Universal Protein Resource (UniProt)
The UniProt Consortium (2013) · Nucleic Acids Research · doi:10.1093/nar/gkt1140 · Cited by 1,736 · see citing works
Mi, H., Muruganujan, A., & Thomas, P. D. (2012) · Nucleic Acids Research · doi:10.1093/nar/gks1118 · Cited by 1,693 · see citing works
Hornbeck, P. V., Kornhauser, J. M., Tkachev, S., Zhang, B., Skrzypek, E., Murray, B. W., Latham, V. M., & Sullivan, M. (2011) · Nucleic Acids Research · doi:10.1093/nar/gkr1122 · Cited by 1,636 · see citing works
PID: the Pathway Interaction Database
Schaefer, C. F., Anthony, K., Krupa, S., Buchoff, J., Day, M., Hannay, T., & Buetow, K. H. (2009) · Nucleic Acids Research · doi:10.1093/nar/gkn653 · Cited by 1,603 · see citing works
BIND--The Biomolecular Interaction Network Database
Bader, G. D. (2001) · Nucleic Acids Research · doi:10.1093/nar/29.1.242 · Cited by 1,556 · see citing works
CORUM: the comprehensive resource of mammalian protein complexes—2009
Ruepp, A., Wägele, B., Lechner, M., Brauner, B., Dunger-Kaltenbach, I., Fobo, G., Frishman, G., Montrone, C., & Mewes, H. (2009) · Nucleic Acids Research · doi:10.1093/nar/gkp914 · Cited by 1,320 · see citing works
BIND: the Biomolecular Interaction Network Database
Bader, G. D. (2003) · Nucleic Acids Research · doi:10.1093/nar/gkg056 · Cited by 1,113 · see citing works
Pathway Commons, a web resource for biological pathway data
Cerami, E. G., Gross, B. E., Demir, E., Rodchenkov, I., Babur, O., Anwar, N., Schultz, N., Bader, G. D., & Sander, C. (2011) · Nucleic Acids Research · doi:10.1093/nar/gkq1039 · Cited by 1,101 · see citing works
A community-driven global reconstruction of human metabolism
Thiele, I., Swainston, N., Fleming, R. M. T., Hoppe, A., Sahoo, S., Aurich, M. K., Haraldsdottir, H., Mo, M. L., Rolfsson, O., Stobbe, M. D., et al. (2013) · Nature Biotechnology · doi:10.1038/nbt.2488 · Cited by 1,019 · see citing works
New therapies for treatment of rheumatoid arthritis
Smolen, J. S., Aletaha, D., Koeller, M., Weisman, M. H., & Emery, P. (2007) · The Lancet · doi:10.1016/s0140-6736(07)60784-3 · Cited by 983 · see citing works
Therapeutic strategies for rheumatoid arthritis
Smolen, J. S., & Steiner, G. E. (2003) · Nature Reviews Drug Discovery · doi:10.1038/nrd1109 · Cited by 915 · see citing works
Understanding the dynamics: pathways involved in the pathogenesis of rheumatoid arthritis.
Choy, E. (2012) · Rheumatology · doi:10.1093/rheumatology/kes113 · Cited by 816 · see citing works
Whitlock, M. C. (2005) · Journal of Evolutionary Biology · doi:10.1111/j.1420-9101.2005.00917.x · Cited by 758 · see citing works
Hsu, S.-D., Tseng, Y.-T., Shrestha, S., Lin, Y.-L., Khaleel, A., Chou, C.-H., Chu, C.-F., Huang, H.-Y., Lin, C.-M., Ho, S., et al. (2013) · Nucleic Acids Res. · doi:10.1093/nar/gkt1266 · Cited by 710 · see citing works
WikiPathways: Pathway Editing for the People
Pico, A. R., Kelder, T., van Iersel, M. P., Hanspers, K., Conklin, B. R., & Evelo, C. (2008) · PLoS Biology · doi:10.1371/journal.pbio.0060184 · Cited by 701 · see citing works
A human functional protein interaction network and its application to cancer data analysis
Wu, G., Feng, X., & Stein, L. (2010) · Genome Biology · doi:10.1186/gb-2010-11-5-r53 · Cited by 692 · see citing works
The ChEBI reference database and ontology for biologically relevant chemistry: enhancements for 2013
Hastings, J., de Matos, P., Dekker, A., Ennis, M., Harsha, B., Kale, N., Muthukrishnan, V., Owen, G. I., Turner, S., Williams, M., et al. (2012) · Nucleic Acids Res. · doi:10.1093/nar/gks1146 · Cited by 613 · see citing works
The Influence of HLA-DRB1 Genes on Disease Severity in Rheumatoid Arthritis
Weyand, C. M., Hicok, K. C., Conn, D. L., & Goronzy, J. J. (1992) · Annals of Internal Medicine · doi:10.7326/0003-4819-117-10-801 · Cited by 517 · see citing works
Computational prediction of human metabolic pathways from the complete human genome
Romero, P. R., Wagg, J., GREEN, M. L., Kaiser, D., Krummenacker, M., & Karp, P. D. (2004) · Genome biology · doi:10.1186/gb-2004-6-1-r2 · Cited by 512 · see citing works
Nadkarni, S., Mauri, C., & Ehrenstein, M. R. (2007) · The Journal of Experimental Medicine · doi:10.1084/jem.20061531 · Cited by 506 · see citing works
NetPath: a public resource of curated signal transduction pathways
Kandasamy, K., Mohan, S. S., Raju, R., Keerthikumar, S., Kumar, G. S. S., Venugopal, A. K., Telikicherla, D., Navarro, J. D., Mathivanan, S., Pecquet, C., et al. (2010) · Genome biology · doi:10.1186/gb-2010-11-1-r3 · Cited by 506 · see citing works
Factors predicting response to treatment in rheumatoid arthritis: The importance of disease duration
Anderson, J. J., Wells, G. A., Verhoeven, A. C., & Felson, D. T. (2000) · Arthritis & Rheumatism · doi:10.1002/1529-0131(200001)43:1 · Cited by 500 · see citing works
SMPDB 2.0: Big Improvements to the Small Molecule Pathway Database
Jewison, T., Su, Y., Disfani, F. M., Liang, Y., Knox, C., Maciejewski, A., Poelzer, J., Huynh, J., Zhou, Y. L., Arndt, D., et al. (2013) · Nucleic Acids Research · doi:10.1093/nar/gkt1067 · Cited by 476 · see citing works
Wingender, E. (2008) · Briefings in Bioinformatics · doi:10.1093/bib/bbn016 · Cited by 436 · see citing works
Nakahara, H., Song, J., Sugimoto, M., Hagihara, K., Kishimoto, T., Yoshizaki, K., & Nishimoto, N. (2003) · Arthritis & Rheumatism · doi:10.1002/art.11143 · Cited by 391 · see citing works
The Comparative Toxicogenomics Database's 10th year anniversary: update 2015
Davis, A. P., Grondin, C., Lennon-Hopkins, K., Saraceni-Richards, C. A., Sciaky, D., King, B. L., Wiegers, T. C., & Mattingly, C. J. (2014) · Nucleic Acids Research · doi:10.1093/nar/gku935 · Cited by 388 · see citing works
Angiogenesis in rheumatoid arthritis.
Paleolog, E. M. (2002) · Arthritis Research · doi:10.1186/ar575 · Cited by 354 · see citing works
Woetzel, D., Huber, R., Kupfer, P., Pohlers, D., Pfaff, M., Driesch, D., Häupl, T., Koczan, D., Stiehl, P., Guthke, R., et al. (2014) · Arthritis Research & Therapy · doi:10.1186/ar4526 · Cited by 278 · see citing works
Nies, A. T., Niemi, M., Burk, O., Winter, S., Zanger, U. M., Stieger, B., Schwab, M. G., & Schaeffeler, E. (2013) · Genome Medicine · doi:10.1186/gm405 · Cited by 268 · see citing works
Hong, F., & Rainer Breitling, A. (2008) · Bioinformatics · doi:10.1093/bioinformatics/btm620 · Cited by 240 · see citing works
The role of interleukin-17 in the pathogenesis of rheumatoid arthritis
Gaffen, S. L. (2009) · Current Rheumatology Reports · doi:10.1007/s11926-009-0052-y · Cited by 238 · see citing works
Rudan, I., Sidhu, S., Papana, A., Meng, S., Xinwei, Y., Wang, W., Campbell–Page, R. M., Demaio, S., Nair, H., Sridhar, D., et al. (2015) · Europe PMC (PubMed Central) · doi:10.7189/jogh.05.010409 · Cited by 237 · see citing works
Vaccine Activation of the Nutrient Sensor GCN2 in Dendritic Cells Enhances Antigen Presentation
Ravindran, R., Khan, N., Nakaya, H. I., Li, S., Loebbermann, J., Maddur, M. S., Park, Y. H., Jones, D. P., Chappert, P., Davoust, J. M., et al. (2013) · Science · doi:10.1126/science.1246829 · Cited by 222 · see citing works
Self-citationAngiogenesis as a target in rheumatoid arthritis
Koch, A. E. (2003) · Annals of the Rheumatic Diseases · doi:10.1136/ard.62.suppl_2.ii60 · Cited by 204 · see citing works
Epidemiological and clinical aspects relating to the variability of rheumatoid arthritis
Abdel-Nasser, A. M., Rasker, J. J., & Vaikenburg, H. A. (1997) · Seminars in Arthritis and Rheumatism · doi:10.1016/s0049-0172(97)80012-1 · Cited by 198 · see citing works
A Novel 4EHP-GIGYF2 Translational Repressor Complex Is Essential for Mammalian Development
Morita, M., Ler, L. W., Fabian, M. R., Siddiqui, N., Mullin, M. J., Henderson, V. C., Alain, T., Fonseca, B. D., Karashchuk, G., Bennett, C. F., et al. (2012) · Molecular and Cellular Biology · doi:10.1128/mcb.00455-12 · Cited by 198 · see citing works
Roles of B cells in rheumatoid arthritis.
Silverman, G. J., & Carson, D. A. (2003) · Arthritis Research · doi:10.1186/ar1010 · Cited by 182 · see citing works
The consequences of rheumatoid arthritis: quality of life measures in the individual patient.
Pollard, L., Choy, E., & Scott, D. L. (2005) · PubMed · Cited by 171 · see citing works
UniChem: a unified chemical structure cross-referencing and identifier tracking system
Chambers, J. K., Davies, M., Gaulton, A., Hersey, A., Velankar, S. S., Petryszak, R., Hastings, J., Bellis, L. J., McGlinchey, S., & Overington, J. P. (2013) · Journal of Cheminformatics · doi:10.1186/1758-2946-5-3 · Cited by 168 · see citing works
Molecular signatures and new candidates to target the pathogenesis of rheumatoid arthritis
Ungethuem, U., Haeupl, T., Witt, H., Koczan, D., Krenn, V., Huber, H., Helversen, T. V., Drungowski, M., Seyfert, C., Zacher, J., et al. (2010) · Physiological Genomics · doi:10.1152/physiolgenomics.00004.2010 · Cited by 150 · see citing works
Huber, R., Hummert, C., Gausmann, U., Pohlers, D., Koczan, D., Guthke, R., & Kinne, R. W. (2008) · Arthritis Research & Therapy · doi:10.1186/ar2485 · Cited by 115 · see citing works
The link of biocompatibility to cytokine production
Panichi, V., MIGLIORI, M., Pietro, S. D., Taccola, D., Andreini, B., Metelli, M. R., Giovannini, L., & Palla, R. (2000) · Kidney International · doi:10.1046/j.1523-1755.2000.07612.x · Cited by 111 · see citing works
Baum, R., Sharma, S., Carpenter, S. B., Li, Q., Busto, P., Fitzgerald, K. A., Marshak‐Rothstein, A., & Gravallese, E. M. (2014) · The Journal of Immunology · doi:10.4049/jimmunol.1402573 · Cited by 104 · see citing works
Devauchelle‐Pensec, V., Marion, S., Cagnard, N., Mistou, S., Falgarone, G., Bréban, M., Letourneur, F., Pitaval, A., Alibert, O., Lucchesi, C., et al. (2004) · Genes and Immunity · doi:10.1038/sj.gene.6364132 · Cited by 92 · see citing works
Chae, J. J., Park, Y. H., Park, C., Hwang, I., Hoffmann, P., Kehrl, J. H., Aksentijevich, I., & Kastner, D. L. (2015) · Arthritis & Rheumatology · doi:10.1002/art.38961 · Cited by 89 · see citing works
INOH: ontology-based highly structured database of signal transduction pathways
Yamamoto, S., Sakai, N., Nakamura, H., Fukagawa, H., Fukuda, K., & Takagi, T. (2011) · Database · doi:10.1093/database/bar052 · Cited by 74 · see citing works
Uniacke, J., Perera, J. K., Lachance, G., Francisco, C. B., & Lee, S. (2014) · Cancer Research · doi:10.1158/0008-5472.can-13-2278 · Cited by 70 · see citing works
5-Lipoxygenase Inhibitors Attenuate TNF-α-Induced Inflammation in Human Synovial Fibroblasts
Lin, H., Lin, T., Wu, M., Chiu, Y., Tang, C., Hour, M., Liou, H., Tu, H., Yang, R., & Fu, W. (2014) · PLoS ONE · doi:10.1371/journal.pone.0107890 · Cited by 69 · see citing works
Precise generation of systems biology models from KEGG pathways
Wrzodek, C., Büchel, F., Ruff, M., Dräger, A., & Zell, A. (2013) · BMC Systems Biology · doi:10.1186/1752-0509-7-15 · Cited by 64 · see citing works
CYFIP2, a Direct p53 Target, is Leptomycin-B Sensitive
Jackson II, R. S., Cho, Y.-J., Stein, S., & Liang, P. (2007) · Cell Cycle · doi:10.4161/cc.6.1.3665 · Cited by 54 · see citing works
Clinical implication of human leukocyte antigen ( HLA )‐ F expression in breast cancer
Harada, A., Ishigami, S., Kijima, Y., Nakajo, A., Arigami, T., Kurahara, H., Kita, Y., Yoshinaka, H., & Natsugoe, S. (2015) · Pathology International · doi:10.1111/pin.12343 · Cited by 49 · see citing works
Meskó, B., Póliska, S., Váncsa, A., Szekanecz, Z., Palatka, K., Holló, Z., Horváth, A., Steiner, L., Zahuczky, G., Podani, J., et al. (2013) · Genome Medicine · doi:10.1186/gm463 · Cited by 44 · see citing works
PILRα Negatively Regulates Mouse Inflammatory Arthritis
Sun, Y., Caplazi, P., Zhang, J., Mazloom, A., Kummerfeld, S., Quinones, G. A., Senger, K., Lesch, J., Peng, I., Sebrell, A., et al. (2014) · The Journal of Immunology · doi:10.4049/jimmunol.1400045 · Cited by 39 · see citing works
Bausinger, J., & Speit, G. (2016) · Mutagenesis · doi:10.1093/mutage/gew021 · Cited by 38 · see citing works
Podsiadło, A., Wrzesień, M., Paja, W., Rudnicki, W. R., & Wilczyński, B. (2013) · BMC Systems Biology · doi:10.1186/1752-0509-7-s6-s16 · Cited by 29 · see citing works
Meskó, B., Póliska, S., Szamosi, S., Szekanecz, Z., Podani, J., Váradi, C., Guttman, A., & Nagy, L. (2012) · The Journal of Rheumatology · doi:10.3899/jrheum.110961 · Cited by 27 · see citing works
Kang, Y., Zeng, W., Song, W., Reinhold, B. B., Choi, J., Brusić, V., Yamashita, T., Munshi, A., Li, C., Minvielle, S., et al. (2013) · British Journal of Haematology · doi:10.1111/bjh.12544 · Cited by 17 · see citing works
Stückenschneider, K., Merz, J., Milman, V., & Schembecker, G. (2013) · Journal of Cheminformatics · doi:10.1186/1758-2946-5-s1-o11 · Cited by 8 · see citing works
Antonioli, C. M., Franceschini, F., Cavazzana, I., Airó, P., Danieli, E., Bettoni, R., & Cattaneo, R. (2002) · Arthritis Research · doi:10.1186/ar527 · Cited by 7 · see citing works
Early T cell development can be traced in rat fetal liver
Alonso-C., L. M., Múñoz, J. J., & Zapata, A. G. (2000) · European Journal of Immunology · doi:10.1002/1521-4141(200012)30:12 · Cited by 6 · see citing works
Phosphorylation of serine 523 on 5-lipoxygenase in human B lymphocytes
Mahshid, Y., Markoutsa, S., Dinçbas‐Renqvist, V., Sürün, D., Christensson, B., Sander, B., Björkholm, M., Sorg, B. L., Rådmark, O., & Claesson, H. (2015) · Prostaglandins Leukotrienes and Essential Fatty Acids · doi:10.1016/j.plefa.2015.06.003 · Cited by 6 · see citing works
Flagged first, then by citations
2 of the 79 references couldn’t be matched to a known paper.
Cited by
Sorted by citations
The role of PLCγ2 in immunological disorders, cancer, and neurodegeneration
Jackson, J. T., Mulazzani, E., Nutt, S. L., & Masters, S. L. (2021) · Journal of Biological Chemistry · doi:10.1016/j.jbc.2021.100905 · Cited by 113 · see citing works
A survey of gene expression meta-analysis: methods and applications
Dominguez, D. T., Villatoro-García, J. A., Martorell‐Marugán, J., Montoya, Y. R., Alarcón-Riquelme, M. E., & Carmona‐Sáez, P. (2020) · Briefings in Bioinformatics · doi:10.1093/bib/bbaa019 · Cited by 95 · see citing works
The Emerging Roles of Human Leukocyte Antigen-F in Immune Modulation and Viral Infection
Lin, A., & Yan, W. (2019) · Frontiers in Immunology · doi:10.3389/fimmu.2019.00964 · Cited by 70 · see citing works
Zhao, Z., He, S., Yu, X., Lai, X., Tang, S., Akkawi, M. M. E., Wang, M., Yan, H., Huang, X., Zeng, S., et al. (2022) · Frontiers in Immunology · doi:10.3389/fimmu.2022.954848 · Cited by 54 · see citing works
Inflammasome and Its Therapeutic Targeting in Rheumatoid Arthritis
Jiang, Q., Wang, X., Huang, E., Wang, Q., Wen, C., Yang, G., Lu, L., & Cui, D. (2022) · Frontiers in Immunology · doi:10.3389/fimmu.2021.816839 · Cited by 55 · see citing works
Rychkov, D., Neely, J. A., Oskotsky, T., Yu, S., Perlmutter, N., Nititham, J., Carvidi, A. B., Krueger, M. A., Gross, A., Criswell, L. A., et al. (2021) · Frontiers in Immunology · doi:10.3389/fimmu.2021.638066 · Cited by 47 · see citing works
Long, N. P., Park, S., Anh, N. H., Min, J. E., Yoon, S. J., Kim, H. M., Nghi, T. D., Lim, D. K., Park, J. H., Lim, J., et al. (2019) · Journal of Clinical Medicine · doi:10.3390/jcm8010050 · Cited by 42 · see citing works
PANoptosis in autoimmune diseases interplay between apoptosis, necrosis, and pyroptosis
Liu, K., Wang, M., Li, D., Duong, N. T. D., Liu, Y., Ma, J., Xin, K., & Zhou, Z. (2024) · Frontiers in Immunology · doi:10.3389/fimmu.2024.1502855 · Cited by 35 · see citing works
de la Calle‐Fabregat, C., Niemantsverdriet, E., Cañete, J. D. D., Li, T., Mil, A. H. M. V. D. H., Rodríguez‐Ubreva, J., & Ballestar, E. (2021) · Arthritis & Rheumatology · doi:10.1002/art.41885 · Cited by 32 · see citing works
Expression of AIM2 in Rheumatoid Arthritis and Its Role on Fibroblast-Like Synoviocytes
Chen, Y., Fujuan, Q., Chen, E., Yu, B., Zuo, F., Yuan, Y., Zhao, X., & Xiao, C. (2020) · Mediators of Inflammation · doi:10.1155/2020/1693730 · Cited by 32 · see citing works
Analysis of Microarray-Identified Genes and MicroRNAs Associated with Idiopathic Pulmonary Fibrosis
Fan, L., Yu, X., Huang, Z., Zheng, S., Zhou, Y., Lv, H., Zeng, Y., Xu, J., Zhu, X., & Yi, X. (2017) · Mediators of Inflammation · doi:10.1155/2017/1804240 · Cited by 27 · see citing works
Anaparti, V., Agarwal, P., Smolik, I., Mookherjee, N., & El-Gabalawy, H. S. (2019) · The Journal of Rheumatology · doi:10.3899/jrheum.190376 · Cited by 23 · see citing works
Neely, J. A., Rychkov, D., Paranjpe, M. D., Waterfield, M. R., Kim, H., & Sirota, M. (2019) · ACR Open Rheumatology · doi:10.1002/acr2.11081 · Cited by 20 · see citing works
Zhang, D., Li, Z., Zhang, R., Yang, X., Zhang, D., Li, Q., Wang, C., Yang, X., & Xiong, Y. (2020) · Autoimmunity · doi:10.1080/08916934.2020.1786069 · Cited by 20 · see citing works
Li, K., Ran, B., Wang, Y., Liu, L., & Li, W. (2022) · Frontiers in Cell and Developmental Biology · doi:10.3389/fcell.2022.999061 · Cited by 18 · see citing works
Inflammasomes in rheumatoid arthritis: a pilot study
Jiang, Q., Wang, X., Xu, X., Hu, L., Zhou, G., Liu, R., Yang, G., & Cui, D. (2023) · BMC Rheumatology · doi:10.1186/s41927-023-00353-8 · Cited by 16 · see citing works
DExMA: An R Package for Performing Gene Expression Meta-Analysis with Missing Genes
Villatoro-García, J. A., Martorell‐Marugán, J., Dominguez, D. T., Montoya, Y. R., Femia, P., & Carmona‐Sáez, P. (2022) · Mathematics · doi:10.3390/math10183376 · Cited by 15 · see citing works
Waksmunski, A. R., Grunin, M., Kinzy, T. G., Igo, R. P., Haines, J. L., Cooke Bailey, J. N., & for the International Age-Related Macular Degeneration Genomics Consortium (2019) · Investigative Opthalmology & Visual Science · doi:10.1167/iovs.19-27827 · Cited by 14 · see citing works
Zeng, L., Chen, K., Xiao, F., Zhu, C.-Y., Bai, J., Tan, S., Li, L., Wang, Y., & Zhou, Q. (2023) · Frontiers in Immunology · doi:10.3389/fimmu.2023.1161476 · Cited by 14 · see citing works
Significance of pyroptosis-related gene in the diagnosis and classification of rheumatoid arthritis
Li, J., Cui, Y., Jin, X., Ruan, H., He, D., Che, X., Gao, J., Zhang, H., Guo, J., & Zhang, J. (2023) · Frontiers in Endocrinology · doi:10.3389/fendo.2023.1144250 · Cited by 14 · see citing works
Gao, M., Liu, X., Du, M., Gu, H., Xu, H., & Zhong, X. (2023) · BMC Pregnancy and Childbirth · doi:10.1186/s12884-023-05693-4 · Cited by 13 · see citing works
The genetics behind inflammasome regulation
Yamada, S. M., & Pontillo, A. (2022) · Molecular Immunology · doi:10.1016/j.molimm.2022.03.005 · Cited by 13 · see citing works
Inflammatory bowel disease and rheumatoid arthritis share a common genetic structure
Cao, G., Luo, Q., Wu, Y., & Chen, G. (2024) · Frontiers in Immunology · doi:10.3389/fimmu.2024.1359857 · Cited by 12 · see citing works
Pharmacogenetics of therapies in rheumatoid arthritis: An update
Babiker-Mohamed, M. H., Bhandari, S., & Ranganathan, P. (2024) · Best Practice & Research Clinical Rheumatology · doi:10.1016/j.berh.2024.101974 · Cited by 12 · see citing works
Cell-specific gene networks and drivers in rheumatoid arthritis synovial tissues
Pélissier, A., Laragione, T., Gulko, P. S., & Martínez, M. R. (2024) · Frontiers in Immunology · doi:10.3389/fimmu.2024.1428773 · Cited by 12 · see citing works
Amino acid starvation enhances vaccine efficacy by augmenting neutralizing antibody production
Afroz, S., Shama, S., Battu, S., Matin, S., Solouki, S., Elmore, J. P., Minhas, G., Huang, W., August, A., & Khan, N. (2019) · Science Signaling · doi:10.1126/scisignal.aav4717 · Cited by 12 · see citing works
Self-citationMotlana, M. K., & Ngoepe, M. (2023) · International Journal of Molecular Sciences · doi:10.3390/ijms24097886 · Cited by 9 · see citing works
Cavalli, M., Eriksson, N., Sundbaum, J. K., Wallenberg, M., Kohnke, H., Baecklund, E., Hallberg, P., & Wadelius, M. (2022) · Pharmacogenomics · doi:10.2217/pgs-2022-0074 · Cited by 9 · see citing works
Ahmed, M. M., Tazyeen, S., Haque, S., Alsulimani, A., Ali, R., Sajad, M., Alam, A., Ali, S., Bagabir, R. A., Bagabir, R. A., et al. (2022) · Frontiers in Cardiovascular Medicine · doi:10.3389/fcvm.2021.755321 · Cited by 8 · see citing works
Kanaparthi, K. J., Afroz, S., Minhas, G., Moitra, A., Khan, R. A., Medikonda, J., Naz, S., Cholleti, S. N., Banerjee, S., & Khan, N. (2022) · Immunology Letters · doi:10.1016/j.imlet.2022.01.001 · Cited by 8 · see citing works
Self-citationPhospholipase C-γ as a Potential Therapeutic Target for Graves’ Orbitopathy
Roh, T. H., Chae, M. K., Ko, J., Kikkawa, D. O., Jang, S. Y., & Yoon, J. S. (2023) · Endocrinology and Metabolism · doi:10.3803/enm.2023.1780 · Cited by 7 · see citing works
Fluorogenic XY-69 in Lipid Vesicles for Measuring Activity of Phospholipase C Isozymes
Carr, A. J., Siraliev-Perez, E., Huang, W., Sondek, J., & Zhang, Q. (2021) · Methods in molecular biology · doi:10.1007/978-1-0716-1142-5_17 · Cited by 7 · see citing works
Wang, B., Xiong, Y., Ren, L., & Zhang, S. (2023) · Inflammopharmacology · doi:10.1007/s10787-023-01363-1 · Cited by 6 · see citing works
Tyagi, N., Mehla, K., & Gupta, D. K. (2023) · PLoS ONE · doi:10.1371/journal.pone.0281637 · Cited by 9 · see citing works
Zheng, Q., Lan, Y., Chen, J., & Lin, L. (2025) · Frontiers in Immunology · doi:10.3389/fimmu.2025.1606201 · Cited by 5 · see citing works
Towards Automated Meta-Analysis of Clinical Trials: An Overview
Christopoulou, S. C. (2023) · BioMedInformatics · doi:10.3390/biomedinformatics3010009 · Cited by 5 · see citing works
Pélissier, A., Laragione, T., Harris, C. L., Martínez, M. R., & Gulko, P. S. (2024) · Life Science Alliance · doi:10.26508/lsa.202402808 · Cited by 5 · see citing works
Choudhury, K., Khadanga, A., & Purty, R. S. (2024) · In Silico Pharmacology · doi:10.1007/s40203-024-00204-5 · Cited by 4 · see citing works
Pélissier, A., Laragione, T., Harris, C. L., Martínez, M. R., & Gulko, P. S. (2023) · bioRxiv (Cold Spring Harbor Laboratory) · doi:10.1101/2023.12.28.573506 · Cited by 3 · see citing works
Ravindranath, M. H., Ravindranath, N. M., Amato-Menker, C. J., Hilali, F. E., Selvan, S. R., Filippone, E. J., & Morales-Buenrostro, L. E. (2023) · Antibodies · doi:10.3390/antib12020026 · Cited by 2 · see citing works
Ruíz Moleón, V., Fotouhi, M., Alende, C., Ayoubi, R., Bedford, L. M., Southern, K., Richardson, T. I., Laflamme, C., NeuroSGC/YCharOS/EDDU collaborative group, & ABIF consortium (2024) · F1000Research · doi:10.12688/f1000research.146156.1 · Cited by 1 · see citing works
Das, S., Adiody, S., Varghese, J., & John, M. (2025) · Journal of Immunoassay and Immunochemistry · doi:10.1080/15321819.2025.2502430 · Cited by 1 · see citing works
Choudhury, K., Chakraborty, N., Gandhi, M., Chatterjee, S., & Purty, R. S. (2022) · Journal of Applied Biology & Biotechnology · doi:10.7324/jabb.2022.100416 · Cited by 1 · see citing works
Functional dissection of noncoding variants associated with rheumatoid arthritis
Jajodia, A., Mishra, A., Jayavelu, N. D., Lambert, K., Moss, N., Yang, Z., Cerosaletti, K. M., Buckner, J. H., & Hawkins, R. D. (2025) · Annals of the Rheumatic Diseases · doi:10.1016/j.ard.2025.04.001 · Cited by 1 · see citing works
Cell-Specific Gene Networks and Drivers in Rheumatoid Arthritis Synovial TissuesPreprint
Pélissier, A., Laragione, T., Gulko, P. S., & Martínez, M. R. (2023) · bioRxiv (Cold Spring Harbor Laboratory) · doi:10.1101/2023.12.28.573505 · Cited by 1 · see citing works
Gao, M., Liu, X., Du, M., Gu, H., Xu, H., & Zhong, X. (2023) · Figshare · doi:10.6084/m9.figshare.23167724
Muhammad Shaham, N., Das, P. P., Ijasul Haque, M., & Khanna, M. (2024) · Indian Journal of Orthopaedics Surgery · doi:10.18231/j.ijos.2024.015
Gao, M., Liu, X., Du, M., Gu, H., Xu, H., & Zhong, X. (2023) · Figshare · doi:10.6084/m9.figshare.23167727
Additional file 1 of Inflammasomes in rheumatoid arthritis: a pilot study
Jiang, Q., Wang, X., Xu, X., Hu, L., Zhou, G., Liu, R., Yang, G., & Cui, D. (2024) · Figshare · doi:10.6084/m9.figshare.26633778
Choi, Y., Kim, T., Kim, H. J., Lee, D., & Lee, K. E. (2025) · EULAR Rheumatology Open · doi:10.1016/j.ero.2025.11.022
Li, C., Wu, R.-E., & Chen, B. T. (2026) · International Journal of Molecular Sciences · doi:10.3390/ijms27093708
- Authors
- Afroz, S., Giddaluru, J., Vishwakarma, S., Naz, S., Khan, A. A., & Khan, N.
- Affiliations
- University of Hyderabad (IN)
- Deccan College of Medical Sciences (IN)
- Corresponding author
- Khan, Nooruddin
- Venue
- Frontiers in Immunology
- Publisher
- Frontiers Media SA
- Published
- 2017-02-02
- Volume
- 8
- Pages
- 74-74
- ISSN
- 1664-3224 (ISSN-L)
- PMC
- PMC5288395
- OpenAlex
- W2585020362
- Cited by
- 50
- References
- 79
- Citations by year
- 2026: 1 · 2025: 4 · 2024: 9 · 2023: 13 · 2022: 9 · 2021: 4 · 2020: 3 · 2019: 6 · 2017: 1
- FWCI
- 2.39
- Type
- journal article
- Language
- en
- Open access
- gold
- doi.org
- Licence
- cc-by
- Locations
- Frontiers in Immunology (publishedVersion, cc-by)
- Europe PMC (PubMed Central) (publishedVersion, cc-by)
- PubMed Central (publishedVersion, cc-by)
- PubMed (publishedVersion)
- Funders
- Department of Science and Technology, Ministry of Science and Technology (DST No: SB/YS/LS-163/2013)
- Nano Mission Council, Department of Science and Technology (DST No. SR/NM/NS-1040/2013(G))
- University Grants Commission (UGC No. MRP-MAJOR-BIOT-2013-40689)
- Department of Biotechnology, Ministry of Science and Technology (BT/PR8624/MED/29/798/2013)
- Topics
- Health Sciences › Medicine › Rheumatology › Rheumatoid Arthritis Research and Therapies
- Health Sciences › Medicine › Hematology › Autoimmune and Inflammatory Disorders Research
- Health Sciences › Medicine › Complementary and alternative medicine › Natural Compounds in Disease Treatment
- Keywords
- rheumatoid arthritis, gene expression signatures, PLCγ2, HLA-F, eIF4E2, CYFIP2, peripheral blood mononuclear cells, inflammation, antigen presentation, hypoxia, apoptosis, inflammasome activation, platelet aggregation, therapeutic target
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