{"status":"ok","message-type":"work","message-version":"1.0.0","message":{"indexed":{"date-parts":[[2026,1,27]],"date-time":"2026-01-27T11:19:35Z","timestamp":1769512775027,"version":"3.49.0"},"reference-count":42,"publisher":"Oxford University Press (OUP)","issue":"1","license":[{"start":{"date-parts":[[2025,7,9]],"date-time":"2025-07-09T00:00:00Z","timestamp":1752019200000},"content-version":"vor","delay-in-days":0,"URL":"https:\/\/academic.oup.com\/pages\/standard-publication-reuse-rights"}],"content-domain":{"domain":[],"crossmark-restriction":false},"short-container-title":[],"published-print":{"date-parts":[[2025,12,22]]},"abstract":"<jats:title>ABSTRACT<\/jats:title>\n                  <jats:sec>\n                    <jats:title>Objective<\/jats:title>\n                    <jats:p>To clarify T\/B cell-specific gene expression patterns using RNA-Seq in IgG4-related disease (IgG4-RD).<\/jats:p>\n                  <\/jats:sec>\n                  <jats:sec>\n                    <jats:title>Methods<\/jats:title>\n                    <jats:p>Pathologically confirmed submandibular gland (SMG) (n\u2009=\u20093) and peripheral blood mononuclear cells (PBMC) (n\u00a0=\u20094) from four treatment-na\u00efve patients with definite IgG4-RD, as well as PBMCs from primary Sj\u00f6gren syndrome (pSS) (n\u2009=\u20093) and healthy controls (HCs) (n\u2009=\u20093), were collected, and subsequently Pan T and CD19+ B cells were sorted. We conducted RNA sequencing to compare the gene expressions of Pan T and CD19+ B cells in SMGs and PBMCs in IgG4-RD or IgG4-RD versus pSS and HCs in PBMCs. Ingenuity pathway analysis (IPA) and qPCR validation were performed for differentially expressed genes (DEGs).<\/jats:p>\n                  <\/jats:sec>\n                  <jats:sec>\n                    <jats:title>Results<\/jats:title>\n                    <jats:p>Principal component analysis (PCA) results showed the gene expression patterns of Pan T and CD19+ B cells derived from SMGs differed from those derived from PBMCs in IgG4-RD. However, the gene expression patterns of Pan T and CD19+ B cells derived from PBMCs were not clustered between groups. A total of 214 upregulated and 50 downregulated DEGs in Pan T cells and 630 upregulated and 109 downregulated DEGs in CD19+ B cells were identified in SMGs compared with PBMCs in IgG4-RD. The upregulated DEGs in SMGs of IgG4-RD included cytokines, chemokines, and transcription regulators. IPA for these DEGs clarified immune system-related pathways were positively regulated in SMGs compared with PBMCs in IgG4-RD. Quantitative PCR validated significantly increased mRNA expression of IL-21 and EGR2 by Pan T cells in SMGs compared with PBMCs of IgG4-RD.<\/jats:p>\n                  <\/jats:sec>\n                  <jats:sec>\n                    <jats:title>Conclusion<\/jats:title>\n                    <jats:p>RNA-Seq clarified the DEGs of Pan T and CD19+ B cells from SMGs in comparison with PBMCs, which might contribute to the pathogenesis of IgG4-RD.<\/jats:p>\n                  <\/jats:sec>","DOI":"10.1093\/mr\/roaf059","type":"journal-article","created":{"date-parts":[[2025,7,9]],"date-time":"2025-07-09T14:36:16Z","timestamp":1752071776000},"page":"122-131","source":"Crossref","is-referenced-by-count":1,"title":["RNA-Seq analysis of lymphocyte-specific gene expression patterns in IgG4-related disease: comparison of submandibular glands and peripheral blood"],"prefix":"10.1093","volume":"36","author":[{"ORCID":"https:\/\/orcid.org\/0000-0001-9067-0961","authenticated-orcid":false,"given":"Hiroto","family":"Tsuboi","sequence":"first","affiliation":[{"name":"Department of Rheumatology, Institute of Medicine, University of Tsukuba , Tsubuka ,","place":["Japan"]}],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Fumika","family":"Honda","sequence":"additional","affiliation":[{"name":"Department of Rheumatology, Institute of Medicine, University of Tsukuba , Tsubuka ,","place":["Japan"]}],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Hiromitsu","family":"Asashima","sequence":"additional","affiliation":[{"name":"Department of Rheumatology, Institute of Medicine, University of Tsukuba , Tsubuka ,","place":["Japan"]}],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Hirofumi","family":"Toko","sequence":"additional","affiliation":[{"name":"Department of Rheumatology, Institute of Medicine, University of Tsukuba , Tsubuka ,","place":["Japan"]}],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Ayako","family":"Kitada","sequence":"additional","affiliation":[{"name":"Department of Rheumatology, Institute of Medicine, University of Tsukuba , Tsubuka ,","place":["Japan"]}],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Saori","family":"Abe","sequence":"additional","affiliation":[{"name":"Department of Rheumatology, Institute of Medicine, University of Tsukuba , Tsubuka ,","place":["Japan"]}],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Yuito","family":"Tanaka","sequence":"additional","affiliation":[{"name":"Department of Rheumatology, Institute of Medicine, University of Tsukuba , Tsubuka ,","place":["Japan"]}],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Ayako","family":"Ohyama","sequence":"additional","affiliation":[{"name":"Department of Rheumatology, Institute of Medicine, University of Tsukuba , Tsubuka ,","place":["Japan"]}],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Mizuki","family":"Yagishita","sequence":"additional","affiliation":[{"name":"Department of Rheumatology, Institute of Medicine, University of Tsukuba , Tsubuka ,","place":["Japan"]}],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Haruka","family":"Miki","sequence":"additional","affiliation":[{"name":"Department of Rheumatology, Institute of Medicine, University of Tsukuba , Tsubuka ,","place":["Japan"]}],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Shinya","family":"Hagiwara","sequence":"additional","affiliation":[{"name":"Department of Rheumatology, Institute of Medicine, University of Tsukuba , Tsubuka ,","place":["Japan"]}],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Yuya","family":"Kondo","sequence":"additional","affiliation":[{"name":"Department of Rheumatology, Institute of Medicine, University of Tsukuba , Tsubuka ,","place":["Japan"]}],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Isao","family":"Matsumoto","sequence":"additional","affiliation":[{"name":"Department of Rheumatology, Institute of Medicine, University of Tsukuba , Tsubuka ,","place":["Japan"]}],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Takayuki","family":"Sumida","sequence":"additional","affiliation":[{"name":"Department of Rheumatology, Institute of Medicine, University of Tsukuba , Tsubuka ,","place":["Japan"]}],"role":[{"role":"author","vocabulary":"crossref"}]}],"member":"286","published-online":{"date-parts":[[2025,7,9]]},"reference":[{"key":"2025122205121743100_ref1","doi-asserted-by":"crossref","first-page":"1","DOI":"10.3109\/s10165-011-0508-6","article-title":"A novel clinical entity, IgG4-related disease (IgG4RD): general concept and details","volume":"22","author":"Umehara","year":"2012","journal-title":"Mod 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