KEGG   DISEASE: Systemic lupus erythematosus
Entry
H00080                      Disease                                
Name
Systemic lupus erythematosus
Description
Systemic lupus erythematosus (SLE) is a prototypic autoimmune disease characterised by the production of IgG autoantibodies that are specific for self-antigens, such as DNA, nuclear proteins and certain cytoplasmic components, in association with a diverse array of clinical manifestations. The primary pathological findings in patients with SLE are those of inflammation, vasculitis, immune complex deposition, and vasculopathy. Immune complexes comprising autoantibody and self-antigen is deposited particularly in the renal glomeruli and mediate a systemic inflammatory response by activating complement or via Fc{gamma}R-mediated neutrophil and macrophage activation. Activation of complement (C5) leads to injury both through formation of the membrane attack complex (C5b-9) or by generation of the anaphylatoxin and cell activator C5a. Neutrophils and macrophages cause tissue injury by the release of oxidants and proteases. It has been reported that there is a relatively high genetic component behind SLE. The data of family-based studies point toward an oligogenic background, with several susceptibility genes (SLEB) acting on disease expression along with environmental factors.
Category
Immune system disease
Brite
Human diseases in ICD-11 classification [BR:br08403]
 04 Diseases of the immune system
  Nonorgan specific systemic autoimmune disorders
   4A40  Lupus erythematosus
    H00080  Systemic lupus erythematosus
Pathway-based classification of diseases [BR:br08402]
 Immune system
  nt06517  TLR signaling
   H00080  Systemic lupus erythematosus
  nt06520  CGAS-STING signaling
   H00080  Systemic lupus erythematosus
  nt06537  TCR/BCR signaling
   H00080  Systemic lupus erythematosus
Disease
pathway
hsa05322  Systemic lupus erythematosus
Pathway
hsa04620 Toll-like receptor signaling pathway   
hsa04623 Cytosolic DNA-sensing pathway   
hsa04660 T cell receptor signaling pathway   
Network
nt06517 TLR signaling
nt06520 CGAS-STING signaling
nt06537 TCR/BCR signaling
Gene
(SLE) PTPN22 [HSA:26191] [KO:K18024]
(SLE) FCGR2A [HSA:2212] [KO:K06472]
(SLE) FCGR2B [HSA:2213] [KO:K12560]
(SLE) CTLA4 [HSA:1493] [KO:K06538]
(SLE) TREX1 [HSA:11277] [KO:K10790]
(SLE) DNASE1 [HSA:1773] [KO:K11994]
(SLEB1) TLR5 [HSA:7100] [KO:K10168]
(SLEB9) CR2 [HSA:1380] [KO:K04012]
(SLEB10) IRF5 [HSA:3663] [KO:K09446]
(SLEB11) STAT4 [HSA:6775] [KO:K11222]
(SLEB16) DNASE1L3 [HSA:1776] [KO:K11995]
(SLEB17) TLR7 [HSA:51284] [KO:K05404]
(SLEB18) PLD4 [HSA:122618] [KO:K16860]
HLA-DRB1 [HSA:3123] [KO:K06752]
HLA-DQA1 [HSA:3117] [KO:K06752]
HLA-DQB1 [HSA:3119] [KO:K06752]
C2 [HSA:717] [KO:K01332]
C4A [HSA:720] [KO:K03989]
TNF [HSA:7124] [KO:K03156]
FCGR3A [HSA:2214] [KO:K06463]
FCGR3B [HSA:2215] [KO:K06463]
CRP [HSA:1401] [KO:K16143]
ZNF423 [HSA:23090] [KO:K22870]
Drug
Triamcinolone acetonide [DR:D00983]
Dexamethasone [DR:D00292]
Dexamethasone sodium phosphate [DR:D00975]
Hydrocortisone [DR:D00088]
Hydrocortisone sodium succinate [DR:D00978]
Prednisolone [DR:D00472]
Prednisolone sodium phosphate [DR:D00981]
Prednisone [DR:D00473]
Methylprednisolone [DR:D00407]
Methylprednisolone sodium succinate [DR:D00751]
Methylprednisolone acetate [DR:D00979]
Corticotropin [DR:D00146]
Cortisone acetate [DR:D00973]
Belimumab [DR:D03068]
Anifrolumab [DR:D11082]
Hydroxychloroquine sulfate [DR:D02114]
Comment
Autoantigen:
Double-stranded DNA [CPD:C00434]
H2A [HSA:474382]
H2B [HSA:8346]
H3 [HSA:3020]
H4 [HSA:8359]
Ro/SS-A [HSA:6737]
La/SS-B [HSA:6741]
Sm-B [HSA:6628]
Sm-D [HSA:6632]
NR2A [HSA:2903]
NR2B [HSA:2904]
Phosphatidyl-serine [CPD:C02737]
C1q [HSA:712]
Other DBs
ICD-11: 4A40.0
MeSH: D008180
OMIM: 152700 601744 610927 612251 612253 614420 301080 621369
Reference
PMID:15273934 (PTPN22)
  Authors
Kyogoku C, Langefeld CD, Ortmann WA, Lee A, Selby S, Carlton VE, Chang M, Ramos P, Baechler EC, Batliwalla FM, Novitzke J, Williams AH, Gillett C, Rodine P, Graham RR, Ardlie KG, Gaffney PM, Moser KL, Petri M, Begovich AB, Gregersen PK, Behrens TW
  Title
Genetic association of the R620W polymorphism of protein tyrosine phosphatase PTPN22 with human SLE.
  Journal
Am J Hum Genet 75:504-7 (2004)
DOI:10.1086/423790
Reference
PMID:33331924 (FCGR2A)
  Authors
Melki I, Allaeys I, Tessandier N, Mailhot B, Cloutier N, Campbell RA, Rowley JW, Salem D, Zufferey A, Laroche A, Levesque T, Patey N, Rauch J, Lood C, Droit A, McKenzie SE, Machlus KR, Rondina MT, Lacroix S, Fortin PR, Boilard E
  Title
FcgammaRIIA expression accelerates nephritis and increases platelet activation in systemic lupus erythematosus.
  Journal
Blood 136:2933-2945 (2020)
DOI:10.1182/blood.2020004974
Reference
PMID:15895258 (FCGR2B)
  Authors
Blank MC, Stefanescu RN, Masuda E, Marti F, King PD, Redecha PB, Wurzburger RJ, Peterson MG, Tanaka S, Pricop L
  Title
Decreased transcription of the human FCGR2B gene mediated by the -343 G/C promoter polymorphism and association with systemic lupus erythematosus.
  Journal
Hum Genet 117:220-7 (2005)
DOI:10.1007/s00439-005-1302-3
Reference
PMID:15138458 (CTLA4)
  Authors
Barreto M, Santos E, Ferreira R, Fesel C, Fontes MF, Pereira C, Martins B, Andreia R, Viana JF, Crespo F, Vasconcelos C, Ferreira C, Vicente AM
  Title
Evidence for CTLA4 as a susceptibility gene for systemic lupus erythematosus.
  Journal
Eur J Hum Genet 12:620-6 (2004)
DOI:10.1038/sj.ejhg.5201214
Reference
PMID:17660818 (TREX1)
  Authors
Lee-Kirsch MA, Gong M, Chowdhury D, Senenko L, Engel K, Lee YA, de Silva U, Bailey SL, Witte T, Vyse TJ, Kere J, Pfeiffer C, Harvey S, Wong A, Koskenmies S, Hummel O, Rohde K, Schmidt RE, Dominiczak AF, Gahr M, Hollis T, Perrino FW, Lieberman J, Hubner N
  Title
Mutations in the gene encoding the 3'-5' DNA exonuclease TREX1 are associated with systemic lupus erythematosus.
  Journal
Nat Genet 39:1065-7 (2007)
DOI:10.1038/ng2091
Reference
PMID:11479590 (DNASE1)
  Authors
Yasutomo K, Horiuchi T, Kagami S, Tsukamoto H, Hashimura C, Urushihara M, Kuroda Y
  Title
Mutation of DNASE1 in people with systemic lupus erythematosus.
  Journal
Nat Genet 28:313-4 (2001)
DOI:10.1038/91070
Reference
PMID:16027372 (TLR5)
  Authors
Hawn TR, Wu H, Grossman JM, Hahn BH, Tsao BP, Aderem A
  Title
A stop codon polymorphism of Toll-like receptor 5 is associated with resistance to systemic lupus erythematosus.
  Journal
Proc Natl Acad Sci U S A 102:10593-7 (2005)
DOI:10.1073/pnas.0501165102
Reference
PMID:17360460 (CR2)
  Authors
Wu H, Boackle SA, Hanvivadhanakul P, Ulgiati D, Grossman JM, Lee Y, Shen N, Abraham LJ, Mercer TR, Park E, Hebert LA, Rovin BH, Birmingham DJ, Chang DM, Chen CJ, McCurdy D, Badsha HM, Thong BY, Chng HH, Arnett FC, Wallace DJ, Yu CY, Hahn BH, Cantor RM, Tsao BP
  Title
Association of a common complement receptor 2 haplotype with increased risk of systemic lupus erythematosus.
  Journal
Proc Natl Acad Sci U S A 104:3961-6 (2007)
DOI:10.1073/pnas.0609101104
Reference
PMID:16642019 (IRF5)
  Authors
Graham RR, Kozyrev SV, Baechler EC, Reddy MV, Plenge RM, Bauer JW, Ortmann WA, Koeuth T, Gonzalez Escribano MF, Pons-Estel B, Petri M, Daly M, Gregersen PK, Martin J, Altshuler D, Behrens TW, Alarcon-Riquelme ME
  Title
A common haplotype of interferon regulatory factor 5 (IRF5) regulates splicing and expression and is associated with increased risk of systemic lupus erythematosus.
  Journal
Nat Genet 38:550-5 (2006)
DOI:10.1038/ng1782
Reference
PMID:19109131 (STAT4)
  Authors
Kariuki SN, Kirou KA, MacDermott EJ, Barillas-Arias L, Crow MK, Niewold TB
  Title
Cutting edge: autoimmune disease risk variant of STAT4 confers increased sensitivity to IFN-alpha in lupus patients in vivo.
  Journal
J Immunol 182:34-8 (2009)
DOI:10.4049/jimmunol.182.1.34
Reference
PMID:33173951 (DNASE1L3)
  Authors
Zervou MI, Andreou A, Matalliotakis M, Spandidos DA, Goulielmos GN, Eliopoulos EE
  Title
Association of the DNASE1L3 rs35677470 polymorphism with systemic lupus erythematosus, rheumatoid arthritis and systemic sclerosis: Structural biological insights.
  Journal
Mol Med Rep 22:4492-4498 (2020)
DOI:10.3892/mmr.2020.11547
Reference
PMID:35477763 (TLR7)
  Authors
Brown GJ, Canete PF, Wang H, Medhavy A, Bones J, Roco JA, He Y, Qin Y, Cappello J, Ellyard JI, Bassett K, Shen Q, Burgio G, Zhang Y, Turnbull C, Meng X, Wu P, Cho E, Miosge LA, Andrews TD, Field MA, Tvorogov D, Lopez AF, Babon JJ, Lopez CA, Gonzalez-Murillo A, Garulo DC, Pascual V, Levy T, Mallack EJ, Calame DG, Lotze T, Lupski JR, Ding H, Ullah TR, Walters GD, Koina ME, Cook MC, Shen N, de Lucas Collantes C, Corry B, Gantier MP, Athanasopoulos V, Vinuesa CG
  Title
TLR7 gain-of-function genetic variation causes human lupus.
  Journal
Nature 605:349-356 (2022)
DOI:10.1038/s41586-022-04642-z
Reference
PMID:40931063 (PLD4)
  Authors
Wang Q, Zhu H, Sun X, Zhang C, Ma S, Jin Y, Fu J, Liu C, Peng J, Wang R, Liu L, Zeng Y, Gong C, Zhou Q, Yu X, Liu Z
  Title
Loss-of-function mutations in PLD4 lead to systemic lupus erythematosus.
  Journal
Nature 10.1038/s41586-025-09513-x (2025)
DOI:10.1038/s41586-025-09513-x
Reference
PMID:12835292 (HLA-DRB1, HLA-DQA1, HLA-DQB1)
  Authors
Mok CC, Lau CS.
  Title
Pathogenesis of systemic lupus erythematosus.
  Journal
J Clin Pathol 56:481-90 (2003)
DOI:10.1136/jcp.56.7.481
Reference
PMID:18305268 (HLA-DRB1, C2, C4A, TNF, FCGR3A, FCGR3B, CRP, ZNF423)
  Authors
Rahman A, Isenberg DA.
  Title
Systemic lupus erythematosus.
  Journal
N Engl J Med 358:929-39 (2008)
DOI:10.1056/NEJMra071297
LinkDB

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KEGG   DISEASE: Autoimmune lymphoproliferative syndromes
Entry
H00108                      Disease                                
Name
Autoimmune lymphoproliferative syndromes
  Subgroup
RAS-associated autoimmune leukoproliferative disorder (RALD)
  Supergrp
Disorders of adaptive immunity [DS:H02526]
Primary immunodeficiency disease [DS:H01725]
Description
Autoimmune lymphoproliferative syndromes (ALPS) are autosomal dominant disorders with clinical features of various autoimmune manifestations that predominantly involve polyclonal accumulation of lymphocytes in the spleen and lymph nodes with lymphadenopathy and/or splenomegaly, and expansion of double-negative (DN) T cells in the peripheral blood. Central to the cellular pathogenesis is defective FAS-induced apoptosis, which in turn leads to dysregulation of lymphocyte homeostasis. ALPS caused by heterozygous mutations in the Fas gene (ALPS Type Ia) make up the majority of identified cases. However, other mutations, namely of the FasL gene (ALPS Type Ib) and the caspase 8 and 10 genes (ALPS Type II) are occasionally detected, whereas some patients do not present any known mutations (ALPS-III). Recently, mutations of the NRAS gene have been suggested to cause ALPS Type IV.
Category
Primary immunodeficiency
Brite
Human diseases in ICD-11 classification [BR:br08403]
 04 Diseases of the immune system
  Primary immunodeficiencies
   4A01  Primary immunodeficiencies due to disorders of adaptive immunity
    H00108  Autoimmune lymphoproliferative syndromes
Pathway-based classification of diseases [BR:br08402]
 Cellular process
  nt06524  Apoptosis
   H00108  Autoimmune lymphoproliferative syndromes
  nt06527  Necroptosis
   H00108  Autoimmune lymphoproliferative syndromes
 Immune system
  nt06537  TCR/BCR signaling
   H00108  Autoimmune lymphoproliferative syndromes
Pathway
hsa04210  Apoptosis
hsa04217  Necroptosis
hsa04660  T cell receptor signaling pathway
Network
nt06524 Apoptosis
nt06527 Necroptosis
nt06537 TCR/BCR signaling
Gene
(ALPS1A) FAS [HSA:355] [KO:K04390]
(ALPS1B) FASLG [HSA:356] [KO:K04389]
(ALPS2A) CASP10 [HSA:843] [KO:K04400]
(ALPS2B) CASP8 [HSA:841] [KO:K04398]
(ALPS3) PRKCD [HSA:5580] [KO:K06068]
(ALPS4/RALD) NRAS [HSA:4893] [KO:K07828]
(ALPS4/RALD) KRAS [HSA:3845] [KO:K07827]
(ALPS5) CTLA4 [HSA:1493] [KO:K06538]
Other DBs
ICD-11: 4A01.22
MeSH: D056735
OMIM: 601859 603909 614470 615559 607271 616100
Reference
  Authors
Worth A, Thrasher AJ, Gaspar HB
  Title
Autoimmune lymphoproliferative syndrome: molecular basis of disease and clinical phenotype.
  Journal
Br J Haematol 133:124-40 (2006)
DOI:10.1111/j.1365-2141.2006.05993.x
Reference
  Authors
Geha RS, Notarangelo LD, Casanova JL, Chapel H, Conley ME, Fischer A, Hammarstrom L, Nonoyama S, Ochs HD, Puck JM, Roifman C, Seger R, Wedgwood J.
  Title
Primary immunodeficiency diseases: an update from the International Union of Immunological Societies Primary Immunodeficiency Diseases Classification Committee.
  Journal
J Allergy Clin Immunol 120:776-94 (2007)
DOI:10.1016/j.jaci.2007.08.053
Reference
PMID:17999750 (ALPS1_2)
  Authors
Cerutti E, Campagnoli MF, Ferretti M, Garelli E, Crescenzio N, Rosolen A, Chiocchetti A, Lenardo MJ, Ramenghi U, Dianzani U
  Title
Co-inherited mutations of Fas and caspase-10 in development of the autoimmune lymphoproliferative syndrome.
  Journal
BMC Immunol 8:28 (2007)
DOI:10.1186/1471-2172-8-28
Reference
PMID:23666743 (ALPS3)
  Authors
Belot A, Kasher PR, Trotter EW, Foray AP, Debaud AL, Rice GI, Szynkiewicz M, Zabot MT, Rouvet I, Bhaskar SS, Daly SB, Dickerson JE, Mayer J, O'Sullivan J, Juillard L, Urquhart JE, Fawdar S, Marusiak AA, Stephenson N, Waszkowycz B, W Beresford M, Biesecker LG, C M Black G, Rene C, Eliaou JF, Fabien N, Ranchin B, Cochat P, Gaffney PM, Rozenberg F, Lebon P, Malcus C, Crow YJ, Brognard J, Bonnefoy N
  Title
Protein kinase cdelta deficiency causes mendelian systemic lupus erythematosus with B cell-defective apoptosis and hyperproliferation.
  Journal
Arthritis Rheum 65:2161-71 (2013)
DOI:10.1002/art.38008
Reference
PMID:17517660 (ALPS4)
  Authors
Oliveira JB, Bidere N, Niemela JE, Zheng L, Sakai K, Nix CP, Danner RL, Barb J, Munson PJ, Puck JM, Dale J, Straus SE, Fleisher TA, Lenardo MJ
  Title
NRAS mutation causes a human autoimmune lymphoproliferative syndrome.
  Journal
Proc Natl Acad Sci U S A 104:8953-8 (2007)
DOI:10.1073/pnas.0702975104
Reference
PMID:21079152 (ALPS4)
  Authors
Niemela JE, Lu L, Fleisher TA, Davis J, Caminha I, Natter M, Beer LA, Dowdell KC, Pittaluga S, Raffeld M, Rao VK, Oliveira JB
  Title
Somatic KRAS mutations associated with a human nonmalignant syndrome of autoimmunity and abnormal leukocyte homeostasis.
  Journal
Blood 117:2883-6 (2011)
DOI:10.1182/blood-2010-07-295501
Reference
PMID:25213377 (ALPS5)
  Authors
Kuehn HS, Ouyang W, Lo B, Deenick EK, Niemela JE, Avery DT, Schickel JN, Tran DQ, Stoddard J, Zhang Y, Frucht DM, Dumitriu B, Scheinberg P, Folio LR, Frein CA, Price S, Koh C, Heller T, Seroogy CM, Huttenlocher A, Rao VK, Su HC, Kleiner D, Notarangelo LD, Rampertaap Y, Olivier KN, McElwee J, Hughes J, Pittaluga S, Oliveira JB, Meffre E, Fleisher TA, Holland SM, Lenardo MJ, Tangye SG, Uzel G
  Title
Immune dysregulation in human subjects with heterozygous germline mutations in CTLA4.
  Journal
Science 345:1623-1627 (2014)
DOI:10.1126/science.1255904
LinkDB

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KEGG   DISEASE: Hashimoto thyroiditis
Entry
H00081                      Disease                                
Name
Hashimoto thyroiditis
Description
Hashimoto thyroiditis (HT) is a common form of chronic autoimmune thyroid disease (AITD), and is characterized by an inflammatory infiltrate of immunocytes that replace the parenchyma and induce thyroid enlargement, which eventually leads to gland fibrosis. Progressive thyrocyte depletion results in impaired thyroid hormone production and clinical hypothyroidism, a condition that involves a marked reduction of metabolic activity in various cells and tissues. AITDs are regarded as polygenic disorders resulting from the combination of a genetic predisposition in conjunction with an environmental trigger. Two main approaches have been employed to locate susceptibility loci for AITD, namely case control candidate gene studies and genome-wide linkage screens. Case control candidate gene studies have been employed to investigate numerous genes for association with AITD, but to date, only the human leucocyte region (HLA) on chromosome 6p21 and the cytotoxic T lymphocyte associated 4 (CTLA-4) gene on chromosome 2q33 have been consistently shown to be associated with disease.
Category
Immune system disease
Brite
Human diseases in ICD-11 classification [BR:br08403]
 05 Endocrine, nutritional or metabolic diseases
  Endocrine diseases
   Disorders of the thyroid gland or thyroid hormones system
    5A03  Thyroiditis
     H00081  Hashimoto thyroiditis
Pathway-based classification of diseases [BR:br08402]
 Immune system
  nt06537  TCR/BCR signaling
   H00081  Hashimoto thyroiditis
Pathway
hsa04612 Antigen processing and presentation   
hsa04660 T cell receptor signaling pathway   
Network
nt06537 TCR/BCR signaling
Gene
CTLA4 [HSA:1493] [KO:K06538]
Drug
Levothyroxine sodium [DR:D01010]
Liothyronine sodium [DR:D01011]
Thyroid [DR:D06482] (Hashimoto's)
Comment
Autoantigens:
Thyroidperoxidase (TPO) [HSA:7173]
Thyroglobulin (Tg) [HSA:7038]
Na+/ I- symporter (NIS) [HSA:6528]
Other DBs
ICD-11: 5A03.20
MeSH: D050031
OMIM: 140300
Reference
  Authors
Stassi G, De Maria R.
  Title
Autoimmune thyroid disease: new models of cell death in autoimmunity.
  Journal
Nat Rev Immunol 2:195-204 (2002)
DOI:10.1038/nri750
Reference
  Authors
Fountoulakis S, Tsatsoulis A.
  Title
On the pathogenesis of autoimmune thyroid disease: a unifying hypothesis.
  Journal
Clin Endocrinol (Oxf) 60:397-409 (2004)
DOI:10.1046/j.1365-2265.2004.01978.x
Reference
  Authors
Simmonds MJ, Gough SC.
  Title
Unravelling the genetic complexity of autoimmune thyroid disease: HLA, CTLA-4 and beyond.
  Journal
Clin Exp Immunol 136:1-10 (2004)
DOI:10.1111/j.1365-2249.2004.02424.x
Reference
  Authors
Chistiakov DA.
  Title
Immunogenetics of Hashimoto's thyroiditis.
  Journal
J Autoimmune Dis 2:1 (2005)
DOI:10.1186/1740-2557-2-1
Reference
  Authors
Ai J, Leonhardt JM, Heymann WR.
  Title
Autoimmune thyroid diseases: etiology, pathogenesis, and dermatologic manifestations.
  Journal
J Am Acad Dermatol 48:641-59; quiz 660-2 (2003)
DOI:10.1067/mjd.2003.257
Reference
  Authors
Prummel MF, Strieder T, Wiersinga WM.
  Title
The environment and autoimmune thyroid diseases.
  Journal
Eur J Endocrinol 150:605-18 (2004)
DOI:10.1530/eje.0.1500605
Reference
  Authors
Reid JR, Wheeler SF.
  Title
Hyperthyroidism: diagnosis and treatment.
  Journal
Am Fam Physician 72:623-30 (2005)
Reference
  Authors
Ruwhof C, Drexhage HA.
  Title
Iodine and thyroid autoimmune disease in animal models.
  Journal
Thyroid 11:427-36 (2001)
DOI:10.1089/105072501300176381
Reference
  Authors
Scofield RH.
  Title
Autoantibodies as predictors of disease.
  Journal
Lancet 363:1544-6 (2004)
DOI:10.1016/S0140-6736(04)16154-0
LinkDB

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