The immune cell landscape in kidneys of patients with lupus nephritis

Nir Hacohen | Matthias Kretzler | Kamil Slowikowski | Fan Zhang | Soumya Raychaudhuri | Chad Nusbaum | Paul J. Hoover | Shuqiang Li | Arnon Arazi | Meyeon Park | Michael B Brenner | Shuqiang Li | N. Hacohen | C. Nusbaum | S. Raychaudhuri | T. Tuschl | T. Eisenhaure | K. Kalunian | M. Petri | M. Kretzler | B. Diamond | C. Putterman | Kamil Slowikowski | H. Maecker | Manjunath Kustagi | S. Connery | J. Buyon | J. Guthridge | David A Hildeman | M. Cunningham | P. Izmirly | D. Kamen | P. Utz | J. Lederer | D. Wofsy | M. Dall'Era | H. Belmont | J. James | R. Furie | D. Lieb | P. Morozov | H. Suryawanshi | C. Berthier | Fan Zhang | J. Anolik | W. Apruzzese | A. H. Jonsson | A. Noma | D. Rao | Danielle Sutherby | M. Brenner | E. Woodle | A. Arazi | W. Mccune | E. Browne | A. Chicoine | E. Der | E. Massarotti | M. McMahon | R. Kado | Yanyan Liu | Rohit Gupta | M. Pichavant | A. Davidson | D. Hildeman | Edward P Browne | James A Lederer | W. Pendergraft | Scott Steelman | Deepak A Rao | William F Pendergraft | Michelle A Petri | Celine C Berthier | Anne Davidson | Yanyan Liu | Paul J Hoover | Adam Chicoine | Thomas M Eisenhaure | A Helena Jonsson | David J Lieb | Akiko Noma | Danielle Sutherby | Dawn E Smilek | Patti Tosta | William Apruzzese | Elena Massarotti | Maria Dall'Era | Diane L Kamen | Richard A Furie | Fernanda Payan-Schober | Elizabeth A McInnis | Jill P Buyon | Chaim Putterman | Kenneth C Kalunian | E Steve Woodle | Jennifer H Anolik | David Wofsy | Betty Diamond | David J. Lieb | Raymond K. Hsu | Andrea Fava | Meyeon Park | S. Steelman | D. Smilek | E. McInnis | Fernanda Payan-Schober | P. Tosta | C. Fonseka | M. Brenner | Patti Tosta | B. Diamond | Arnon Deepak A. Celine C. Anne Yanyan Paul J. Adam Thoma Arazi Rao Berthier Davidson Liu Hoover Chic | Dia R. Waguespack | Robert Clancy | Daniel H. Goldman | Pavel Morozov | A. Jonsson | P. Hoover | F. Payan-Schober | Deepak A. Rao

[1]  G. Gibson,et al.  Distinct Effector B Cells Induced by Unregulated Toll‐like Receptor 7 Contribute to Pathogenic Responses in Systemic Lupus Erythematosus , 2018, Immunity.

[2]  M. Shlomchik,et al.  Kidney-infiltrating T cells in murine lupus nephritis are metabolically and functionally exhausted , 2018, The Journal of clinical investigation.

[3]  S. Rahman,et al.  IL-21 drives expansion and plasma cell differentiation of autoreactive CD11chiT-bet+ B cells in SLE , 2018, Nature Communications.

[4]  E. Thorp,et al.  Myeloid receptor CD36 is required for early phagocytosis of myocardial infarcts and induction of Nr4a1‐dependent mechanisms of cardiac repair , 2018, FASEB journal : official publication of the Federation of American Societies for Experimental Biology.

[5]  E. Wherry,et al.  Deep immune profiling by mass cytometry links human T and NK cell differentiation and cytotoxic molecule expression patterns. , 2017, Journal of immunological methods.

[6]  M. Cancro,et al.  Signals that drive T-bet expression in B cells. , 2017, Cellular immunology.

[7]  J. Karnell,et al.  Role of CD11c+ T-bet+ B cells in human health and disease. , 2017, Cellular immunology.

[8]  Wei Wang,et al.  Regulation of the Cell Cycle and Inflammatory Arthritis by the Transcription Cofactor LBH Gene , 2017, The Journal of Immunology.

[9]  D. Morris,et al.  Genetic advances in systemic lupus erythematosus: an update , 2017, Current opinion in rheumatology.

[10]  T. Marquez-Lago,et al.  Dynamic regulation of T Follicular Regulatory cell responses by interleukin 2 during influenza infection , 2017, Nature Immunology.

[11]  C. Coban,et al.  A distinct subpopulation of CD25− T-follicular regulatory cells localizes in the germinal centers , 2017, Proceedings of the National Academy of Sciences.

[12]  M. Knutson.  Iron transport proteins: Gateways of cellular and systemic iron homeostasis , 2017, The Journal of Biological Chemistry.

[13]  J. Strominger,et al.  Transcriptome analysis reveals similarities between human blood CD3− CD56bright cells and mouse CD127+ innate lymphoid cells , 2017, Scientific Reports.

[14]  L. Bosurgi,et al.  IGF1 Shapes Macrophage Activation in Response to Immunometabolic Challenge. , 2017, Cell reports.

[15]  E. Peerschke,et al.  C1q as an autocrine and paracrine regulator of cellular functions. , 2017, Molecular immunology.

[16]  N. Hacohen,et al.  Single-cell RNA-seq reveals new types of human blood dendritic cells, monocytes, and progenitors , 2017, Science.

[17]  L. Cantley,et al.  Macrophages in Renal Injury and Repair. , 2017, Annual review of physiology.

[18]  Markus Jaritz,et al.  Essential role of the transcription factor Bhlhe41 in regulating the development, self-renewal and BCR repertoire of B-1a cells , 2017, Nature Immunology.

[19]  Yen-Hua Chen,et al.  CD4+ T cell effector commitment coupled to self-renewal by asymmetric cell divisions , 2017, The Journal of experimental medicine.

[20]  H. Kopcow,et al.  Transcriptome analysis reveals similarities between human blood CD3 − CD56 bright cells and mouse CD127 + innate lymphoid cells , 2017 .

[21]  Joanna A Gibson,et al.  ABC transporters and NR4A1 identify a quiescent subset of tissue-resident memory T cells. , 2016, The Journal of clinical investigation.

[22]  R. Furie,et al.  Update on clinical trials in systemic lupus erythematosus , 2016, Current opinion in rheumatology.

[23]  C. Jie,et al.  Complement Component C1q Programs a Pro-Efferocytic Phenotype while Limiting TNFα Production in Primary Mouse and Human Macrophages , 2016, Front. Immunol..

[24]  Virginia Pascual,et al.  Personalized Immunomonitoring Uncovers Molecular Networks that Stratify Lupus Patients , 2016, Cell.

[25]  M. Ward,et al.  Risk of End‐Stage Renal Disease in Patients With Lupus Nephritis, 1971–2015: A Systematic Review and Bayesian Meta‐Analysis , 2016, Arthritis & rheumatology.

[26]  P. Low,et al.  Optimization of Folate-Targeted Immunotherapy for the Treatment of Experimental Arthritis , 2016, Inflammation.

[27]  Shuqiang Li,et al.  CEL-Seq2: sensitive highly-multiplexed single-cell RNA-Seq , 2016, Genome Biology.

[28]  W. Shi,et al.  Hobit and Blimp1 instruct a universal transcriptional program of tissue residency in lymphocytes , 2016, Science.

[29]  Virginia Pascual,et al.  Personalized Immunomonitoring Uncovers Molecular Networks that Stratify Lupus Patients , 2016, Cell.

[30]  Charles H. Yoon,et al.  Dissecting the multicellular ecosystem of metastatic melanoma by single-cell RNA-seq , 2016, Science.

[31]  Jonathan A. Cooper,et al.  Disabled homolog 2 controls macrophage phenotypic polarization and adipose tissue inflammation. , 2016, The Journal of clinical investigation.

[32]  A. Davidson.  What is damaging the kidney in lupus nephritis? , 2016, Nature Reviews Rheumatology.

[33]  K. Bornfeldt,et al.  Macrophage Phenotype and Function in Different Stages of Atherosclerosis. , 2016, Circulation research.

[34]  Fabian J. Theis,et al.  destiny: diffusion maps for large-scale single-cell data in R , 2015, Bioinform..

[35]  Paul A. Lyons,et al.  T cell exhaustion, costimulation and clinical outcome in autoimmunity and infection , 2015, Nature.

[36]  A. Regev,et al.  Spatial reconstruction of single-cell gene expression data , 2015 .

[37]  A. Regev,et al.  Spatial reconstruction of single-cell gene expression , 2015, Nature Biotechnology.

[38]  Derek W Wright,et al.  Gateways to the FANTOM5 promoter level mammalian expression atlas , 2015, Genome Biology.

[39]  A. Davidson.  Editorial: Autoimmunity to Vimentin and Lupus Nephritis , 2014, Arthritis & rheumatology.

[40]  Taro Kawai,et al.  Toll-Like Receptor Signaling Pathways , 2014, Front. Immunol..

[41]  P. Gaffney,et al.  Lupus nephritis susceptibility loci in women with systemic lupus erythematosus. , 2014, Journal of the American Society of Nephrology : JASN.

[42]  B. Pulendran,et al.  Mycobacterium tuberculosis Impairs Dendritic Cell Functions through the Serine Hydrolase Hip1 , 2014, The Journal of Immunology.

[43]  M. Giger,et al.  Cell Distance Mapping Identifies Functional T Follicular Helper Cells in Inflamed Human Renal Tissue , 2014, Science Translational Medicine.

[44]  Cesare Furlanello,et al.  A promoter-level mammalian expression atlas , 2015 .

[45]  Åsa K. Björklund,et al.  Full-length RNA-seq from single cells using Smart-seq2 , 2014, Nature Protocols.

[46]  J. Merrill,et al.  Treatment of systemic lupus erythematosus: new therapeutic avenues and blind alleys , 2014, Nature Reviews Rheumatology.

[47]  K. Muczynski,et al.  Increased tubulointerstitial recruitment of human CD141(hi) CLEC9A(+) and CD1c(+) myeloid dendritic cell subsets in renal fibrosis and chronic kidney disease. , 2013, American journal of physiology. Renal physiology.

[48]  Zhaolin Hua,et al.  TLR signaling in B-cell development and activation , 2012, Cellular and Molecular Immunology.

[49]  Andrew McDavid,et al.  Data exploration, quality control and testing in single-cell qPCR-based gene expression experiments , 2012, Bioinform..

[50]  R. Winchester,et al.  Immunologic characteristics of intrarenal T cells: trafficking of expanded CD8+ T cell β-chain clonotypes in progressive lupus nephritis. , 2012, Arthritis and rheumatism.

[51]  Jatinder Singh.  Guide to Pharmacology , 1944, Journal of pharmacology & pharmacotherapeutics.

[52]  M Alan Brookhart,et al.  Trends in the incidence, demographics, and outcomes of end-stage renal disease due to lupus nephritis in the US from 1995 to 2006. , 2011, Arthritis and rheumatism.

[53]  Geoffrey E. Hinton,et al.  Visualizing Data using t-SNE , 2008 .

[54]  E. Wherry,et al.  Molecular signature of CD8+ T cell exhaustion during chronic viral infection. , 2007, Immunity.

[55]  A. Cumano,et al.  Monitoring of Blood Vessels and Tissues by a Population of Monocytes with Patrolling Behavior , 2007, Science.

[56]  H. Kawachi,et al.  The sialoadhesin (CD169) expressing a macrophage subset in human proliferative glomerulonephritis. , 2005, Nephrology, dialysis, transplantation : official publication of the European Dialysis and Transplant Association - European Renal Association.

[57]  W. Luttmann,et al.  Differential expression of human granzymes A, B, and K in natural killer cells and during CD8+ T cell differentiation in peripheral blood , 2005, European journal of immunology.

[58]  T. Dörner,et al.  Involvement of inducible costimulator in the exaggerated memory B cell and plasma cell generation in systemic lupus erythematosus. , 2004, Arthritis and rheumatism.

[59]  Xuejun Liu,et al.  Characterization of heterogeneity in the molecular pathogenesis of lupus nephritis from transcriptional profiles of laser-captured glomeruli. , 2004, The Journal of clinical investigation.

[60]  Y. Benjamini,et al.  Controlling the false discovery rate: a practical and powerful approach to multiple testing , 1995 .

[61]  A. Notkins,et al.  Immune interferon in the circulation of patients with autoimmune disease. , 1979, The New England journal of medicine.