Editorial: The power of a modular approach to transcriptional analysis

Arthritis and Rheumatology

Volumn 66, Issue 6, 2014, Pages 1418-1420

  Gregersen, Peter K ^a   Oswald, Michaela ^a  

^a FEINSTEIN INSTITUTE FOR MEDICAL RESEARCH   (United States)

Author keywords

[No Author keywords available]

Indexed keywords

ALPHA INTERFERON; BETA INTERFERON; GAMMA INTERFERON; INFLUENZA VACCINE; INTERFERON; MESSENGER RNA; PNEUMOCOCCUS POLYSACCHARIDE;

BLOOD; BLOOD SAMPLING; CELL POPULATION; DISEASE ACTIVITY; EDITORIAL; ESCHERICHIA COLI INFECTION; GENE EXPRESSION; GENE EXPRESSION PROFILING; GENETIC TRANSCRIPTION; HEPATITIS C; HUMAN; HUMORAL IMMUNITY; IMMUNE RESPONSE; IMMUNIZATION; IMMUNOSTIMULATION; IN VITRO STUDY; INFLAMMATION; INFLUENZA A; INFLUENZA VACCINATION; INSULIN DEPENDENT DIABETES MELLITUS; JUVENILE RHEUMATOID ARTHRITIS; LIVER GRAFT REJECTION; LYMPHOCYTIC INFILTRATION; MAJOR HISTOCOMPATIBILITY COMPLEX; METASTATIC MELANOMA; MULTIPLE SCLEROSIS; PERIPHERAL BLOOD MONONUCLEAR CELL; PHENOTYPE; PRIORITY JOURNAL; PROTEIN EXPRESSION; RHEUMATOID ARTHRITIS; RIBOSOME; SARCOIDOSIS; STAPHYLOCOCCUS INFECTION; SYSTEMIC LUPUS ERYTHEMATOSUS; T LYMPHOCYTE;

FEMALE; GENE EXPRESSION PROFILING; HUMANS; INTERFERON TYPE I; INTERFERON-GAMMA; LUPUS ERYTHEMATOSUS, SYSTEMIC; MALE;

EID: 84901600654     PISSN: 23265191     EISSN: 23265205     Source Type: Journal    
DOI: 10.1002/art.38629     Document Type: Editorial

References (18)

1. Chiche L, Jourde-Chiche N, Whalen E, Presnell S, Gersuk V, Dang K, et al. Modular transcriptional repertoire analyses of adults with systemic lupus erythematosus reveal distinct type I and type II interferon signatures. Arthritis Rheumatol 2014; 66: 1583-95.
2. Gregersen PK, Behrens TW,. Fine mapping the phenotype in autoimmune disease: the promise and pitfalls of DNA microarray technologies. Genes Immun 2003; 4: 175-6.
3. Bennett L, Palucka AK, Arce E, Cantrell V, Borvak J, Banchereau J, et al. Interferon and granulopoiesis signatures in systemic lupus erythematosus blood. J Exp Med 2003; 197: 711-23.
4. Crow MK, Kirou KA, Wohlgemuth J,. Microarray analysis of interferon-regulated genes in SLE. Autoimmunity 2003; 36: 481-90.
5. Baechler EC, Batliwalla FM, Karypis G, Gaffney PM, Ortmann WA, Espe KJ, et al. Interferon-inducible gene expression signature in peripheral blood cells of patients with severe lupus. Proc Natl Acad Sci U S A 2003; 100: 2610-5.
6. Chaussabel D, Quinn C, Shen J, Patel P, Glaser C, Baldwin N, et al. A modular analysis framework for blood genomics studies: application to systemic lupus erythematosus. Immunity 2008; 29: 150-64.
7. Obermoser G, Presnell S, Domico K, Xu H, Wang Y, Anguiano E, et al. Systems scale interactive exploration reveals quantitative and qualitative differences in response to influenza and pneumococcal vaccines. Immunity 2013; 38: 831-44.
8. Taylor MW, Tsukahara T, McClintick JN, Edenberg HJ, Kwo P,. Cyclic changes in gene expression induced by Peg-interferon alfa-2b plus ribavirin in peripheral blood monocytes (PBMC) of hepatitis C patients during the first 10 weeks of treatment. J Transl Med 2008; 6: 66.
9. Malhotra S, Bustamante MF, Perez-Miralles F, Rio J, Ruiz de Villa MC, Vegas E, et al. Search for specific biomarkers of IFNβ bioactivity in patients with multiple sclerosis. PLoS One 2011; 6: e23634.
10. Rusinova I, Forster S, Yu S, Kannan A, Masse M, Cumming H, et al. Interferome v2.0: an updated database of annotated interferon-regulated genes. Nucleic Acids Res 2013; 41: D1040-6.
11. Petri M, Singh S, Tesfasyone H, Dedrick R, Fry K, Lal P, et al. Longitudinal expression of type I interferon responsive genes in systemic lupus erythematosus. Lupus 2009; 18: 980-9.
12. Landolt-Marticorena C, Bonventi G, Lubovich A, Ferguson C, Unnithan T, Su J, et al. Lack of association between the interferon-α signature and longitudinal changes in disease activity in systemic lupus erythematosus. Ann Rheum Dis 2009; 68: 1440-6.
13. Bloom CI, Graham CM, Berry MP, Rozakeas F, Redford PS, Wang Y, et al. Transcriptional blood signatures distinguish pulmonary tuberculosis, pulmonary sarcoidosis, pneumonias and lung cancers. PLoS One 2013; 8: e70630.
14. Curran M, Oswald M, Lamberth S, Brodmerkel C, Cherkas Z, Gregersen PK,. Modular analysis of in peripheral blood gene expression in rheumatoid arthritis captures reproducible gene expression changes in TNF responders [abstract]. Arthritis Rheum 2013; 65 Suppl: S58.
15. Bucasas KL, Franco LM, Shaw CA, Bray MS, Wells JM, Nino D, et al. Early patterns of gene expression correlate with the humoral immune response to influenza vaccination in humans. J Infect Dis 2011; 203: 921-9.
16. Li S, Rouphael N, Duraisingham S, Romero-Steiner S, Presnell S, Davis C, et al. Molecular signatures of antibody responses derived from a systems biology study of five human vaccines. Nat Immunol 2014; 15: 195-204.
17. Haining WN,. Strength in numbers: comparing vaccine signatures the modular way. Nat Immunol 2014; 15: 139-41.
18. Chattopadhyay PK, Gierahn TM, Roederer M, Love JC,. Single-cell technologies for monitoring immune systems. Nat Immunol 2014; 15: 128-35.