Transcriptomic Profiling of the Development of the Inflammatory Response in Human Monocytes In Vitro

PLoS ONE - Tập 9 Số 2 - Trang e87680
Paola Italiani1, Emilia Maria Cristina Mazza2, Davide Lucchesi1, Ingrid Cifola1, Claudia Gemelli2, Alexis Grande2, Cristina Battaglia3,1, Silvio Bicciato2, Diana Boraschi1,4
1Institute of Biomedical Technologies, National Research Council, Pisa/Segrate, Italy
2Department of Life Sciences, University of Modena and Reggio Emilia, Modena, Italy
3Department of Medical Biotechnology and Translational Medicine, University of Milano, Segrate, Italy
4Institute of Protein Biochemistry, National Research Council, Naples, Italy

Tóm tắt

Từ khóa


Tài liệu tham khảo

A Ortega-Gómez, 2013, Resolution of inflammation: an integrated view, EMBO Mol Med, 5, 661, 10.1002/emmm.201202382

C Robert, 2011, Macrophages.com: an on-line community resource for innate immunity research, Immunobiol, 216, 1203, 10.1016/j.imbio.2011.07.025

LC Davies, 2013, Tissue-resident macrophages, Nat Immunol, 14, 986, 10.1038/ni.2705

PR Taylor, 2003, Monocytes heterogeneity and innate immunity, Immunity, 19, 2, 10.1016/S1074-7613(03)00178-X

RD Stout, 2004, Functional plasticity of macrophages: reversible adaptation to changing microenvironments, J Leukoc Biol, 76, 509, 10.1189/jlb.0504272

S Gordon, 2010, Alternative activation of macrophages: mechanism and functions, Immunity, 32, 593, 10.1016/j.immuni.2010.05.007

S Gordon, 2005, Monocyte and macrophage heterogeneity, Nat Rev Immunol, 5, 953, 10.1038/nri1733

A Mantovani, 2004, The chemokine system in diverse forms of macrophage activation and polarization, Trends Immunol, 25, 677, 10.1016/j.it.2004.09.015

FO Martinez, 2008, Macrophage activation and polarization, Front Biosci, 13, 453, 10.2741/2692

A Mantovani, 2002, Macrophage polarization: tumor-associated macrophages as a paradigm for polarized M2 mononuclear phagocytes, Trends Immunol, 23, 549, 10.1016/S1471-4906(02)02302-5

C Auffray, 2007, Monitoring of blood vessels and tissues by a population of monocytes with patrolling behavior, Science, 317, 666, 10.1126/science.1142883

M Nahrendorf, 2007, The healing myocardium sequentially mobilizes two monocyte subsets with divergent and complementary functions, J Exp Med, 204, 3037, 10.1084/jem.20070885

L Arnold, 2007, Inflammatory monocytes recruited after skeletal muscle injury switch into antiinflammatory macrophages to support myogenesis, J Exp Med, 204, 1057, 10.1084/jem.20070075

O Osborn, 2012, The cellular and signaling networks linking the immune system and metabolism in disease, Nat Med, 18, 363, 10.1038/nm.2627

KJ Moore, 2011, Macrophages in the pathogenesis of atherosclerosis, Cell, 145, 341, 10.1016/j.cell.2011.04.005

SK Biswas, 2010, Macrophages plasticity and interaction with lymphocyte subsets: cancer as a paradigm, Nat Immunol, 11, 889, 10.1038/ni.1937

SK Biswas, 2009, Endotoxin tolerance: new mechanisms, molecules and clinical significance, Trends Immunol, 30, 475, 10.1016/j.it.2009.07.009

FO Martinez, 2006, Transcriptional profiling of the human monocyte-to-macrophage differentiation and polarization: new molecules and patterns of gene expression, J Immunol, 177, 7303, 10.4049/jimmunol.177.10.7303

ST Smale, 2010, Selective transcription in response to an inflammatory stimulus, Cell, 140, 833, 10.1016/j.cell.2010.01.037

Stevenson CS, Marshall LA, Morgan DW (2006) In vivo Models of Inflammation. 2<sup>nd</sup> edition. Berlin: Springer Verlag. 207 p.

The Macrophage Community Website. Available: <ext-link xmlns:xlink="http://www.w3.org/1999/xlink" ext-link-type="uri" xlink:href="http://www.macrophages.com" xlink:type="simple">http://www.macrophages.com</ext-link>. Accessed 2013 April 18.

KL Wong, 2012, The three human monocyte subsets: implications for health and disease, Immunol Res, 53, 41, 10.1007/s12026-012-8297-3

RA Irizarry, 2003, Exploration, normalization, and summaries of high density oligonucleotide array probe level data, Biostatistics, 4, 249, 10.1093/biostatistics/4.2.249

F Ferrari, 2007, Novel definition files for human GeneChips based on GeneAnnot, BMC Bioinformatics, 8, 446, 10.1186/1471-2105-8-446

A Conesa, 2006, maSigPro: a method to identify significantly differential expression profiles in time-course microarray experiments, Bioinformatics, 22, 1096, 10.1093/bioinformatics/btl056

A Bisognin, 2009, A-MADMAN: annotation-based microarray data meta-analysis tool, BMC Bioinformatics, 10, 201, 10.1186/1471-2105-10-201

M Dai, 2005, Evolving gene/transcript definitions significantly alter the interpretation of GeneChip data, Nucleic Acids Res, 33, e175, 10.1093/nar/gni179

VG Tusher, 2001, Significance analysis of microarrays applied to the ionizing radiation response, Proc Natl Acad Sci U S A, 98, 5116, 10.1073/pnas.091062498

A Subramanian, 2005, Gene set enrichment analysis: a knowledge-based approach for interpreting genome-wide expression profiles, Proc Natl Acad Sci U S A, 102, 15545, 10.1073/pnas.0506580102

KJ Livak, 2001, Analysis of relative gene expression data using real-time quantitative PCR and the 2(-Delta Delta C(T)) Method, Methods, 25, 402, 10.1006/meth.2001.1262

MA Ingersoll, 2011, Monocyte trafficking in acute and chronic inflammation, Trends Immunol, 32, 470, 10.1016/j.it.2011.05.001

MM Davis, 2008, A prescription for human immunology, Immunity, 29, 835, 10.1016/j.immuni.2008.12.003

J Seok, 2013, Genomic responses in mouse models poorly mimic human inflammatory diseases, PNAS, 110, 3507, 10.1073/pnas.1222878110

C Pan, 2009, Comparative proteomic phenotyping of cell lines and primary cells to assess preservation of cell type-specific functions, Mol Cell Proteomics, 8, 443, 10.1074/mcp.M800258-MCP200

M Daigneault, 2010, The identification of markers of macrophage differentiation in PMA-stimulated THP-1 cells and monocyte-derived macrophages, PLoS ONE, 5, e8668, 10.1371/journal.pone.0008668

DTA Ploeger, 2012, Human macrophages primed with angiogenic factors show dynamics plasticity, irrespective of extracellular matrix components, Immunobiol, 217, 299, 10.1016/j.imbio.2011.10.007

D Laukens, 2009, Human metallothionein expression under normal and pathological conditions: mechanisms of gene regulation based on in silico promoter analysis, Crit Rev Eukaryot Gene Expr, 19, 301, 10.1615/CritRevEukarGeneExpr.v19.i4.40

OM Pena, 2011, Endotoxin tolerance represents a distinctive state of alternative polarization (M2) in human mononuclear cells, J Immunol, 186, 7243, 10.4049/jimmunol.1001952

Verschoor CP, Puchta A, Bowdish DME (2012) The macrophage. In <italic>Methods Mol Biol</italic>, Leucocytes Methods and Protocols, ed Ashman RB (Springer, New York City), pp 139–156.

SK Biswas, 2012, Orchestration of metabolism by macrophages, Cell Metab, 15, 432, 10.1016/j.cmet.2011.11.013

SK Biswas, 2012, Macrophage polarization and plasticity in health and disease, Immunol Res, 53, 11, 10.1007/s12026-012-8291-9

FO Martinez, 2011, Regulators of macrophage activation, Eur J Immunol, 41, 1531, 10.1002/eji.201141670

MJ Stables, 2011, Transcriptomic analyses of murine resolution-phase macrophages, Blood, 118, e192, 10.1182/blood-2011-04-345330

SJ Jenkins, 2011, Local macrophage proliferation, rather than recruitment from the blood, is a signature of TH2 inflammation, Science, 332, 1284, 10.1126/science.1204351

RB Clark, 2002, The role of PPARs in inflammation and immunity, J Leukoc Biol, 71, 388, 10.1189/jlb.71.3.388

P Tontonoz, 1998, PPARgamma promotes monocyte/macrophage differentiation and uptake of oxidized LDL, Cell, 93, 241, 10.1016/S0092-8674(00)81575-5

JI Odegaard, 2011, Alternative macrophage activation and metabolism, Annu Rev Pathol, 6, 275, 10.1146/annurev-pathol-011110-130138

X Liao, 2011, Krüppel-like factor 4 regulates macrophage polarization, J Clin Invest, 121, 2736, 10.1172/JCI45444