Systems biology of innate immunity.

Abstract:

:Systems biology is the comprehensive and quantitative analysis of the interactions between all of the components of biological systems over time. Systems biology involves an iterative cycle, in which emerging biological problems drive the development of new technologies and computational tools. These technologies and tools then open new frontiers that revolutionize biology. Innate immunity is well suited for systems analysis, because the relevant cells can be isolated in various functional states and their interactions can be reconstituted in a biologically meaningful manner. Application of the tools of systems biology to the innate immune system will enable comprehensive analysis of the complex interactions that maintain the difficult balance between host defense and inflammatory disease. In this review, we discuss innate immunity in the context of the systems biology concepts, emergence, robustness, and modularity, and we describe emerging technologies we are applying in our systems-level analyses. These technologies include genomics, proteomics, computational analysis, forward genetics screens, and analyses that link human genetic polymorphisms to disease resistance.

journal_name

Immunol Rev

journal_title

Immunological reviews

authors

Zak DE,Aderem A

doi

10.1111/j.1600-065X.2008.00721.x

subject

Has Abstract

pub_date

2009-01-01 00:00:00

pages

264-82

issue

1

eissn

0105-2896

issn

1600-065X

pii

IMR721

journal_volume

227

pub_type

杂志文章,评审
  • Therapeutic vaccines in HIV.1 infection.

    abstract::In this review we address questions which must be considered if better attempts are to be made to treat all persons presently infected with human immunodeficiency virus (HIV). There are thirty million people in the world presently living with HIV, only 10% of whom are likely to be able to access currently available dr...

    journal_title:Immunological reviews

    pub_type: 杂志文章,评审

    doi:10.1111/j.1600-065x.1999.tb01337.x

    authors: Gotch F,Hardy G,Imami N

    更新日期:1999-08-01 00:00:00

  • Fine tuning the immune response through B7-H3 and B7-H4.

    abstract:SUMMARY:B7-H3 and B7-H4 belong to a new class of immune regulatory molecules, which primarily execute their functions in peripheral tissues to fine tune immune responses in target organs. In normal circumstances, while the mRNA for both molecules is broadly distributed, tight control at the post-transcriptional level i...

    journal_title:Immunological reviews

    pub_type: 杂志文章,评审

    doi:10.1111/j.1600-065X.2009.00768.x

    authors: Yi KH,Chen L

    更新日期:2009-05-01 00:00:00

  • V(D)J recombination: how to tame a transposase.

    abstract::Since the discovery that the recombination-activating gene (RAG) proteins were capable of transposition in vitro, investigators have been trying to uncover instances of transposition in vivo and understand how this transposase has been harnessed to do useful work while being inhibited from causing deleterious chromoso...

    journal_title:Immunological reviews

    pub_type: 杂志文章,评审

    doi:10.1111/j.0105-2896.2004.00161.x

    authors: Brandt VL,Roth DB

    更新日期:2004-08-01 00:00:00

  • Adaptive immune responses mediated by natural killer cells.

    abstract::Adaptive immunity has traditionally been considered a unique feature of vertebrate physiology. Unlike innate immune responses, which remain essentially unchanged upon exposure to a recurrent challenge with the same stimulus, adaptive immune cells possess the ability to learn and remember. Thus, secondary adaptive resp...

    journal_title:Immunological reviews

    pub_type: 杂志文章,评审

    doi:10.1111/j.0105-2896.2010.00906.x

    authors: Paust S,Senman B,von Andrian UH

    更新日期:2010-05-01 00:00:00

  • B lymphocytes as antigen-presenting cell-based genetic vaccines.

    abstract::Inoculation of plasmid DNA is a simple way to immunize, but it is characterized by low immunogenicity, which has hampered the development of effective DNA vaccines for human use. Here, we discuss how poor immunogenicity can be solved and present our proposal: genetically programmed B lymphocytes as antigen-presenting ...

    journal_title:Immunological reviews

    pub_type: 杂志文章,评审

    doi:10.1111/j.0105-2896.2004.00152.x

    authors: Zanetti M,Castiglioni P,Rizzi M,Wheeler M,Gerloni M

    更新日期:2004-06-01 00:00:00

  • Idiotypic networks: toward a renaissance?

    abstract::Idiotypic networks, after being a dominating paradigm for more than a decade, have fallen out of fashion in parallel with the rapid success of molecular immunobiology. Today signs of a possible renaissance in idiotypic network studies are visible. For system biologists and also for physicists, the network idea remains...

    journal_title:Immunological reviews

    pub_type: 杂志文章,评审

    doi:10.1111/j.1600-065X.2006.00496.x

    authors: Behn U

    更新日期:2007-04-01 00:00:00

  • The role of oxidative stress and innate immunity in O(3) and endotoxin-induced human allergic airway disease.

    abstract::Ozone (O(3)) and endotoxin are common environmental contaminants that cause asthma exacerbation. These pollutants have similar phenotype response characteristics, including induction of neutrophilic inflammation, changes in airway macrophage immunophenotypes, and ability to enhance response to inhaled allergen. Evoked...

    journal_title:Immunological reviews

    pub_type: 杂志文章,评审

    doi:10.1111/j.1600-065X.2011.01035.x

    authors: Peden DB

    更新日期:2011-07-01 00:00:00

  • Preclinical evaluation of human hematolymphoid function in the SCID-hu mouse.

    abstract::Work in the SCID-hu system has progressed significantly over the past 3-4 years. Reliable SCID-hu constructs can now be created for the evaluation of long-term multilineage human hematopoiesis, human immune function, and HIV infection of human hematolymphoid organs in vivo. Given these constructs, a variety of therape...

    journal_title:Immunological reviews

    pub_type: 杂志文章,评审

    doi:10.1111/j.1600-065x.1991.tb00615.x

    authors: McCune JM,Péault B,Streeter PR,Rabin L

    更新日期:1991-12-01 00:00:00

  • Transcriptional regulation of RANTES expression in T lymphocytes.

    abstract::We first identified the RANTES chemokine as part of a search for genes expressed by T lymphocytes "late", 3-5 days, after T-cell activation. The kinetics of expression of RANTES and a small number of other genes are unusual and the mechanism of such delayed expression is unknown. In order to uncover a mechanism for su...

    journal_title:Immunological reviews

    pub_type: 杂志文章,评审

    doi:10.1034/j.1600-065x.2000.17610.x

    authors: Song A,Nikolcheva T,Krensky AM

    更新日期:2000-10-01 00:00:00

  • Surface molecules involved in the activation and regulation of T or natural killer lymphocytes in humans.

    abstract::The surface molecules that mediate activation of different subsets of T or NK cells have been reviewed. A suitable approach to the study of different lymphocyte activation pathways is provided by mAbs specific for these molecules. MAbs directed to the CD3 surface molecules mediate a polyclonal T-cell activation, where...

    journal_title:Immunological reviews

    pub_type: 杂志文章,评审

    doi:10.1111/j.1600-065x.1989.tb00545.x

    authors: Moretta A,Ciccone E,Pantaleo G,Tambussi G,Bottino C,Melioli G,Mingari MC,Moretta L

    更新日期:1989-10-01 00:00:00

  • The role of IL-21 in regulating B-cell function in health and disease.

    abstract:SUMMARY:Interleukin-21 (IL-21) belongs to a family of cytokines that includes IL-2, IL-4, IL-7, IL-9, and IL-15, all of which bind to private (or shared) receptors as well as the common cytokine receptor gamma-chain as a component. Most cytokines in this family are critically important for both the maintenance and func...

    journal_title:Immunological reviews

    pub_type: 杂志文章,评审

    doi:10.1111/j.1600-065X.2008.00631.x

    authors: Ettinger R,Kuchen S,Lipsky PE

    更新日期:2008-06-01 00:00:00

  • Adrenal 21-hydroxylase cytochrome P-450 genes within the MHC class III region.

    abstract::Genes encoding several serum complement components and the gene(s) for steroid 21-hydroxylase (21-OH) have been located in the class III region of the major histocompatibility complex (MHC). All these genes are highly polymorphic in man, and these polymorphisms have been used to draw conclusions about the structure an...

    journal_title:Immunological reviews

    pub_type: 杂志文章,评审

    doi:10.1111/j.1600-065x.1985.tb01148.x

    authors: White PC,New MI,Dupont B

    更新日期:1985-10-01 00:00:00

  • Immune restoration after antiretroviral therapy: the pitfalls of hasty or incomplete repairs.

    abstract::Antiretroviral therapy (ART) is a life-saving intervention in human immunodeficiency virus (HIV) infection. Immune restoration after ART dramatically reduces the incidence and severity of opportunistic diseases and death. On some occasions, immune restoration may be erratic, leading to acute inflammatory responses (kn...

    journal_title:Immunological reviews

    pub_type: 杂志文章,评审

    doi:10.1111/imr.12064

    authors: Wilson EM,Sereti I

    更新日期:2013-07-01 00:00:00

  • The many ways tissue phagocytes respond to dying cells.

    abstract::Apoptosis is an important component of normal tissue physiology, and the prompt removal of apoptotic cells is equally essential to avoid the undesirable consequences of their accumulation and disintegration. Professional phagocytes are highly specialized for engulfing apoptotic cells. The recent ability to track cells...

    journal_title:Immunological reviews

    pub_type: 杂志文章,评审

    doi:10.1111/imr.12537

    authors: Blander JM

    更新日期:2017-05-01 00:00:00

  • Bronchus- and nasal-associated lymphoid tissues.

    abstract::The bronchus-associated lymphoid tissue (BALT) and the nasal-associated lymphoid tissue (NALT) constitute organized lymphoid aggregates that are capable of T- and B-cell responses to inhaled antigens. BALT, located mostly at bifurcations of the bronchus in animals and humans, is present in the fetus and develops rapid...

    journal_title:Immunological reviews

    pub_type: 杂志文章,评审

    doi:10.1111/j.0105-2896.2005.00299.x

    authors: Bienenstock J,McDermott MR

    更新日期:2005-08-01 00:00:00

  • Regulatory T-cell, endogenous antigen and neonatal environment in the prevention and induction of autoimmune disease.

    abstract::Recent studies on autoimmune ovarian disease (AOD) induced by thymectomy on d3 (d3tx), and AOD induced by immunization with the ovary-specific zona pellucida 3 peptide (pZP3), have yielded the following results. First, female tolerance to pZP3 depends on the persistence of endogenous antigen (Ag). Second, following re...

    journal_title:Immunological reviews

    pub_type: 杂志文章,评审

    doi:10.1034/j.1600-065x.2001.1820111.x

    authors: Tung KS,Agersborg SS,Alard P,Garza KM,Lou YH

    更新日期:2001-08-01 00:00:00

  • The immunobiology of Th1 polarization in high-pathology schistosomiasis.

    abstract::Schistosomiasis is a serious global helminthic disease, in which the main immunopathology consists of a granulomatous and fibrosing reaction against tissue-trapped parasite eggs. The severity of this inflammatory process, the product of a CD4(+) T-cell-mediated immune response against parasite egg antigens, is, howeve...

    journal_title:Immunological reviews

    pub_type: 杂志文章,评审

    doi:10.1111/j.0105-2896.2004.00197.x

    authors: Stadecker MJ,Asahi H,Finger E,Hernandez HJ,Rutitzky LI,Sun J

    更新日期:2004-10-01 00:00:00

  • Rapid leukocyte integrin activation by chemokines.

    abstract::Chemokines control selective targeting of circulating leukocytes to the microvasculature by triggering inside-out signal transduction pathways leading to integrin-dependent adhesion. Integrin activation by chemokines is very rapid, is downmodulated within minutes and appears to involve both enhanced heterodimer latera...

    journal_title:Immunological reviews

    pub_type: 杂志文章,评审

    doi:10.1034/j.1600-065x.2002.18604.x

    authors: Laudanna C,Kim JY,Constantin G,Butcher E

    更新日期:2002-08-01 00:00:00

  • Coevolution of T-cell receptors with MHC and non-MHC ligands.

    abstract::The structure and amino acid diversity of the T-cell receptor (TCR), similar in nature to that of Fab portions of antibodies, would suggest that these proteins have a nearly infinite capacity to recognize antigen. Yet all currently defined native T cells expressing an α and β chain in their TCR can only sense antigen ...

    journal_title:Immunological reviews

    pub_type: 杂志文章,评审

    doi:10.1111/imr.12327

    authors: Castro CD,Luoma AM,Adams EJ

    更新日期:2015-09-01 00:00:00

  • The development of effector and memory T cells in cutaneous leishmaniasis: the implications for vaccine development.

    abstract::Leishmania major infections induce the development of a CD4(+) T-helper 1 (Th1) response that not only controls the primary infection but also results in life-long immunity to reinfection. How that immunity is maintained is unknown, although because of the existence of infection-induced immunity, there has been an ass...

    journal_title:Immunological reviews

    pub_type: 杂志文章,评审

    doi:10.1111/j.0105-2896.2004.00198.x

    authors: Scott P,Artis D,Uzonna J,Zaph C

    更新日期:2004-10-01 00:00:00

  • The intra- and extracellular functions of ASC specks.

    abstract::Inflammasomes are the central signaling hubs of the inflammatory response. They process cytosolic evidence of infection, cell damage, or metabolic disturbances, and elicit a pro-inflammatory response mediated by members of the interleukin-1 family of cytokines and pyroptotoic cell death. On the molecular level, this i...

    journal_title:Immunological reviews

    pub_type: 杂志文章,评审

    doi:10.1111/imr.12611

    authors: Franklin BS,Latz E,Schmidt FI

    更新日期:2018-01-01 00:00:00

  • The machinery of Nod-like receptors: refining the paths to immunity and cell death.

    abstract::One of the fundamental aspects of the innate immune system is its capacity to discriminate between self and non-self or altered self, and to quickly respond by eliciting effector mechanisms that act in concert to restore normalcy. This capacity is determined by a set of evolutionarily conserved pattern recognition rec...

    journal_title:Immunological reviews

    pub_type: 杂志文章,评审

    doi:10.1111/j.1600-065X.2011.01045.x

    authors: Saleh M

    更新日期:2011-09-01 00:00:00

  • Negative regulation of lymphocyte development and function by the Cbl family of proteins.

    abstract::Negative regulation of intracellular signaling delivered by the antigen receptors and coreceptors plays an important role in lymphocyte development and activation. Recent data from our laboratory and others have identified the Cbl family of ubiquitin ligases as important negative regulators in both T-cell and B-cell a...

    journal_title:Immunological reviews

    pub_type: 杂志文章,评审

    doi:10.1111/j.1600-065X.2008.00655.x

    authors: Huang F,Gu H

    更新日期:2008-08-01 00:00:00

  • Central tolerance: good but imperfect.

    abstract::T-cell development is a highly coordinated process that depends on interactions between thymocytes, thymic epithelium, and bone marrow (BM)-derived dendritic cells (DCs). Before entering the peripheral T-cell pool, thymocytes are subject to negative selection, a process that eliminates (or deletes) T cells with high a...

    journal_title:Immunological reviews

    pub_type: 杂志文章,评审

    doi:10.1111/j.0105-2896.2006.00348.x

    authors: Gallegos AM,Bevan MJ

    更新日期:2006-02-01 00:00:00

  • Established and emergent roles for Ikaros transcription factors in lymphoid cell development and function.

    abstract::Ikaros zinc finger transcription factors are important regulators of the gene programs underlying the development of hematopoietic cell lineages. The family consists of five members: Ikaros, Helios, Aiolos, Eos, and Pegasus, which engage in both homo- and heterotypic intrafamilial interactions to exert diverse functio...

    journal_title:Immunological reviews

    pub_type: 杂志文章,评审

    doi:10.1111/imr.12936

    authors: Read KA,Jones DM,Freud AG,Oestreich KJ

    更新日期:2020-12-17 00:00:00

  • Establishment and functional implications of B-cell connectivity.

    abstract::We have discussed some aspects of the structure of the normal immune system, particularly the B-cell compartment. We have argued: that a basic property of the natural antibody repertoire is constituted by high degrees of connectivity within the immune system as well as between the system and other components of the or...

    journal_title:Immunological reviews

    pub_type: 杂志文章,评审

    doi:10.1111/j.1600-065x.1989.tb00028.x

    authors: Holmberg D,Andersson A,Carlsson L,Forsgren S

    更新日期:1989-08-01 00:00:00

  • Membrane-cytoskeleton interactions during the formation of the immunological synapse and subsequent T-cell activation.

    abstract::Upon antigen recognition, T cells undergo substantial membrane and cytoskeletal rearrangements that lead to the formation of the immunological synapse and are necessary for subsequent T-cell activation. However, little is known about how membrane and cytoskeletal molecules interact during these processes. Here we disc...

    journal_title:Immunological reviews

    pub_type: 杂志文章,评审

    doi:10.1034/j.1600-065x.2002.18911.x

    authors: Das V,Nal B,Roumier A,Meas-Yedid V,Zimmer C,Olivo-Marin JC,Roux P,Ferrier P,Dautry-Varsat A,Alcover A

    更新日期:2002-11-01 00:00:00

  • The role of reactive oxygen species and nitric oxide in mast cell-dependent inflammatory processes.

    abstract::Reactive oxygen species (ROS) and reactive nitrogen oxide species (RNOS), including nitric oxide, are produced in cells by a variety of enzymatic and non-enzymatic mechanisms. At high levels, both types of oxidants are used to kill ingested organisms within phagocytes. At low levels, RNOS may diffuse outside cells whe...

    journal_title:Immunological reviews

    pub_type: 杂志文章,评审

    doi:10.1111/j.1600-065X.2007.00513.x

    authors: Swindle EJ,Metcalfe DD

    更新日期:2007-06-01 00:00:00

  • Regulation of interleukin-12/interleukin-23 production and the T-helper 17 response in humans.

    abstract::Interleukin-12 (IL-12) and IL-23 share a common chain. Yet, their production in response to pathogens is differentially regulated, and their functions are distinct and often antithetic. IL-12 is involved in the induction or amplification of the T-helper (Th) type 1 response, whereas IL-23 has been associated with the ...

    journal_title:Immunological reviews

    pub_type: 杂志文章,评审

    doi:10.1111/j.1600-065X.2008.00700.x

    authors: Lyakh L,Trinchieri G,Provezza L,Carra G,Gerosa F

    更新日期:2008-12-01 00:00:00

  • T follicular helper cell heterogeneity: Time, space, and function.

    abstract::T follicular helper (Tfh) cells play a crucial role in orchestrating the humoral arm of adaptive immune responses. Mature Tfh cells localize to follicles in secondary lymphoid organs (SLOs) where they provide help to B cells in germinal centers (GCs) to facilitate immunoglobulin affinity maturation, class-switch recom...

    journal_title:Immunological reviews

    pub_type: 杂志文章,评审

    doi:10.1111/imr.12740

    authors: Song W,Craft J

    更新日期:2019-03-01 00:00:00