- Home
- Publications
- Publication Search
- Publication Details
Title
Network representations of immune system complexity
Authors
Keywords
-
Journal
Wiley Interdisciplinary Reviews-Systems Biology and Medicine
Volume 7, Issue 1, Pages 13-38
Publisher
Wiley
Online
2015-01-27
DOI
10.1002/wsbm.1288
References
Ask authors/readers for more resources
Related references
Note: Only part of the references are listed.- Dissecting Engineered Cell Types and Enhancing Cell Fate Conversion via CellNet
- (2014) Samantha A. Morris et al. CELL
- CellNet: Network Biology Applied to Stem Cell Engineering
- (2014) Patrick Cahan et al. CELL
- The Immune Receptor NOD1 and Kinase RIP2 Interact with Bacterial Peptidoglycan on Early Endosomes to Promote Autophagy and Inflammatory Signaling
- (2014) Aaron T. Irving et al. Cell Host & Microbe
- T cell migration in intact lymph nodes in vivo
- (2014) Marcia A Munoz et al. CURRENT OPINION IN CELL BIOLOGY
- Transcriptome-Based Network Analysis Reveals a Spectrum Model of Human Macrophage Activation
- (2014) Jia Xue et al. IMMUNITY
- Endosomes are specialized platforms for bacterial sensing and NOD2 signalling
- (2014) Norihiro Nakamura et al. NATURE
- Unifying immunology with informatics and multiscale biology
- (2014) Brian A Kidd et al. NATURE IMMUNOLOGY
- High-throughput microfluidic single-cell analysis pipeline for studies of signaling dynamics
- (2014) Ryan A Kellogg et al. Nature Protocols
- Heterogeneity in immune responses: from populations to single cells
- (2014) Rahul Satija et al. TRENDS IN IMMUNOLOGY
- PHISTO: pathogen–host interaction search tool
- (2013) Saliha Durmuş Tekir et al. BIOINFORMATICS
- Pathview: an R/Bioconductor package for pathway-based data integration and visualization
- (2013) Weijun Luo et al. BIOINFORMATICS
- CluePedia Cytoscape plugin: pathway insights using integrated experimental and in silico data
- (2013) Gabriela Bindea et al. BIOINFORMATICS
- The Adaptor MAVS Promotes NLRP3 Mitochondrial Localization and Inflammasome Activation
- (2013) Naeha Subramanian et al. CELL
- Network Medicine in Disease Analysis and Therapeutics
- (2013) B Chen et al. CLINICAL PHARMACOLOGY & THERAPEUTICS
- Network-Based Approaches in Drug Discovery and Early Development
- (2013) J M Harrold et al. CLINICAL PHARMACOLOGY & THERAPEUTICS
- Quantitative single cell and single molecule proteomics for clinical studies
- (2013) Keith R Willison et al. CURRENT OPINION IN BIOTECHNOLOGY
- Synergistic Activation of Inflammatory Cytokine Genes by Interferon-γ-Induced Chromatin Remodeling and Toll-like Receptor Signaling
- (2013) Yu Qiao et al. IMMUNITY
- Immune Sensing of DNA
- (2013) Søren R. Paludan et al. IMMUNITY
- The Mitochondrial Antiviral Protein MAVS Associates with NLRP3 and Regulates Its Inflammasome Activity
- (2013) S. Park et al. JOURNAL OF IMMUNOLOGY
- Single-cell transcriptomics reveals bimodality in expression and splicing in immune cells
- (2013) Alex K. Shalek et al. NATURE
- Induction of pathogenic TH17 cells by inducible salt-sensing kinase SGK1
- (2013) Chuan Wu et al. NATURE
- Interlaboratory reproducibility of large-scale human protein-complex analysis by standardized AP-MS
- (2013) Markku Varjosalo et al. NATURE METHODS
- Single-cell analysis and sorting using droplet-based microfluidics
- (2013) Linas Mazutis et al. Nature Protocols
- The MIntAct project—IntAct as a common curation platform for 11 molecular interaction databases
- (2013) Sandra Orchard et al. NUCLEIC ACIDS RESEARCH
- The Reactome pathway knowledgebase
- (2013) David Croft et al. NUCLEIC ACIDS RESEARCH
- PATRIC, the bacterial bioinformatics database and analysis resource
- (2013) Alice R. Wattam et al. NUCLEIC ACIDS RESEARCH
- Immunological Genome Project and systems immunology
- (2013) Tal Shay et al. TRENDS IN IMMUNOLOGY
- Virulence factors of theMycobacterium tuberculosiscomplex
- (2013) Marina A. Forrellad et al. Virulence
- Modeling community-wide molecular networks of multicellular systems
- (2012) K. Komurov BIOINFORMATICS
- Literature mining of host–pathogen interactions: comparing feature-based supervised learning and language-based approaches
- (2012) Thanh Thieu et al. BIOINFORMATICS
- Systems biology of pathogen-host interaction: Networks of protein-protein interaction within pathogens and pathogen-human interactions in the post-genomic era
- (2012) Saliha D. Durmuş Tekir et al. Biotechnology Journal
- A network-based, integrative study to identify core biological pathways that drive breast cancer clinical subtypes
- (2012) B Dutta et al. BRITISH JOURNAL OF CANCER
- A Spatially-Organized Multicellular Innate Immune Response in Lymph Nodes Limits Systemic Pathogen Spread
- (2012) Wolfgang Kastenmüller et al. CELL
- Network Crosstalk Dynamically Changes during Neutrophil Polarization
- (2012) Chin-Jen Ku et al. CELL
- Computational analysis of interactomes: Current and future perspectives for bioinformatics approaches to model the host–pathogen interaction space
- (2012) Roland Arnold et al. METHODS
- A High-Throughput Chromatin Immunoprecipitation Approach Reveals Principles of Dynamic Gene Regulation in Mammals
- (2012) Manuel Garber et al. MOLECULAR CELL
- Luck or reason
- (2012) Albert-László Barabási NATURE
- A FOXO3–IRF7 gene regulatory circuit limits inflammatory sequelae of antiviral responses
- (2012) Vladimir Litvak et al. NATURE
- Leveraging models of cell regulation and GWAS data in integrative network-based association studies
- (2012) Andrea Califano et al. NATURE GENETICS
- Deciphering the transcriptional network of the dendritic cell lineage
- (2012) Jennifer C Miller et al. NATURE IMMUNOLOGY
- Identification of regulators of the innate immune response to cytosolic DNA and retroviral infection by an integrative approach
- (2012) Mark N Lee et al. NATURE IMMUNOLOGY
- Wisdom of crowds for robust gene network inference
- (2012) Daniel Marbach et al. NATURE METHODS
- A travel guide to Cytoscape plugins
- (2012) Rintaro Saito et al. NATURE METHODS
- InnateDB: systems biology of innate immunity and beyond—recent updates and continuing curation
- (2012) Karin Breuer et al. NUCLEIC ACIDS RESEARCH
- STRING v9.1: protein-protein interaction networks, with increased coverage and integration
- (2012) Andrea Franceschini et al. NUCLEIC ACIDS RESEARCH
- Quantification of lymph node transit times reveals differences in antigen surveillance strategies of naive CD4+ and CD8+ T cells
- (2012) J. N. Mandl et al. PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA
- Recent progress using systems biology approaches to better understand molecular mechanisms of immunity
- (2012) Rachel A. Gottschalk et al. SEMINARS IN IMMUNOLOGY
- Host–Pathogen Interaction in Invasive Salmonellosis
- (2012) Hanna K. de Jong et al. PLoS Pathogens
- HCMV-Infected Cells Maintain Efficient Nucleotide Excision Repair of the Viral Genome while Abrogating Repair of the Host Genome
- (2012) John M. O'Dowd et al. PLoS Pathogens
- Tutorial on biological networks
- (2012) Francisco G. Vital-Lopez et al. Wiley Interdisciplinary Reviews-Data Mining and Knowledge Discovery
- RedeR: R/Bioconductor package for representing modular structures, nested networks and multiple levels of hierarchical associations.
- (2012) Mauro AA Castro et al. GENOME BIOLOGY
- GPS-Prot: A web-based visualization platform for integrating host-pathogen interaction data
- (2011) Marie E Fahey et al. BMC BIOINFORMATICS
- Systematic Discovery of TLR Signaling Components Delineates Viral-Sensing Circuits
- (2011) Nicolas Chevrier et al. CELL
- Mapping a Dynamic Innate Immunity Protein Interaction Network Regulating Type I Interferon Production
- (2011) Shitao Li et al. IMMUNITY
- Supervised learning and prediction of physical interactions between human and HIV proteins
- (2011) Matthew D. Dyer et al. INFECTION GENETICS AND EVOLUTION
- AnimalTFDB: a comprehensive animal transcription factor database
- (2011) H.-M. Zhang et al. NUCLEIC ACIDS RESEARCH
- WikiPathways: building research communities on biological pathways
- (2011) T. Kelder et al. NUCLEIC ACIDS RESEARCH
- KEGG for integration and interpretation of large-scale molecular data sets
- (2011) M. Kanehisa et al. NUCLEIC ACIDS RESEARCH
- Computational Prediction of Host-Parasite Protein Interactions between P. falciparum and H. sapiens
- (2011) Stefan Wuchty PLoS One
- An expanded protein-protein interaction network in Bacillus subtilis reveals a group of hubs: Exploration by an integrative approach
- (2011) Elodie Marchadier et al. PROTEOMICS
- A Systems Biology Approach to Infectious Disease Research: Innovating the Pathogen-Host Research Paradigm
- (2011) A. Aderem et al. mBio
- Document classification for mining host pathogen protein–protein interactions
- (2010) Lanlan Yin et al. ARTIFICIAL INTELLIGENCE IN MEDICINE
- BioNet: an R-Package for the functional analysis of biological networks
- (2010) D. Beisser et al. BIOINFORMATICS
- GeneMANIA Cytoscape plugin: fast gene function predictions on the desktop
- (2010) J. Montojo et al. BIOINFORMATICS
- HPIDB - a unified resource for host-pathogen interactions
- (2010) Ranjit Kumar et al. BMC BIOINFORMATICS
- Peroxisomes Are Signaling Platforms for Antiviral Innate Immunity
- (2010) Evelyn Dixit et al. CELL
- Highly multiparametric analysis by mass cytometry
- (2010) Olga Ornatsky et al. JOURNAL OF IMMUNOLOGICAL METHODS
- Effects of NOD-like receptors in human B lymphocytes and crosstalk between NOD1/NOD2 and Toll-like receptors
- (2010) Terese Petterson et al. JOURNAL OF LEUKOCYTE BIOLOGY
- Global Protein−Protein Interaction Network in the Human PathogenMycobacterium tuberculosisH37Rv
- (2010) Yi Wang et al. JOURNAL OF PROTEOME RESEARCH
- Dynamic interaction networks in a hierarchically organized tissue
- (2010) Daniel C Kirouac et al. Molecular Systems Biology
- A trans-acting locus regulates an anti-viral expression network and type 1 diabetes risk
- (2010) Matthias Heinig et al. NATURE
- Chemical genetics of Plasmodium falciparum
- (2010) W. Armand Guiguemde et al. NATURE
- From noncoding variant to phenotype via SORT1 at the 1p13 cholesterol locus
- (2010) Kiran Musunuru et al. NATURE
- Single-cell NF-κB dynamics reveal digital activation and analogue information processing
- (2010) Savaş Tay et al. NATURE
- Large-scale in silico modeling of metabolic interactions between cell types in the human brain
- (2010) Nathan E Lewis et al. NATURE BIOTECHNOLOGY
- Towards genome-scale signalling-network reconstructions
- (2010) Daniel R. Hyduke et al. NATURE REVIEWS GENETICS
- Network medicine: a network-based approach to human disease
- (2010) Albert-László Barabási et al. NATURE REVIEWS GENETICS
- Advantages and limitations of current network inference methods
- (2010) Riet De Smet et al. NATURE REVIEWS MICROBIOLOGY
- DIMA 3.0: Domain Interaction Map
- (2010) Q. Luo et al. NUCLEIC ACIDS RESEARCH
- Pathway Commons, a web resource for biological pathway data
- (2010) E. G. Cerami et al. NUCLEIC ACIDS RESEARCH
- Analysis of diverse regulatory networks in a hierarchical context shows consistent tendencies for collaboration in the middle levels
- (2010) N. Bhardwaj et al. PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA
- How viruses hijack cell regulation
- (2010) Norman E. Davey et al. TRENDS IN BIOCHEMICAL SCIENCES
- TB database 2010: Overview and update
- (2010) James E. Galagan et al. TUBERCULOSIS
- ClueGO: a Cytoscape plug-in to decipher functionally grouped gene ontology and pathway annotation networks
- (2009) Gabriela Bindea et al. BIOINFORMATICS
- Prediction of HIV-1 virus-host protein interactions using virus and host sequence motifs
- (2009) Perry Evans et al. BMC Medical Genomics
- CAPIH: A Web interface for comparative analyses and visualization of host-HIV protein-protein interactions
- (2009) Fan-Kai Lin et al. BMC MICROBIOLOGY
- A dynamic network of transcription in LPS-treated human subjects
- (2009) Junhee Seok et al. BMC Systems Biology
- Gene-centered regulatory networks
- (2009) H. E. Arda et al. Briefings in Functional Genomics
- A Recurrent Network Involving the Transcription Factors PU.1 and Gfi1 Orchestrates Innate and Adaptive Immune Cell Fates
- (2009) Chauncey J. Spooner et al. IMMUNITY
- Cutting Edge: NF- B Activating Pattern Recognition and Cytokine Receptors License NLRP3 Inflammasome Activation by Regulating NLRP3 Expression
- (2009) F. G. Bauernfeind et al. JOURNAL OF IMMUNOLOGY
- Multiple signaling pathways contribute to synergistic TLR ligand-dependent cytokine gene expression in human monocyte-derived macrophages and dendritic cells
- (2009) S. M. Makela et al. JOURNAL OF LEUKOCYTE BIOLOGY
- Network inference and network response identification: moving genome-scale data to the next level of biological discovery
- (2009) Diogo F. T. Veiga et al. Molecular BioSystems
- Molecular networks as sensors and drivers of common human diseases
- (2009) Eric E. Schadt NATURE
- Human host factors required for influenza virus replication
- (2009) Renate König et al. NATURE
- Navigating the network: signaling cross-talk in hematopoietic cells
- (2009) Iain D C Fraser et al. NATURE IMMUNOLOGY
- A network view of disease and compound screening
- (2009) Eric E. Schadt et al. NATURE REVIEWS DRUG DISCOVERY
- ChIP–seq: advantages and challenges of a maturing technology
- (2009) Peter J. Park NATURE REVIEWS GENETICS
- Integrative genomics and drug development
- (2009) Pek Y Lum et al. PHARMACOGENOMICS
- Influence of Protein Abundance on High-Throughput Protein-Protein Interaction Detection
- (2009) Joseph Ivanic et al. PLoS One
- Unbiased Reconstruction of a Mammalian Transcriptional Network Mediating Pathogen Responses
- (2009) I. Amit et al. SCIENCE
- Evolutionarily Conserved Herpesviral Protein Interaction Networks
- (2009) Even Fossum et al. PLoS Pathogens
- TFCat: the curated catalog of mouse and human transcription factors
- (2009) Debra L Fulton et al. GENOME BIOLOGY
- ITFP: an integrated platform of mammalian transcription factors
- (2008) G. Zheng et al. BIOINFORMATICS
- A novel signaling pathway impact analysis
- (2008) Adi Laurentiu Tarca et al. BIOINFORMATICS
- Ortholog-based protein-protein interaction prediction and its application to inter-species interactions
- (2008) Sheng-An Lee et al. BMC BIOINFORMATICS
- The TRANSFAC project as an example of framework technology that supports the analysis of genomic regulation
- (2008) E. Wingender BRIEFINGS IN BIOINFORMATICS
- Host Innate Immune Receptors and Beyond: Making Sense of Microbial Infections
- (2008) Ken J. Ishii et al. Cell Host & Microbe
- Systems biology of innate immunity
- (2008) Daniel E. Zak et al. IMMUNOLOGICAL REVIEWS
- Variations in DNA elucidate molecular networks that cause disease
- (2008) Yanqing Chen et al. NATURE
- VirHostNet: a knowledge base for the management and the analysis of proteome-wide virus–host interaction networks
- (2008) Vincent Navratil et al. NUCLEIC ACIDS RESEARCH
- PID: the Pathway Interaction Database
- (2008) Carl F. Schaefer et al. NUCLEIC ACIDS RESEARCH
- The Binary Protein Interactome of Treponema pallidum – The Syphilis Spirochete
- (2008) Björn Titz et al. PLoS One
- The Landscape of Human Proteins Interacting with Viruses and Other Pathogens
- (2008) Matthew D. Dyer et al. PLoS Pathogens
- Uncovering a Macrophage Transcriptional Program by Integrating Evidence from Motif Scanning and Expression Dynamics
- (2008) Stephen A. Ramsey et al. PLoS Computational Biology
Publish scientific posters with Peeref
Peeref publishes scientific posters from all research disciplines. Our Diamond Open Access policy means free access to content and no publication fees for authors.
Learn MoreFind the ideal target journal for your manuscript
Explore over 38,000 international journals covering a vast array of academic fields.
Search