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Christa Schorr, S. Zanotti, R. Dellinger (2013)
Severe sepsis and septic shockVirulence, 5
F. Martin, S. Rezzi, D. Philippe, Lionel Tornier, A. Messlik, G. Hölzlwimmer, P. Baur, L. Quintanilla-Fend, G. Loh, M. Blaut, S. Blum, S. Kochhar, D. Haller (2009)
Metabolic assessment of gradual development of moderate experimental colitis in IL-10 deficient mice.Journal of proteome research, 8 5
J. Chen, Eric Bardes, B. Aronow, A. Jegga (2009)
ToppGene Suite for gene list enrichment analysis and candidate gene prioritizationNucleic Acids Research, 37
M. Hoeksema, B. Scicluna, Marieke Boshuizen, Saskia Velden, A. Neele, J. Bossche, H. Matlung, T. Berg, P. Goossens, M. Winther (2015)
IFN-γ Priming of Macrophages Represses a Part of the Inflammatory Program and Attenuates Neutrophil RecruitmentThe Journal of Immunology, 194
Juan-Carlos Rodríguez-Prados, Paqui Través, J. Cuenca, D. Rico, Julián Aragonés, P. Martín-Sanz, M. Cascante, L. Boscá (2010)
Substrate Fate in Activated Macrophages: A Comparison between Innate, Classic, and Alternative ActivationThe Journal of Immunology, 185
H. Klinkmann, H. Klinkmann, Peter Ivanovich, Peter Ivanovich (1993)
Biocompatibility: The need for a systems approachJournal of Laboratory and Clinical Medicine, 121
G. Panasyuk, C. Espeillac, C. Chauvin, L. Pradelli, Y. Horie, A. Suzuki, J. Annicotte, L. Fajas, M. Foretz, Francisco Verdeguer, M. Pontoglio, P. Ferré, J. Scoazec, M. Birnbaum, J. Ricci, M. Pende (2012)
PPARγ contributes to PKM2 and HK2 expression in fatty liverNature Communications, 3
Ping Li, Yuhao Zhao, Xiaoyan Wu, Minjie Xia, Mingming Fang, Y. Iwasaki, J. Sha, Qi Chen, Yong Xu, A. Shen (2011)
Interferon gamma (IFN-γ) disrupts energy expenditure and metabolic homeostasis by suppressing SIRT1 transcriptionNucleic Acids Research, 40
Shannan Sui, J. Mortimer, David Arenillas, J. Brumm, C. Walsh, B. Kennedy, W. Wasserman (2005)
oPOSSUM: identification of over-represented transcription factor binding sites in co-expressed genesNucleic Acids Research, 33
B. Scicluna, C. Veer, M. Nieuwdorp, Karen Felsmann, B. Wlotzka, E. Stroes, T. Poll (2013)
Role of Tumor Necrosis Factor-α in the Human Systemic Endotoxin-Induced TranscriptomePLoS ONE, 8
Haim Shapiro, Aviv Lutaty, A. Ariel (2011)
Macrophages, Meta-Inflammation, and Immuno-MetabolismThe Scientific World Journal, 11
Ting-Ting Chen, Xuzhu Lin, Jiafa Xu, R. Tan, J. Ji, Pingping Shen (2009)
Redox imbalance provokes deactivation of macrophages in sepsisPROTEOMICS – Clinical Applications, 3
Audrey Kauffmann, R. Gentleman, W. Huber
Bioinformatics Applications Note Arrayqualitymetrics—a Bioconductor Package for Quality Assessment of Microarray Data
T. Imaizumi, Hiroshi Tanaka, A. Tajima, Y. Yokono, T. Matsumiya, H. Yoshida, K. Tsuruga, T. Aizawa‐Yashiro, Ryo Hayakari, I. Inoue, E. Ito, K. Satoh (2010)
IFN-γ and TNF-α Synergistically Induce microRNA-155 Which Regulates TAB2/IP-10 Expression in Human Mesangial CellsAmerican Journal of Nephrology, 32
Shih-Chin Cheng, J. Quintin, R. Cramer, K. Shepardson, Sadia Saeed, Vinod Kumar, E. Giamarellos‐Bourboulis, J. Martens, Nagesha Rao, A. Aghajanirefah, G. Manjeri, Yang Li, D. Ifrim, R. Arts, B. Veer, P. Deen, C. Logie, L. O’Neill, P. Willems, F. Veerdonk, J. Meer, Aylwin Ng, L. Joosten, C. Wijmenga, H. Stunnenberg, R. Xavier, M. Netea (2014)
mTOR- and HIF-1α–mediated aerobic glycolysis as metabolic basis for trained immunityScience, 345
Linnan Zhu, Qingjie Zhao, Tao Yang, Wenjun Ding, Yong Zhao (2015)
Cellular Metabolism and Macrophage Functional PolarizationInternational Reviews of Immunology, 34
P. Klouwenberg, M. Mourik, D. Ong, J. Horn, M. Schultz, O. Cremer, M. Bonten (2014)
Electronic implementation of a novel surveillance paradigm for ventilator-associated events. Feasibility and validation.American journal of respiratory and critical care medicine, 189 8
M. Singer (2008)
Cellular dysfunction in sepsis.Clinics in chest medicine, 29 4
X. Su, Yingpu Yu, Y. Zhong, Eugenia Giannopoulou, Xiaoyu Hu, Hui Liu, J. Cross, G. Rätsch, C. Rice, L. Ivashkiv (2015)
Interferon-γ regulates cellular metabolism and mRNA translation to potentiate macrophage activationNature immunology, 16
I. Shalova, J. Lim, Manesh Chittezhath, A. Zinkernagel, Federico Beasley, E. Hernández-Jiménez, V. Toledano, C. Cubillos-Zapata, A. Rapisarda, Jinmiao Chen, Kaibo Duan, Henry Yang, M. Poidinger, G. Melillo, V. Nizet, F. Arnalich, E. López-Collazo, S. Biswas (2015)
Human monocytes undergo functional re-programming during sepsis mediated by hypoxia-inducible factor-1α.Immunity, 42 3
L. Gautier, L. Cope, B. Bolstad, R. Irizarry (2004)
affy - analysis of Affymetrix GeneChip data at the probe levelBioinformatics, 20 3
A. Ferreira, F. Sisti, F. Sônego, Su-lan Wang, Luciano Filgueiras, Stephanie Brandt, A. Serezani, H. Du, F. Cunha, J. Alves-Filho, C. Serezani (2014)
PPAR-γ/IL-10 Axis Inhibits MyD88 Expression and Ameliorates Murine Polymicrobial SepsisThe Journal of Immunology, 192
A Kauffmann, R Gentleman, W Huber (2009)
arrayQualityMetrics--a bioconductor package for quality assessment of microarray dataBioinformatics, 25
Vidula Vachharajani, T. Liu, C. McCall (2014)
Epigenetic coordination of acute systemic inflammation: potential therapeutic targetsExpert Review of Clinical Immunology, 10
SE Calvano (2005)
Inflamm and Host Response to Injury Large Scale Collab. Res. Program. A network-based analysis of systemic inflammation in humansNature, 437
S. Smeekens, Aylwin Ng, Vinod Kumar, Melissa Johnson, T. Plantinga, C. Diemen, P. Arts, E. Verwiel, M. Gresnigt, K. Fransén, S. Sommeren, M. Oosting, Shih-Chin Cheng, L. Joosten, A. Hoischen, B. Kullberg, W. Scott, J. Perfect, J. Meer, C. Wijmenga, M. Netea, R. Xavier (2013)
Functional genomics identifies type I interferon pathway as central for host defense against Candida albicansNature communications, 4
E. Draper, D. Wagner, J. Zimmerman (1985)
APACHE II: A severity of disease classification systemCritical Care Medicine, 13
D. Vats, Lata Mukundan, J. Odegaard, Lina Zhang, Kristi Smith, Christine Morel, R. Wagner, D. Greaves, P. Murray, A. Chawla (2006)
Oxidative metabolism and PGC-1beta attenuate macrophage-mediated inflammation.Cell metabolism, 4 1
Matthew Morris, Elizabeth Gilliam, Liwu Li (2015)
Innate Immune Programing by Endotoxin and Its Pathological ConsequencesFrontiers in Immunology, 5
Hongyu Zhou, Yan Luo, Shile Huang (2010)
Updates of mTOR inhibitors.Anti-cancer agents in medicinal chemistry, 10 7
PM Klein Klouwenberg (2014)
MARS Consortium. Electronic implementation of a novel surveillance paradigm for ventilator-associated events. Feasibility and validationAm. J. Respir. Crit. Care Med., 189
Jane Carré, M. Singer (2008)
Cellular energetic metabolism in sepsis: the need for a systems approach.Biochimica et biophysica acta, 1777 7-8
BIOINFORMATICS APPLICATIONS NOTE doi:10.1093/bioinformatics/btm311 Genome analysis beadarray: R classes and methods for Illumina bead-based data
Konstantinos Drosatos, R. Khan, Chad Trent, Hongfeng Jiang, N. Son, William Blaner, S. Homma, P. Schulze, Ira Goldberg (2013)
Peroxisome Proliferator–Activated Receptor-&ggr; Activation Prevents Sepsis-Related Cardiac Dysfunction and Mortality In MiceCirculation: Heart Failure, 6
Laura Brudecki, D. Ferguson, C. McCall, M. Gazzar (2013)
MicroRNA-146a and RBM4 form a negative feed-forward loop that disrupts cytokine mRNA translation following TLR4 responses in human THP-1 monocytesImmunology and cell biology, 91
T. Billiar, D. Camp, G. Casella, M. Choudhry, Charles Cooper, Constance Elson, Bradley Freeman, R. Gamelli, Celeste Campbell-Finnerty, N. Gibran, D. Hayden, B. Harbrecht, David Herndon, J. Horton, W. Hubbard, J. Hunt, Jeffrey Johnson, M. Klein, J. Lederer, T. Logvinenko, R. Maier, J. Mannick, Philip Mason, B. McKinley, J. Minei, Ernest Moore, F. Moore, A. Nathens, G. O’Keefe, L. Rahme, D. Remick, D. Schoenfeld, M. Schwacha, M. Shapiro, G. Silver, Richard Smith, John Storey, M. Toner, H. Warren (2005)
A network-based analysis of systemic inflammation in humansNature, 437
Shih-Chin Cheng, L. Joosten, M. Netea (2014)
The interplay between central metabolism and innate immune responses.Cytokine & growth factor reviews, 25 6
T. Liu, Vidula Vachharajani, B. Yoza, C. McCall (2012)
NAD+-dependent Sirtuin 1 and 6 Proteins Coordinate a Switch from Glucose to Fatty Acid Oxidation during the Acute Inflammatory Response*The Journal of Biological Chemistry, 287
C. Vēzina, A. Kudelski, S. Sehgal (1975)
Rapamycin (AY-22,989), a new antifungal antibiotic. I. Taxonomy of the producing streptomycete and isolation of the active principle.The Journal of antibiotics, 28 10
Y. Qiao, Eugenia Giannopoulou, Chunhin Chan, Sung-ho Park, Shiaoching Gong, Janice Chen, Xiaoyu Hu, O. Elemento, L. Ivashkiv (2013)
Synergistic activation of inflammatory cytokine genes by interferon-γ-induced chromatin remodeling and toll-like receptor signaling.Immunity, 39 3
K. Inoki, H. Ouyang, Yong Li, K. Guan (2005)
Signaling by Target of Rapamycin Proteins in Cell Growth ControlMicrobiology and Molecular Biology Reviews, 69
Peter Klouwenberg, D. Ong, L. Bos, F. Beer, R. Hooijdonk, M. Huson, M. Straat, L. Vught, L. Wieske, J. Horn, M. Schultz, T. Poll, M. Bonten, O. Cremer (2013)
Interobserver Agreement of Centers for Disease Control and Prevention Criteria for Classifying Infections in Critically Ill Patients*Critical Care Medicine, 41
MJ Dunning, ML Smith, ME Ritchie, S Tavaré (2007)
Beadarray: R classes and methods for Illumina bead-based dataBioinformatics, 23
A. Meer, B. Scicluna, P. Moerland, Jiang Lin, E. Jacobson, G. Vlasuk, T. Poll (2015)
The Selective Sirtuin 1 Activator SRT2104 Reduces Endotoxin-Induced Cytokine Release and Coagulation Activation in Humans*Critical Care Medicine, 43
A. Pantel, Angela Teixeira, E. Haddad, E. Wood, R. Steinman, M. Longhi (2014)
Direct Type I IFN but Not MDA5/TLR3 Activation of Dendritic Cells Is Required for Maturation and Metabolic Shift to Glycolysis after Poly IC StimulationPLoS Biology, 12
M. Schmitt, D. Philippidou, S. Reinsbach, C. Margue, Anke Wienecke-Baldacchino, D. Nashan, I. Behrmann, S. Kreis (2012)
Interferon-γ-induced activation of Signal Transducer and Activator of Transcription 1 (STAT1) up-regulates the tumor suppressing microRNA-29 family in melanoma cellsCell Communication and Signaling, 10
Jane Carré, J. Orban, L. Re, Karen Felsmann, Wiebke Iffert, M. Bauer, H. Suliman, C. Piantadosi, T. Mayhew, P. Breen, M. Stotz, M. Singer (2010)
Survival in critical illness is associated with early activation of mitochondrial biogenesis.American journal of respiratory and critical care medicine, 182 6
S. Sui, Debra Fulton, David Arenillas, A. Kwon, W. Wasserman (2007)
oPOSSUM: integrated tools for analysis of regulatory motif over-representationNucleic Acids Research, 35
Miriam Lieshout, B. Scicluna, S. Florquin, T. Poll (2014)
NLRP3 and ASC differentially affect the lung transcriptome during pneumococcal pneumonia.American journal of respiratory cell and molecular biology, 50 4
(2014)
A Language and Environment for Statistical Computing (R Foundation for Statistical Computing, Vienna, Austria)
W. Döcke, F. Randow, U. Syrbe, D. Krausch, K. Asadullah, P. Reinke, H. Volk, W. Kox (1997)
Monocyte deactivation in septic patients: Restoration by IFN-γ treatmentNature Medicine, 3
Syed Raza, Laura Durm, G. Mahmoud, Haseeb Rahman, Laura Henríquez, Brittaine Davis, Fadi Nahab (2018)
Over-the-counter analgesic powder use in patients presenting with intracerebral hemorrhageMedicine, 97
I. Bélikova, A. Lukaszewicz, V. Faivre, C. Damoisel, M. Singer, D. Payen (2007)
Oxygen consumption of human peripheral blood mononuclear cells in severe human sepsis *Critical Care Medicine, 35
R. Gentleman, V. Carey, D. Bates, B. Bolstad, M. Dettling, S. Dudoit, B. Ellis, L. Gautier, Yongchao Ge, Jeff Gentry, K. Hornik, T. Hothorn, W. Huber, S. Iacus, R. Irizarry, F. Leisch, Cheng Li, M. Maechler, A. Rossini, G. Sawitzki, Colin Smith, Gordon Smyth, L. Tierney, J. Yang, Jianhua Zhang (2004)
Bioconductor: open software development for computational biology and bioinformaticsGenome Biology, 5
W. Johnson, Cheng Li, Ariel Rabinovic (2007)
Adjusting batch effects in microarray expression data using empirical Bayes methods.Biostatistics, 8 1
Sadia Saeed, J. Quintin, H. Kerstens, Nagesha Rao, A. Aghajanirefah, Filomena Matarese, Shih-Chin Cheng, Jacqueline Ratter, Kim Berentsen, Martijn Ent, N. Sharifi, E. Janssen-Megens, M. Huurne, A. Mandoli, Tom Schaik, Aylwin Ng, Frances Burden, K. Downes, M. Frontini, Vinod Kumar, E. Giamarellos‐Bourboulis, W. Ouwehand, J. Meer, L. Joosten, C. Wijmenga, J. Martens, R. Xavier, C. Logie, M. Netea, H. Stunnenberg (2014)
Epigenetic programming of monocyte-to-macrophage differentiation and trained innate immunityScience, 345
C. Delsing, M. Gresnigt, J. Leentjens, F. Preijers, F. Frager, M. Kox, G. Monneret, F. Venet, C. Bleeker‐Rovers, F. Veerdonk, P. Pickkers, A. Pachot, B. Kullberg, M. Netea (2014)
Interferon-gamma as adjunctive immunotherapy for invasive fungal infections: a case seriesBMC Infectious Diseases, 14
J. Leek, John Storey (2007)
Capturing Heterogeneity in Gene Expression Studies by “ Surrogate Variable Analysis ”
J. Leentjens, M. Kox, R. Koch, F. Preijers, L. Joosten, J. Hoeven, M. Netea, P. Pickkers (2012)
Reversal of immunoparalysis in humans in vivo: a double-blind, placebo-controlled, randomized pilot study.American journal of respiratory and critical care medicine, 186 9
B. Bolstad, R. Irizarry, M. Åstrand, T. Speed (2003)
A comparison of normalization methods for high density oligonucleotide array data based on variance and biasBioinformatics, 19 2
Yeon-Kyung Choi, K. Park (2013)
Metabolic roles of AMPK and metformin in cancer cellsMolecules and Cells, 36
A. Dare, A. Phillips, A. Hickey, A. Mittal, B. Loveday, N. Thompson, J. Windsor (2009)
A systematic review of experimental treatments for mitochondrial dysfunction in sepsis and multiple organ dysfunction syndrome.Free radical biology & medicine, 47 11
T. Weichhart, M. Hengstschläger, Monika Linke (2015)
Regulation of innate immune cell function by mTORNature Reviews Immunology, 15
M. Schmitt, D. Philippidou, S. Reinsbach, C. Margue, Anke Wienecke-Baldacchino, D. Nashan, I. Behrmann, S. Kreis (2012)
Interferon-γ-induced activation of Signal Transducer and Activator of Transcription 1 (STAT1) up-regulates the tumor suppressing microRNA-29 family in melanoma cellsCell Communication and Signaling : CCS, 10
G. Tannahill, A. Curtis, Juraj Adamik, E. Palsson-McDermott, Anne McGettrick, G. Goel, C. Frezza, N. Bernard, B. Kelly, N. Foley, Liang Zheng, A. Gardet, Z. Tong, S. Jany, S. Corr, M. Haneklaus, Brian Caffrey, K. Pierce, S. Walmsley, F. Beasley, E. Cummins, V. Nizet, M. Whyte, C. Taylor, Hening Lin, S. Masters, E. Gottlieb, V. Kelly, C. Clish, P. Auron, R. Xavier, R. Xavier, L. O’Neill (2013)
Succinate is an inflammatory signal that induces IL-1β through HIF-1αNature, 496
R. Bourgon, R. Gentleman, W. Huber (2010)
Independent filtering increases detection power for high-throughput experimentsProceedings of the National Academy of Sciences, 107
J. Turner, P. Potgieter, D. Linton (1991)
Severity of disease classification system.Critical care medicine, 19 2
Y. Benjamini, Y. Hochberg (1995)
Controlling the false discovery rate: a practical and powerful approach to multiple testingJournal of the royal statistical society series b-methodological, 57
D. Brealey, M. Brand, I. Hargreaves, S. Heales, J. Land, R. Smolenski, N. Davies, C. Cooper, M. Singer (2002)
Association between mitochondrial dysfunction and severity and outcome of septic shockThe Lancet, 360
Sepsis is poorly understood, largely untreatable and frequently fatal. Netea and colleagues assess both mouse sepsis and human sepsis to demonstrate that its late phase is characterized by immunoparalysis and broad metabolic alterations in cells of the immune system.
Nature Immunology – Springer Journals
Published: Mar 7, 2016
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