Literature DB >> 28632713

Systems immunology: just getting started.

Mark M Davis1,2, Cristina M Tato2, David Furman2,3.   

Abstract

Systems-biology approaches in immunology take various forms, but here we review strategies for measuring a broad swath of immunological functions as a means of discovering previously unknown relationships and phenomena and as a powerful way of understanding the immune system as a whole. This approach has rejuvenated the field of vaccine development and has fostered hope that new ways will be found to combat infectious diseases that have proven refractory to classical approaches. Systems immunology also presents an important new strategy for understanding human immunity directly, taking advantage of the many ways the immune system of humans can be manipulated.

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Year:  2017        PMID: 28632713      PMCID: PMC5790187          DOI: 10.1038/ni.3768

Source DB:  PubMed          Journal:  Nat Immunol        ISSN: 1529-2908            Impact factor:   25.606


  80 in total

1.  Systems biology and new technologies enable predictive and preventative medicine.

Authors:  Leroy Hood; James R Heath; Michael E Phelps; Biaoyang Lin
Journal:  Science       Date:  2004-10-22       Impact factor: 47.728

2.  Systems analysis of sex differences reveals an immunosuppressive role for testosterone in the response to influenza vaccination.

Authors:  David Furman; Boris P Hejblum; Noah Simon; Vladimir Jojic; Cornelia L Dekker; Rodolphe Thiébaut; Robert J Tibshirani; Mark M Davis
Journal:  Proc Natl Acad Sci U S A       Date:  2013-12-23       Impact factor: 11.205

3.  Cytometry by time-of-flight shows combinatorial cytokine expression and virus-specific cell niches within a continuum of CD8+ T cell phenotypes.

Authors:  Evan W Newell; Natalia Sigal; Sean C Bendall; Garry P Nolan; Mark M Davis
Journal:  Immunity       Date:  2012-01-27       Impact factor: 31.745

4.  Dendritic cell-based therapeutic vaccine elicits polyfunctional HIV-specific T-cell immunity associated with control of viral load.

Authors:  Yves Lévy; Rodolphe Thiébaut; Monica Montes; Christine Lacabaratz; Louis Sloan; Bryan King; Sophie Pérusat; Carson Harrod; Amanda Cobb; Lee K Roberts; Mathieu Surenaud; Céline Boucherie; Sandra Zurawski; Constance Delaugerre; Laura Richert; Geneviève Chêne; Jacques Banchereau; Karolina Palucka
Journal:  Eur J Immunol       Date:  2014-09       Impact factor: 5.532

5.  Multicenter Systems Analysis of Human Blood Reveals Immature Neutrophils in Males and During Pregnancy.

Authors:  Jana Blazkova; Sarthak Gupta; Yudong Liu; Brice Gaudilliere; Edward A Ganio; Christopher R Bolen; Ron Saar-Dover; Gabriela K Fragiadakis; Martin S Angst; Sarfaraz Hasni; Nima Aghaeepour; David Stevenson; Nicole Baldwin; Esperanza Anguiano; Damien Chaussabel; Matthew C Altman; Mariana J Kaplan; Mark M Davis; David Furman
Journal:  J Immunol       Date:  2017-02-08       Impact factor: 5.422

6.  Patient-specific Immune States before Surgery Are Strong Correlates of Surgical Recovery.

Authors:  Gabriela K Fragiadakis; Brice Gaudillière; Edward A Ganio; Nima Aghaeepour; Martha Tingle; Garry P Nolan; Martin S Angst
Journal:  Anesthesiology       Date:  2015-12       Impact factor: 7.892

7.  A modular analysis framework for blood genomics studies: application to systemic lupus erythematosus.

Authors:  Damien Chaussabel; Charles Quinn; Jing Shen; Pinakeen Patel; Casey Glaser; Nicole Baldwin; Dorothee Stichweh; Derek Blankenship; Lei Li; Indira Munagala; Lynda Bennett; Florence Allantaz; Asuncion Mejias; Monica Ardura; Ellen Kaizer; Laurence Monnet; Windy Allman; Henry Randall; Diane Johnson; Aimee Lanier; Marilynn Punaro; Knut M Wittkowski; Perrin White; Joseph Fay; Goran Klintmalm; Octavio Ramilo; A Karolina Palucka; Jacques Banchereau; Virginia Pascual
Journal:  Immunity       Date:  2008-07-18       Impact factor: 31.745

8.  Feature selection using a one dimensional naïve Bayes' classifier increases the accuracy of support vector machine classification of CDR3 repertoires.

Authors:  Mattia Cinelli; Yuxin Sun; Katharine Best; James M Heather; Shlomit Reich-Zeliger; Eric Shifrut; Nir Friedman; John Shawe-Taylor; Benny Chain
Journal:  Bioinformatics       Date:  2017-04-01       Impact factor: 6.937

9.  Pooled CRISPR screening with single-cell transcriptome readout.

Authors:  André F Rendeiro; Christian Schmidl; Paul Datlinger; Thomas Krausgruber; Peter Traxler; Johanna Klughammer; Linda C Schuster; Amelie Kuchler; Donat Alpar; Christoph Bock
Journal:  Nat Methods       Date:  2017-01-18       Impact factor: 28.547

10.  A blood RNA signature for tuberculosis disease risk: a prospective cohort study.

Authors:  Daniel E Zak; Adam Penn-Nicholson; Thomas J Scriba; Ethan Thompson; Sara Suliman; Lynn M Amon; Hassan Mahomed; Mzwandile Erasmus; Wendy Whatney; Gregory D Hussey; Deborah Abrahams; Fazlin Kafaar; Tony Hawkridge; Suzanne Verver; E Jane Hughes; Martin Ota; Jayne Sutherland; Rawleigh Howe; Hazel M Dockrell; W Henry Boom; Bonnie Thiel; Tom H M Ottenhoff; Harriet Mayanja-Kizza; Amelia C Crampin; Katrina Downing; Mark Hatherill; Joe Valvo; Smitha Shankar; Shreemanta K Parida; Stefan H E Kaufmann; Gerhard Walzl; Alan Aderem; Willem A Hanekom
Journal:  Lancet       Date:  2016-03-24       Impact factor: 79.321

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  70 in total

1.  Computational and Systems Immunology: A Student's Perspective.

Authors:  Zinaida Good; Jacob Glanville; Marvin H Gee; Mark M Davis; Purvesh Khatri
Journal:  Trends Immunol       Date:  2019-07-06       Impact factor: 16.687

Review 2.  Contagious Bovine and Caprine Pleuropneumonia: a research community's recommendations for the development of better vaccines.

Authors:  Joerg Jores; Cynthia Baldwin; Alain Blanchard; Glenn F Browning; Angie Colston; Volker Gerdts; Danny Goovaerts; Martin Heller; Nick Juleff; Fabien Labroussaa; Anne Liljander; Geoffrey Muuka; Vish Nene; Ran Nir-Paz; Flavio Sacchini; Artur Summerfield; François Thiaucourt; Hermann Unger; Sanjay Vashee; Xiumei Wang; Jeremy Salt
Journal:  NPJ Vaccines       Date:  2020-07-24       Impact factor: 7.344

3.  Ultrasound imaging of gene expression in mammalian cells.

Authors:  Arash Farhadi; Gabrielle H Ho; Daniel P Sawyer; Raymond W Bourdeau; Mikhail G Shapiro
Journal:  Science       Date:  2019-09-27       Impact factor: 47.728

Review 4.  Cytokine-mediated communication: a quantitative appraisal of immune complexity.

Authors:  Grégoire Altan-Bonnet; Ratnadeep Mukherjee
Journal:  Nat Rev Immunol       Date:  2019-04       Impact factor: 53.106

5.  Integration of mechanistic immunological knowledge into a machine learning pipeline improves predictions.

Authors:  Anthony Culos; Amy S Tsai; Natalie Stanley; Martin Becker; Mohammad S Ghaemi; David R McIlwain; Ramin Fallahzadeh; Athena Tanada; Huda Nassar; Camilo Espinosa; Maria Xenochristou; Edward Ganio; Laura Peterson; Xiaoyuan Han; Ina A Stelzer; Kazuo Ando; Dyani Gaudilliere; Thanaphong Phongpreecha; Ivana Marić; Alan L Chang; Gary M Shaw; David K Stevenson; Sean Bendall; Kara L Davis; Wendy Fantl; Garry P Nolan; Trevor Hastie; Robert Tibshirani; Martin S Angst; Brice Gaudilliere; Nima Aghaeepour
Journal:  Nat Mach Intell       Date:  2020-10-12

Review 6.  Dissecting the Tumor-Immune Landscape in Chimeric Antigen Receptor T-cell Therapy: Key Challenges and Opportunities for a Systems Immunology Approach.

Authors:  Gregory M Chen; Andrew Azzam; Yang-Yang Ding; David M Barrett; Stephan A Grupp; Kai Tan
Journal:  Clin Cancer Res       Date:  2020-03-03       Impact factor: 12.531

7.  Neutrophils in innate immunity and systems biology-level approaches.

Authors:  Viktoria Rungelrath; Scott D Kobayashi; Frank R DeLeo
Journal:  Wiley Interdiscip Rev Syst Biol Med       Date:  2019-06-20

Review 8.  The role of systems biology approaches in determining molecular signatures for the development of more effective vaccines.

Authors:  Abdulmohammad Pezeshki; Inna G Ovsyannikova; Brett A McKinney; Gregory A Poland; Richard B Kennedy
Journal:  Expert Rev Vaccines       Date:  2019-02-11       Impact factor: 5.217

Review 9.  The science and medicine of human immunology.

Authors:  Bali Pulendran; Mark M Davis
Journal:  Science       Date:  2020-09-25       Impact factor: 47.728

Review 10.  Cancer systems immunology.

Authors:  Nathan E Reticker-Flynn; Edgar G Engleman
Journal:  Elife       Date:  2020-07-13       Impact factor: 8.140

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