Literature DB >> 26657882

Antiviral innate immunity through the lens of systems biology.

Shashank Tripathi1, Adolfo Garcia-Sastre2.   

Abstract

Cellular innate immunity poses the first hurdle against invading viruses in their attempt to establish infection. This antiviral response is manifested with the detection of viral components by the host cell, followed by transduction of antiviral signals, transcription and translation of antiviral effectors and leads to the establishment of an antiviral state. These events occur in a rather branched and interconnected sequence than a linear path. Traditionally, these processes were studied in the context of a single virus and a host component. However, with the advent of rapid and affordable OMICS technologies it has become feasible to address such questions on a global scale. In the discipline of Systems Biology', extensive omics datasets are assimilated using computational tools and mathematical models to acquire deeper understanding of complex biological processes. In this review we have catalogued and discussed the application of Systems Biology approaches in dissecting the antiviral innate immune responses.
Copyright © 2015 Elsevier B.V. All rights reserved.

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Year:  2015        PMID: 26657882      PMCID: PMC4892997          DOI: 10.1016/j.virusres.2015.11.024

Source DB:  PubMed          Journal:  Virus Res        ISSN: 0168-1702            Impact factor:   3.303


  95 in total

Review 1.  The role of pattern-recognition receptors in innate immunity: update on Toll-like receptors.

Authors:  Taro Kawai; Shizuo Akira
Journal:  Nat Immunol       Date:  2010-04-20       Impact factor: 25.606

2.  Mapping a dynamic innate immunity protein interaction network regulating type I interferon production.

Authors:  Shitao Li; Lingyan Wang; Michael Berman; Young-Yun Kong; Martin E Dorf
Journal:  Immunity       Date:  2011-09-08       Impact factor: 31.745

3.  Macaque proteome response to highly pathogenic avian influenza and 1918 reassortant influenza virus infections.

Authors:  Joseph N Brown; Robert E Palermo; Carole R Baskin; Marina Gritsenko; Patrick J Sabourin; James P Long; Carol L Sabourin; Helle Bielefeldt-Ohmann; Adolfo García-Sastre; Randy Albrecht; Terrence M Tumpey; Jon M Jacobs; Richard D Smith; Michael G Katze
Journal:  J Virol       Date:  2010-09-15       Impact factor: 5.103

Review 4.  Regulation of type I interferon responses.

Authors:  Lionel B Ivashkiv; Laura T Donlin
Journal:  Nat Rev Immunol       Date:  2014-01       Impact factor: 53.106

5.  Construction of an open-access database that integrates cross-reference information from the transcriptome and proteome of immune cells.

Authors:  Atsushi Hijikata; Hiroshi Kitamura; Yayoi Kimura; Ryo Yokoyama; Yuichi Aiba; Yanyuan Bao; Shigeharu Fujita; Koji Hase; Shohei Hori; Yasuyuki Ishii; Osami Kanagawa; Hiroshi Kawamoto; Kazuya Kawano; Haruhiko Koseki; Masato Kubo; Ai Kurita-Miki; Tomohiro Kurosaki; Kyoko Masuda; Mitsumasa Nakata; Keisuke Oboki; Hiroshi Ohno; Mariko Okamoto; Yoshimichi Okayama; Jiyang O-Wang; Hirohisa Saito; Takashi Saito; Machie Sakuma; Katsuaki Sato; Kaori Sato; Ken-ichiro Seino; Ruka Setoguchi; Yuki Tamura; Masato Tanaka; Masaru Taniguchi; Ichiro Taniuchi; Annabelle Teng; Takeshi Watanabe; Hiroshi Watarai; Sho Yamasaki; Osamu Ohara
Journal:  Bioinformatics       Date:  2007-09-24       Impact factor: 6.937

6.  Systems biology of vaccination for seasonal influenza in humans.

Authors:  Helder I Nakaya; Jens Wrammert; Eva K Lee; Luigi Racioppi; Stephanie Marie-Kunze; W Nicholas Haining; Anthony R Means; Sudhir P Kasturi; Nooruddin Khan; Gui-Mei Li; Megan McCausland; Vibhu Kanchan; Kenneth E Kokko; Shuzhao Li; Rivka Elbein; Aneesh K Mehta; Alan Aderem; Kanta Subbarao; Rafi Ahmed; Bali Pulendran
Journal:  Nat Immunol       Date:  2011-07-10       Impact factor: 25.606

7.  Integrative deep sequencing of the mouse lung transcriptome reveals differential expression of diverse classes of small RNAs in response to respiratory virus infection.

Authors:  Xinxia Peng; Lisa Gralinski; Martin T Ferris; Matthew B Frieman; Matthew J Thomas; Sean Proll; Marcus J Korth; Jennifer R Tisoncik; Mark Heise; Shujun Luo; Gary P Schroth; Terrence M Tumpey; Chengjun Li; Yoshihiro Kawaoka; Ralph S Baric; Michael G Katze
Journal:  mBio       Date:  2011-11-15       Impact factor: 7.867

8.  Function of C/EBPdelta in a regulatory circuit that discriminates between transient and persistent TLR4-induced signals.

Authors:  Vladimir Litvak; Stephen A Ramsey; Alistair G Rust; Daniel E Zak; Kathleen A Kennedy; Aaron E Lampano; Matti Nykter; Ilya Shmulevich; Alan Aderem
Journal:  Nat Immunol       Date:  2009-03-08       Impact factor: 25.606

9.  NeAT: a toolbox for the analysis of biological networks, clusters, classes and pathways.

Authors:  Sylvain Brohée; Karoline Faust; Gipsi Lima-Mendez; Olivier Sand; Rekin's Janky; Gilles Vanderstocken; Yves Deville; Jacques van Helden
Journal:  Nucleic Acids Res       Date:  2008-06-04       Impact factor: 16.971

10.  Human intracellular ISG15 prevents interferon-α/β over-amplification and auto-inflammation.

Authors:  Xianqin Zhang; Dusan Bogunovic; Béatrice Payelle-Brogard; Véronique Francois-Newton; Scott D Speer; Chao Yuan; Stefano Volpi; Zhi Li; Ozden Sanal; Davood Mansouri; Ilhan Tezcan; Gillian I Rice; Chunyuan Chen; Nahal Mansouri; Seyed Alireza Mahdaviani; Yuval Itan; Bertrand Boisson; Satoshi Okada; Lu Zeng; Xing Wang; Hui Jiang; Wenqiang Liu; Tiantian Han; Delin Liu; Tao Ma; Bo Wang; Mugen Liu; Jing-Yu Liu; Qing K Wang; Dilek Yalnizoglu; Lilliana Radoshevich; Gilles Uzé; Philippe Gros; Flore Rozenberg; Shen-Ying Zhang; Emmanuelle Jouanguy; Jacinta Bustamante; Adolfo García-Sastre; Laurent Abel; Pierre Lebon; Luigi D Notarangelo; Yanick J Crow; Stéphanie Boisson-Dupuis; Jean-Laurent Casanova; Sandra Pellegrini
Journal:  Nature       Date:  2014-10-12       Impact factor: 49.962

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  6 in total

Review 1.  Influenza-Omics and the Host Response: Recent Advances and Future Prospects.

Authors:  Joshua D Powell; Katrina M Waters
Journal:  Pathogens       Date:  2017-06-10

Review 2.  Moving from Empirical to Rational Vaccine Design in the 'Omics' Era.

Authors:  Mansi Sharma; Florian Krammer; Adolfo García-Sastre; Shashank Tripathi
Journal:  Vaccines (Basel)       Date:  2019-08-14

Review 3.  Facilitating Antiviral Drug Discovery Using Genetic and Evolutionary Knowledge.

Authors:  Xuan Xu; Qing-Ye Zhang; Xin-Yi Chu; Yuan Quan; Bo-Min Lv; Hong-Yu Zhang
Journal:  Viruses       Date:  2021-10-20       Impact factor: 5.048

4.  Anti-Influenza Effect of Nanosilver in a Mouse Model.

Authors:  Irina V Kiseleva; Mohammad Al Farroukh; Ekaterina A Skomorokhova; Andrei R Rekstin; Ekaterina A Bazhenova; Daria N Magazenkova; Iurii A Orlov; Larisa G Rudenko; Massimo Broggini; Ludmila V Puchkova
Journal:  Vaccines (Basel)       Date:  2020-11-13

Review 5.  Emerging Roles of Vitamin D-Induced Antimicrobial Peptides in Antiviral Innate Immunity.

Authors:  John H White
Journal:  Nutrients       Date:  2022-01-11       Impact factor: 5.717

Review 6.  Vitamin D, infections and immunity.

Authors:  Aiten Ismailova; John H White
Journal:  Rev Endocr Metab Disord       Date:  2021-07-29       Impact factor: 6.514

  6 in total

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