Redefining the transcriptional regulatory dynamics of classically and alternatively activated macrophages by deepCAGE transcriptomics

Sugata Roy, Reto Guler, Suraj P. Parihar, Sebastian Schmeier, Bogumil Kaczkowski, Hajime Nishimura, Jay W. Shin, Yutaka Negishi, Mumin Ozturk, Ramona Hurdayal, Atsutaka Kubosaki, Yasumasa Kimura, Michiel J. L. de Hoon, Yoshihide Hayashizaki, Frank Brombacher, Harukazu Suzuki, Batf2/Irf1 Induces Inflammatory Responses in Classically Activated Macrophages, Lipopolysaccharides, and Mycobacterial Infection Journal of Immunology. ,vol. 194, pp. 6035- 6044 ,(2015) , 10.4049/JIMMUNOL.1402521

Fernando O. Martinez, Siamon Gordon, Massimo Locati, Alberto Mantovani, Transcriptional Profiling of the Human Monocyte-to-Macrophage Differentiation and Polarization: New Molecules and Patterns of Gene Expression Journal of Immunology. ,vol. 177, pp. 7303- 7311 ,(2006) , 10.4049/JIMMUNOL.177.10.7303

Reto Guler, Suraj P. Parihar, Suzana Savvi, Erin Logan, Anita Schwegmann, Sugata Roy, Natalie E. Nieuwenhuizen, Mumin Ozturk, Sebastian Schmeier, Harukazu Suzuki, Frank Brombacher, IL-4Rα-Dependent Alternative Activation of Macrophages Is Not Decisive for Mycobacterium tuberculosis Pathology and Bacterial Burden in Mice PLOS ONE. ,vol. 10, pp. e0121070- ,(2015) , 10.1371/JOURNAL.PONE.0121070

Roxane Tussiwand, Wan-Ling Lee, Theresa L. Murphy, Mona Mashayekhi, Wumesh KC, Jörn C. Albring, Ansuman T. Satpathy, Jeffrey A. Rotondo, Brian T. Edelson, Nicole M. Kretzer, Xiaodi Wu, Leslie A. Weiss, Elke Glasmacher, Peng Li, Wei Liao, Michael Behnke, Samuel S. K. Lam, Cora T. Aurthur, Warren J. Leonard, Harinder Singh, Christina L. Stallings, L. David Sibley, Robert D. Schreiber, Kenneth M. Murphy, Compensatory dendritic cell development mediated by BATF–IRF interactions Nature. ,vol. 490, pp. 502- 507 ,(2012) , 10.1038/NATURE11531

G. J. Nau, J. F. L. Richmond, A. Schlesinger, E. G. Jennings, E. S. Lander, R. A. Young, Human macrophage activation programs induced by bacterial pathogens Proceedings of the National Academy of Sciences of the United States of America. ,vol. 99, pp. 1503- 1508 ,(2002) , 10.1073/PNAS.022649799

Tracy S P Heng, , Michio W Painter, Kutlu Elpek, Veronika Lukacs-Kornek, Nora Mauermann, Shannon J Turley, Daphne Koller, Francis S Kim, Amy J Wagers, Natasha Asinovski, Scott Davis, Marlys Fassett, Markus Feuerer, Daniel H D Gray, Sokol Haxhinasto, Jonathan A Hill, Gordon Hyatt, Catherine Laplace, Kristen Leatherbee, Diane Mathis, Christophe Benoist, Radu Jianu, David H Laidlaw, J Adam Best, Jamie Knell, Ananda W Goldrath, Jessica Jarjoura, Joseph C Sun, Yanan Zhu, Lewis L Lanier, Ayla Ergun, Zheng Li, James J Collins, Susan A Shinton, Richard R Hardy, Randall Friedline, Katelyn Sylvia, Joonsoo Kang, The Immunological Genome Project: networks of gene expression in immune cells Nature Immunology. ,vol. 9, pp. 1091- 1094 ,(2008) , 10.1038/NI1008-1091

Gregory A. Poland, Helen Quill, Alkis Togias, Understanding the human immune system in the 21st century: the Human Immunology Project Consortium. Vaccine. ,vol. 31, pp. 2911- 2912 ,(2013) , 10.1016/J.VACCINE.2013.04.043

Fantom Consortium, None, A promoter-level mammalian expression atlas Nature. ,vol. 507, pp. 462- 470 ,(2014) , 10.1038/NATURE13182

De'Broski R Herbert, Christoph Hölscher, Markus Mohrs, Berenice Arendse, Anita Schwegmann, Magda Radwanska, Mosiuoa Leeto, Richard Kirsch, Pauline Hall, Horst Mossmann, Björn Claussen, Irmgard Förster, Frank Brombacher, Alternative macrophage activation is essential for survival during schistosomiasis and downmodulates T helper 1 responses and immunopathology. Immunity. ,vol. 20, pp. 623- 635 ,(2004) , 10.1016/S1074-7613(04)00107-4

Jessica E.S. Shay, M. Celeste Simon, Hypoxia-inducible factors: Crosstalk between inflammation and metabolism Seminars in Cell & Developmental Biology. ,vol. 23, pp. 389- 394 ,(2012) , 10.1016/J.SEMCDB.2012.04.004