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Alexander Hoffmann

Affiliations: 
Chemistry and Biochemistry University of California, San Diego, La Jolla, CA 
Area:
signaling, transcription, computational network; stress and immune responses, apoptosis, proliferation
Website:
http://www-chem.ucsd.edu/faculty/profiles/hoffmann_alexander.html
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Children

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Christine S. Huang research assistant 2004-2006 UCSD
Derren Barken grad student 2007 UCSD
Jeffrey D. Kearns grad student 2009 UCSD
Shannon L. Werner grad student 2009 UCSD
Thomas Conrad grad student 2010 UCSD (Computational Biology Tree)
Ellen L. Odea grad student 2010 UCSD
Christine S. Cheng grad student 2011 UCSD
Feng-Sheng Shih grad student 2011 UCSD
Andrew B. Caldwell grad student 2014 UCSD
Karen T. Fortmann grad student 2014 UCSD
Maxim N. Shokhirev grad student 2014 UCSD
Rachel W. Tsui grad student 2014 UCSD
Brooks E. Taylor grad student 2015 UCSD
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Publications

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Ngo KA, Kishimoto K, Davis-Turak J, et al. (2020) Dissecting the Regulatory Strategies of NF-κB RelA Target Genes in the Inflammatory Response Reveals Differential Transactivation Logics. Cell Reports. 30: 2758-2775.e6
Mitchell S, Mercado EL, Adelaja A, et al. (2019) An NFκB Activity Calculator to Delineate Signaling Crosstalk: Type I and II Interferons Enhance NFκB via Distinct Mechanisms. Frontiers in Immunology. 10: 1425
Cheng Q, Behzadi F, Sen S, et al. (2019) Sequential conditioning-stimulation reveals distinct gene- and stimulus-specific effects of Type I and II IFN on human macrophage functions. Scientific Reports. 9: 5288
Davis-Turak J, Johnson TL, Hoffmann A. (2019) Mathematical modeling identifies potential gene structure determinants of co-transcriptional control of alternative pre-mRNA splicing. Nucleic Acids Research
Davis-Turak J, Johnson TL, Hoffmann A. (2018) Mathematical modeling identifies potential gene structure determinants of co-transcriptional control of alternative pre-mRNA splicing. Nucleic Acids Research
Roy K, Shokhirev MN, Mitchell S, et al. (2018) Deriving Quantitative Cell Biological Information from Dye-Dilution Lymphocyte Proliferation Experiments. Methods in Molecular Biology (Clifton, N.J.). 1707: 81-94
Mognol GP, Spreafico R, Wong V, et al. (2017) Exhaustion-associated regulatory regions in CD8(+) tumor-infiltrating T cells. Proceedings of the National Academy of Sciences of the United States of America
Cheng CS, Behar MS, Suryawanshi GW, et al. (2017) Iterative Modeling Reveals Evidence of Sequential Transcriptional Control Mechanisms. Cell Systems
Dembinski HE, Wismer K, Vargas JD, et al. (2017) Functional importance of stripping in NFκB signaling revealed by a stripping-impaired IκBα mutant. Proceedings of the National Academy of Sciences of the United States of America
Inoue K, Shinohara H, Behar M, et al. (2016) Oscillation dynamics underlie functional switching of NF-κB for B-cell activation. Npj Systems Biology and Applications. 2: 16024
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