Alexander Hoffmann

Title(s)Professor, MIMG
SchoolMedicine
vCardDownload vCard

    Collapse Biography 
    Collapse Education and Training
    Cambridge University, Cambridge, EnglandBA06/1988Physics
    Rockefeller University, New York, NYPhD06/1994Biochemistry
    Massachusetts Institute of Technology, Cambridge, MApostdoc01/1998HIV, control of latency
    California Institute of Technology, Pasadena, CApostdoc05/2003NFkB, Systems Immunology

    Collapse Overview 
    Collapse Overview
    The Hoffmann laboratory focuses on the signaling systems that control innate and adaptive immunity. A central theme is that signaling network dynamics determine biological specificity. We have contributed to an understanding of how NFκB and IRF signaling dynamics are regulated, how these are altered during cell differentiation and in human disease contexts, and how rational drug targeting strategies may be applied to correct misregulation. A wide range of experimental work in animals and cell culture, at single-molecule to genome-wide scales, is coordinated with computational modeling. The laboratory currently has three biological foci: 1) macrophages: how their functions are regulated in a stimulus-specific and context-dependent manner, and how prior history of exposure may be harnessed for innate immune training; 2) B-cells: how the intra-cellular molecular regulatory networks control fate decisions of cell death and cell division, and how inter-cellular networks in the germinal center generate the antibody repertoire in response to vaccination; 3) hematopoiesis: how signaling pathways inside and between cells regulate population dynamics via cell fate decisions of cell division, cell death, and differentiation.

    Collapse Research 
    Collapse Research Activities and Funding
    Bruins in Genomics: Dental, Oral & Craniofacial Research Training Program (BIG DOC)
    NIH R25DE030117Jan 15, 2021 - Dec 31, 2025
    Role: Co-Principal Investigator
    The NFkB System in Dendritic Cells
    NIH R01AI127867Apr 3, 2018 - Mar 31, 2023
    Role: Principal Investigator
    Cell decision underlying B-cell immune responses
    NIH R01AI132731Feb 1, 2018 - Jan 31, 2023
    Role: Principal Investigator
    Coordinated dynamic regulation and function of IRF transcription factors
    NIH R01AI132835Jun 20, 2017 - May 31, 2022
    Role: Principal Investigator
    Roles of RelB in tuning inflammatory and innate immune responses
    NIH R21AI128646Dec 19, 2016 - Nov 30, 2019
    Role: Principal Investigator
    NFkB Signaling in Macrophages
    NIH R01AI127864Nov 17, 2016 - Oct 31, 2021
    Role: Principal Investigator
    Understanding dynamical coding by NFkB
    NIH R01GM117134Feb 15, 2016 - Jan 31, 2021
    Role: Principal Investigator
    NGS Data Analysis Skills for the Biosciences Pipeline
    NIH R25EB022364Sep 30, 2015 - Jun 30, 2019
    Role: Principal Investigator
    Ribonomics of Gene Regulation to predict Innate Immune Responses
    NIH U01HG007912Jan 5, 2015 - Nov 30, 2018
    Role: Principal Investigator
    Epigenomic control of RNA splicing
    NIH R01ES024995Sep 5, 2014 - Aug 31, 2017
    Role: Co-Principal Investigator
    San Diego Center for Systems Biology: From Maps to Models
    NIH P50GM085764Sep 18, 2010 - May 31, 2019
    Role: Co-Principal Investigator
    Delays and variability in single-cell NFkB signaling
    NIH R01GM089976May 1, 2010 - Apr 30, 2015
    Role: Co-Principal Investigator
    The NF-kB signaling system as a regulator of B-cell activation
    NIH R01AI083453Dec 15, 2009 - Nov 30, 2014
    Role: Principal Investigator
    IKK:Biophysical basis of dynamic regulation
    NIH R01CA141722Jul 1, 2009 - May 31, 2015
    Role: Co-Principal Investigator
    NFkB during TLR signaling in macrophages
    NIH R01GM071573Jul 1, 2004 - Apr 30, 2014
    Role: Principal Investigator
    Graduate Training Program in Bioinformatics
    NIH T32GM008806Jul 1, 2001 - Jun 30, 2021
    Role: Co-Principal Investigator

    Collapse Bibliographic 
    Collapse Publications
    Publications listed below are automatically derived from MEDLINE/PubMed and other sources, which might result in incorrect or missing publications. Researchers can login to make corrections and additions, or contact us for help. to make corrections and additions.
    Newest   |   Oldest   |   Most Cited   |   Most Discussed   |   Timeline   |   Field Summary   |   Plain Text
    Altmetrics Details PMC Citations indicate the number of times the publication was cited by articles in PubMed Central, and the Altmetric score represents citations in news articles and social media. (Note that publications are often cited in additional ways that are not shown here.) Fields are based on how the National Library of Medicine (NLM) classifies the publication's journal and might not represent the specific topic of the publication. Translation tags are based on the publication type and the MeSH terms NLM assigns to the publication. Some publications (especially newer ones and publications not in PubMed) might not yet be assigned Field or Translation tags.) Click a Field or Translation tag to filter the publications.
    1. Quantifying information of intracellular signaling: progress with machine learning. Rep Prog Phys. 2022 07 12; 85(8). Tang Y, Hoffmann A. PMID: 35724636; PMCID: PMC9507437.
      View in: PubMed   Mentions:    Fields:    Translation:Cells
    2. Stochastic models of nucleosome dynamics reveal regulatory rules of stimulus-induced epigenome remodeling. Cell Rep. 2022 07 12; 40(2):111076. Kim J, Sheu KM, Cheng QJ, Hoffmann A, Enciso G. PMID: 35830792.
      View in: PubMed   Mentions:    Fields:    Translation:Cells
    3. Bruins-in-Genomics: Evaluation of the impact of a UCLA undergraduate summer program in computational biology on participating students. PLoS One. 2022; 17(5):e0268861. Coller HA, Beggs S, Andrews S, Maloy J, Chiu A, Sankararaman S, Pellegrini M, Freimer N, Johnson T, Papp J, Eskin E, Hoffmann A. PMID: 35622842; PMCID: PMC9140266.
      View in: PubMed   Mentions:    Fields:    Translation:Humans
    4. From Antibody Repertoires to Cell-Cell Interactions to Molecular Networks: Bridging Scales in the Germinal Center. Front Immunol. 2022; 13:898078. Vaidehi Narayanan H, Hoffmann A. PMID: 35603162; PMCID: PMC9114758.
      View in: PubMed   Mentions:    Fields:    Translation:HumansCells
    5. Functional Hallmarks of Healthy Macrophage Responses: Their Regulatory Basis and Disease Relevance. Annu Rev Immunol. 2022 04 26; 40:295-321. Sheu KM, Hoffmann A. PMID: 35471841.
      View in: PubMed   Mentions:    Fields:    Translation:HumansAnimalsCells
    6. Controlling Cancer Cell Death Types to Optimize Anti-Tumor Immunity. Biomedicines. 2022 Apr 22; 10(5). Oliver Metzig M, Hoffmann A. PMID: 35625711; PMCID: PMC9138898.
      View in: PubMed   Mentions:
    7. "How Do We Do This at a Distance?!" A Descriptive Study of Remote Undergraduate Research Programs during COVID-19. CBE Life Sci Educ. 2022 03; 21(1):ar1. Erickson OA, Cole RB, Isaacs JM, Alvarez-Clare S, Arnold J, Augustus-Wallace A, Ayoob JC, Berkowitz A, Branchaw J, Burgio KR, Cannon CH, Ceballos RM, Cohen CS, Coller H, Disney J, Doze VA, Eggers MJ, Farina S, Ferguson EL, Gray JJ, Greenberg JT, Hoffmann A, Jensen-Ryan D, Kao RM, Keene AC, Kowalko JE, Lopez SA, Mathis C, Minkara M, Murren CJ, Ondrechen MJ, Ordoñez P, Osano A, Padilla-Crespo E, Palchoudhury S, Qin H, Ramírez-Lugo J, Reithel J, Shaw CA, Smith A, Smith R, Summers AP, Tsien F, Dolan EL. PMID: 34978923; PMCID: PMC9250374.
      View in: PubMed   Mentions: 1     Fields:    Translation:HumansCellsPHPublic Health
    8. Pathogenic TNF-α drives peripheral nerve inflammation in an Aire-deficient model of autoimmunity. Proc Natl Acad Sci U S A. 2022 01 25; 119(4). Wang Y, Guo L, Yin X, McCarthy EC, Cheng MI, Hoang AT, Chen HC, Patel AY, Allard Trout D, Xu E, Yakobian N, Hugo W, Howard JF, Sheu KM, Hoffmann A, Lechner MG, Su MA. PMID: 35058362; PMCID: PMC8795502.
      View in: PubMed   Mentions:    Fields:    Translation:AnimalsCells
    9. IκBα is required for full transcriptional induction of some NFκB-regulated genes in response to TNF in MCF-7 cells. NPJ Syst Biol Appl. 2021 12 01; 7(1):42. Ando M, Magi S, Seki M, Suzuki Y, Kasukawa T, Lefaudeux D, Hoffmann A, Okada M. PMID: 34853340; PMCID: PMC8636565.
      View in: PubMed   Mentions:    Fields:    Translation:HumansCells
    10. Acute and Chronic Changes in Gene Expression After CMV DNAemia in Kidney Transplant Recipients. Front Immunol. 2021; 12:750659. Ahn R, Schaenman J, Qian Z, Pickering H, Groysberg V, Rossetti M, Llamas M, Hoffmann A, Gjertson D, Deng M, Bunnapradist S, Reed EF, CMV Systems Immunobiology Group. PMID: 34867983; PMCID: PMC8634678.
      View in: PubMed   Mentions:    Fields:    Translation:HumansCells
    11. NK and CD8+ T cell phenotypes predict onset and control of CMV viremia after kidney transplant. JCI Insight. 2021 11 08; 6(21). Pickering H, Sen S, Arakawa-Hoyt J, Ishiyama K, Sun Y, Parmar R, Ahn RS, Sunga G, Llamas M, Hoffmann A, Deng M, Bunnapradist S, Schaenman JM, Gjertson DW, Rossetti M, Lanier LL, Reed EF, CMV Systems Immunobiology Group. PMID: 34609965; PMCID: PMC8663544.
      View in: PubMed   Mentions:    Fields:    Translation:HumansCells
    12. Stimulus-specific responses in innate immunity: Multilayered regulatory circuits. Immunity. 2021 09 14; 54(9):1915-1932. Luecke S, Sheu KM, Hoffmann A. PMID: 34525335; PMCID: PMC8452151.
      View in: PubMed   Mentions: 6     Fields:    Translation:HumansAnimalsCells
    13. Identifying the combinatorial control of signal-dependent transcription factors. PLoS Comput Biol. 2021 06; 17(6):e1009095. Wang N, Lefaudeux D, Mazumder A, Li JJ, Hoffmann A. PMID: 34166361; PMCID: PMC8263068.
      View in: PubMed   Mentions: 5     Fields:    Translation:AnimalsCells
    14. NF-κB dynamics determine the stimulus specificity of epigenomic reprogramming in macrophages. Science. 2021 06 18; 372(6548):1349-1353. Cheng QJ, Ohta S, Sheu KM, Spreafico R, Adelaja A, Taylor B, Hoffmann A. PMID: 34140389; PMCID: PMC8489855.
      View in: PubMed   Mentions: 10     Fields:    Translation:AnimalsCells
    15. Melanoma dedifferentiation induced by IFN-γ epigenetic remodeling in response to anti-PD-1 therapy. J Clin Invest. 2021 06 15; 131(12). Kim YJ, Sheu KM, Tsoi J, Abril-Rodriguez G, Medina E, Grasso CS, Torrejon DY, Champhekar AS, Litchfield K, Swanton C, Speiser DE, Scumpia PO, Hoffmann A, Graeber TG, Puig-Saus C, Ribas A. PMID: 33914706; PMCID: PMC8203459.
      View in: PubMed   Mentions: 6     Fields:    Translation:HumansCells
    16. Six distinct NFκB signaling codons convey discrete information to distinguish stimuli and enable appropriate macrophage responses. Immunity. 2021 05 11; 54(5):916-930.e7. Adelaja A, Taylor B, Sheu KM, Liu Y, Luecke S, Hoffmann A. PMID: 33979588; PMCID: PMC8184127.
      View in: PubMed   Mentions: 6     Fields:    Translation:AnimalsCells
    17. High Dose IFN-β Activates GAF to Enhance Expression of ISGF3 Target Genes in MLE12 Epithelial Cells. Front Immunol. 2021; 12:651254. Kishimoto K, Wilder CL, Buchanan J, Nguyen M, Okeke C, Hoffmann A, Cheng QJ. PMID: 33897699; PMCID: PMC8062733.
      View in: PubMed   Mentions:    Fields:    Translation:AnimalsCells
    18. Human DNA methylation signatures differentiate persistent from resolving MRSA bacteremia. Proc Natl Acad Sci U S A. 2021 03 09; 118(10). Chang YL, Rossetti M, Gjertson DW, Rubbi L, Thompson M, Montoya DJ, Morselli M, Ruffin F, Hoffmann A, Pellegrini M, Fowler VG, Yeaman MR, Reed EF, with the MRSA Systems Immunology Group. PMID: 33649198; PMCID: PMC7958259.
      View in: PubMed   Mentions: 1     Fields:    Translation:HumansCells
    19. Quantifying information accumulation encoded in the dynamics of biochemical signaling. Nat Commun. 2021 02 24; 12(1):1272. Tang Y, Adelaja A, Ye FX, Deeds E, Wollman R, Hoffmann A. PMID: 33627672; PMCID: PMC7904837.
      View in: PubMed   Mentions: 1     Fields:    Translation:HumansCells
    20. NF-κB responds to absolute differences in cytokine concentrations. Sci Signal. 2021 01 19; 14(666). Son M, Wang AG, Tu HL, Metzig MO, Patel P, Husain K, Lin J, Murugan A, Hoffmann A, Tay S. PMID: 34211635; PMCID: PMC8244746.
      View in: PubMed   Mentions: 2     Fields:    Translation:Cells
    21. An incoherent feedforward loop interprets NFκB/RelA dynamics to determine TNF-induced necroptosis decisions. Mol Syst Biol. 2020 12; 16(12):e9677. Oliver Metzig M, Tang Y, Mitchell S, Taylor B, Foreman R, Wollman R, Hoffmann A. PMID: 33314666; PMCID: PMC7734648.
      View in: PubMed   Mentions: 3     Fields:    Translation:AnimalsCells
    22. IκBα Nuclear Export Enables 4-1BB-Induced cRel Activation and IL-2 Production to Promote CD8 T Cell Immunity. J Immunol. 2020 09 15; 205(6):1540-1553. Lisiero DN, Cheng Z, Tejera MM, Neldner BT, Warrick JW, Wuerzberger-Davis SM, Hoffmann A, Suresh M, Miyamoto S. PMID: 32817348; PMCID: PMC7484350.
      View in: PubMed   Mentions: 1     Fields:    Translation:AnimalsCells
    23. Dissecting the Regulatory Strategies of NF-κB RelA Target Genes in the Inflammatory Response Reveals Differential Transactivation Logics. Cell Rep. 2020 02 25; 30(8):2758-2775.e6. Ngo KA, Kishimoto K, Davis-Turak J, Pimplaskar A, Cheng Z, Spreafico R, Chen EY, Tam A, Ghosh G, Mitchell S, Hoffmann A. PMID: 32101750; PMCID: PMC7061728.
      View in: PubMed   Mentions: 16     Fields:    Translation:AnimalsCells
    24. Gene Regulatory Strategies that Decode the Duration of NFκB Dynamics Contribute to LPS- versus TNF-Specific Gene Expression. Cell Syst. 2020 02 26; 10(2):169-182.e5. Sen S, Cheng Z, Sheu KM, Chen YH, Hoffmann A. PMID: 31972132; PMCID: PMC7047529.
      View in: PubMed   Mentions: 10     Fields:    Translation:Humans
    25. Stimulus-specificity in the Responses of Immune Sentinel Cells. Curr Opin Syst Biol. 2019 Dec; 18:53-61. Sheu K, Luecke S, Hoffmann A. PMID: 32864512; PMCID: PMC7450653.
      View in: PubMed   Mentions: 1  
    26. Identifying determinants of persistent MRSA bacteremia using mathematical modeling. PLoS Comput Biol. 2019 07; 15(7):e1007087. Mikkaichi T, Yeaman MR, Hoffmann A, MRSA Systems Immunobiology Group. PMID: 31295255; PMCID: PMC6622483.
      View in: PubMed   Mentions: 3     Fields:    Translation:HumansCells
    27. Signaling Crosstalk Mechanisms That May Fine-Tune Pathogen-Responsive NFκB. Front Immunol. 2019; 10:433. Adelaja A, Hoffmann A. PMID: 31312197; PMCID: PMC6614373.
      View in: PubMed   Mentions: 14     Fields:    Translation:HumansAnimalsCells
    28. An NFκB Activity Calculator to Delineate Signaling Crosstalk: Type I and II Interferons Enhance NFκB via Distinct Mechanisms. Front Immunol. 2019; 10:1425. Mitchell S, Mercado EL, Adelaja A, Ho JQ, Cheng QJ, Ghosh G, Hoffmann A. PMID: 31293585; PMCID: PMC6604663.
      View in: PubMed   Mentions: 11     Fields:    Translation:AnimalsCells
    29. Substrate complex competition is a regulatory motif that allows NFκB RelA to license but not amplify NFκB RelB. Proc Natl Acad Sci U S A. 2019 05 21; 116(21):10592-10597. Mitchell S, Hoffmann A. PMID: 31048505; PMCID: PMC6535030.
      View in: PubMed   Mentions: 1     Fields:    Translation:Cells
    30. Sequential conditioning-stimulation reveals distinct gene- and stimulus-specific effects of Type I and II IFN on human macrophage functions. Sci Rep. 2019 03 27; 9(1):5288. Cheng Q, Behzadi F, Sen S, Ohta S, Spreafico R, Teles R, Modlin RL, Hoffmann A. PMID: 30918279; PMCID: PMC6437173.
      View in: PubMed   Mentions: 12     Fields:    Translation:HumansCells
    31. A Regulatory Circuit Controlling the Dynamics of NFκB cRel Transitions B Cells from Proliferation to Plasma Cell Differentiation. Immunity. 2019 03 19; 50(3):616-628.e6. Roy K, Mitchell S, Liu Y, Ohta S, Lin YS, Metzig MO, Nutt SL, Hoffmann A. PMID: 30850343; PMCID: PMC6955201.
      View in: PubMed   Mentions: 23     Fields:    Translation:HumansAnimalsCells
    32. Mathematical modeling identifies potential gene structure determinants of co-transcriptional control of alternative pre-mRNA splicing. Nucleic Acids Res. 2019 Feb 20; 47(3):1602-1603. Davis-Turak J, Johnson TL, Hoffmann A. PMID: 30649426; PMCID: PMC6379712.
      View in: PubMed   Mentions:    Fields:    
    33. Dopamine Is a Siderophore-Like Iron Chelator That Promotes Salmonella enterica Serovar Typhimurium Virulence in Mice. mBio. 2019 02 05; 10(1). Dichtl S, Demetz E, Haschka D, Tymoszuk P, Petzer V, Nairz M, Seifert M, Hoffmann A, Brigo N, Würzner R, Theurl I, Karlinsey JE, Fang FC, Weiss G. PMID: 30723125; PMCID: PMC6428752.
      View in: PubMed   Mentions: 13     Fields:    Translation:AnimalsCells
    34. Mathematical modeling identifies potential gene structure determinants of co-transcriptional control of alternative pre-mRNA splicing. Nucleic Acids Res. 2018 11 16; 46(20):10598-10607. Davis-Turak J, Johnson TL, Hoffmann A. PMID: 30272246; PMCID: PMC6237756.
      View in: PubMed   Mentions: 5     Fields:    Translation:HumansAnimalsCells
    35. Polypyrimidine tract-binding protein blocks miRNA-124 biogenesis to enforce its neuronal-specific expression in the mouse. Proc Natl Acad Sci U S A. 2018 11 20; 115(47):E11061-E11070. Yeom KH, Mitchell S, Linares AJ, Zheng S, Lin CH, Wang XJ, Hoffmann A, Black DL. PMID: 30401736; PMCID: PMC6255174.
      View in: PubMed   Mentions: 9     Fields:    Translation:AnimalsCells
    36. Nongenetic origins of cell-to-cell variability in B lymphocyte proliferation. Proc Natl Acad Sci U S A. 2018 03 20; 115(12):E2888-E2897. Mitchell S, Roy K, Zangle TA, Hoffmann A. PMID: 29514960; PMCID: PMC5866559.
      View in: PubMed   Mentions: 23     Fields:    Translation:AnimalsCells
    37. Deriving Quantitative Cell Biological Information from Dye-Dilution Lymphocyte Proliferation Experiments. Methods Mol Biol. 2018; 1707:81-94. Roy K, Shokhirev MN, Mitchell S, Hoffmann A. PMID: 29388101; PMCID: PMC8363314.
      View in: PubMed   Mentions:    Fields:    Translation:HumansAnimalsCells
    38. Identifying Noise Sources governing cell-to-cell variability. Curr Opin Syst Biol. 2018 Apr; 8:39-45. Mitchell S, Hoffmann A. PMID: 29623300; PMCID: PMC5879788.
      View in: PubMed   Mentions: 8  
    39. Addressing the Digital Divide in Contemporary Biology: Lessons from Teaching UNIX. Trends Biotechnol. 2017 10; 35(10):901-903. Mangul S, Martin LS, Hoffmann A, Pellegrini M, Eskin E. PMID: 28720283.
      View in: PubMed   Mentions: 7     Fields:    
    40. Exhaustion-associated regulatory regions in CD8+ tumor-infiltrating T cells. Proc Natl Acad Sci U S A. 2017 03 28; 114(13):E2776-E2785. Mognol GP, Spreafico R, Wong V, Scott-Browne JP, Togher S, Hoffmann A, Hogan PG, Rao A, Trifari S. PMID: 28283662; PMCID: PMC5380094.
      View in: PubMed   Mentions: 106     Fields:    Translation:HumansAnimalsCells
    41. Iterative Modeling Reveals Evidence of Sequential Transcriptional Control Mechanisms. Cell Syst. 2017 03 22; 4(3):330-343.e5. Cheng CS, Behar MS, Suryawanshi GW, Feldman KE, Spreafico R, Hoffmann A. PMID: 28237795; PMCID: PMC5434763.
      View in: PubMed   Mentions: 20     Fields:    Translation:HumansAnimalsCells
    42. Functional importance of stripping in NFκB signaling revealed by a stripping-impaired IκBα mutant. Proc Natl Acad Sci U S A. 2017 02 21; 114(8):1916-1921. Dembinski HE, Wismer K, Vargas JD, Suryawanshi GW, Kern N, Kroon G, Dyson HJ, Hoffmann A, Komives EA. PMID: 28167786; PMCID: PMC5338396.
      View in: PubMed   Mentions: 17     Fields:    Translation:HumansAnimalsCells
    43. Early cytokine signatures of ischemia/reperfusion injury in human orthotopic liver transplantation. JCI Insight. 2016 12 08; 1(20):e89679. Sosa RA, Zarrinpar A, Rossetti M, Lassman CR, Naini BV, Datta N, Rao P, Harre N, Zheng Y, Spreafico R, Hoffmann A, Busuttil RW, Gjertson DW, Zhai Y, Kupiec-Weglinski JW, Reed EF. PMID: 27942590; PMCID: PMC5135282.
      View in: PubMed   Mentions: 24     Fields:    Translation:Humans
    44. Oscillation dynamics underlie functional switching of NF-κB for B-cell activation. NPJ Syst Biol Appl. 2016; 2:16024. Inoue K, Shinohara H, Behar M, Yumoto N, Tanaka G, Hoffmann A, Aihara K, Okada-Hatakeyama M. PMID: 28725478; PMCID: PMC5516862.
      View in: PubMed   Mentions: 9     Fields:    
    45. A miR-155-Peli1-c-Rel pathway controls the generation and function of T follicular helper cells. J Exp Med. 2016 08 22; 213(9):1901-19. Liu WH, Kang SG, Huang Z, Wu CJ, Jin HY, Maine CJ, Liu Y, Shepherd J, Sabouri-Ghomi M, Gonzalez-Martin A, Xu S, Hoffmann A, Zheng Y, Lu LF, Xiao N, Fu G, Xiao C. PMID: 27481129; PMCID: PMC4995083.
      View in: PubMed   Mentions: 28     Fields:    Translation:AnimalsCells
    46. Immune Response Signaling: Combinatorial and Dynamic Control. Trends Immunol. 2016 09; 37(9):570-572. Hoffmann A. PMID: 27461000; PMCID: PMC5003693.
      View in: PubMed   Mentions: 6     Fields:    Translation:HumansAnimalsCells
    47. High-Content Quantification of Single-Cell Immune Dynamics. Cell Rep. 2016 Apr 12; 15(2):411-22. Junkin M, Kaestli AJ, Cheng Z, Jordi C, Albayrak C, Hoffmann A, Tay S. PMID: 27050527; PMCID: PMC4835544.
      View in: PubMed   Mentions: 44     Fields:    Translation:AnimalsCells
    48. Signaling via the NFκB system. Wiley Interdiscip Rev Syst Biol Med. 2016 05; 8(3):227-41. Mitchell S, Vargas J, Hoffmann A. PMID: 26990581; PMCID: PMC8363188.
      View in: PubMed   Mentions: 283     Fields:    Translation:HumansAnimalsCells
    49. The REGγ-proteasome forms a regulatory circuit with IκBɛ and NFκB in experimental colitis. Nat Commun. 2016 Feb 22; 7:10761. Xu J, Zhou L, Ji L, Chen F, Fortmann K, Zhang K, Liu Q, Li K, Wang W, Wang H, Xie W, Wang Q, Liu J, Zheng B, Zhang P, Huang S, Shi T, Zhang B, Dang Y, Chen J, O'Malley BW, Moses RE, Wang P, Li L, Xiao J, Hoffmann A, Li X. PMID: 26899380; PMCID: PMC4764899.
      View in: PubMed   Mentions: 23     Fields:    Translation:HumansAnimalsCells
    50. A stochastic spatio-temporal (SST) model to study cell-to-cell variability in HIV-1 infection. J Theor Biol. 2016 Apr 21; 395:87-96. Cheng Z, Hoffmann A. PMID: 26860658.
      View in: PubMed   Mentions: 1     Fields:    Translation:HumansCells
    51. B-cell survival and development controlled by the coordination of NF-κB family members RelB and cRel. Blood. 2016 Mar 10; 127(10):1276-86. Almaden JV, Liu YC, Yang E, Otero DC, Birnbaum H, Davis-Turak J, Asagiri M, David M, Goldrath AW, Hoffmann A. PMID: 26773039; PMCID: PMC4786837.
      View in: PubMed   Mentions: 15     Fields:    Translation:AnimalsCells
    52. A multi-scale mathematical modeling framework to investigate anti-viral therapeutic opportunities in targeting HIV-1 accessory proteins. J Theor Biol. 2015 Dec 07; 386:89-104. Suryawanshi GW, Hoffmann A. PMID: 26385832; PMCID: PMC4685255.
      View in: PubMed   Mentions: 1     Fields:    Translation:HumansCells
    53. Anatomy of a negative feedback loop: the case of IκBα. J R Soc Interface. 2015 Sep 06; 12(110):0262. Fagerlund R, Behar M, Fortmann KT, Lin YE, Vargas JD, Hoffmann A. PMID: 26311312; PMCID: PMC4614452.
      View in: PubMed   Mentions: 16     Fields:    Translation:AnimalsCells
    54. A Regulated, Ubiquitin-Independent Degron in IκBα. J Mol Biol. 2015 Aug 28; 427(17):2748-56. Fortmann KT, Lewis RD, Ngo KA, Fagerlund R, Hoffmann A. PMID: 26191773; PMCID: PMC4685248.
      View in: PubMed   Mentions: 7     Fields:    Translation:HumansAnimalsCells
    55. Distinct single-cell signaling characteristics are conferred by the MyD88 and TRIF pathways during TLR4 activation. Sci Signal. 2015 Jul 14; 8(385):ra69. Cheng Z, Taylor B, Ourthiague DR, Hoffmann A. PMID: 26175492; PMCID: PMC6764925.
      View in: PubMed   Mentions: 50     Fields:    Translation:AnimalsCells
    56. IκBβ enhances the generation of the low-affinity NFκB/RelA homodimer. Nat Commun. 2015 May 07; 6:7068. Tsui R, Kearns JD, Lynch C, Vu D, Ngo KA, Basak S, Ghosh G, Hoffmann A. PMID: 25946967; PMCID: PMC4425231.
      View in: PubMed   Mentions: 19     Fields:    Translation:AnimalsCells
    57. Training the 21st Century Immunologist. Trends Immunol. 2015 May; 36(5):283-5. Spreafico R, Mitchell S, Hoffmann A. PMID: 25911462.
      View in: PubMed   Mentions: 5     Fields:    Translation:Humans
    58. Limited specificity of IRF3 and ISGF3 in the transcriptional innate-immune response to double-stranded RNA. J Leukoc Biol. 2015 Jul; 98(1):119-28. Ourthiague DR, Birnbaum H, Ortenlöf N, Vargas JD, Wollman R, Hoffmann A. PMID: 25896227; PMCID: PMC4467169.
      View in: PubMed   Mentions: 16     Fields:    Translation:AnimalsCells
    59. Regulation and Function of the Caspase-1 in an Inflammatory Microenvironment. J Invest Dermatol. 2015 Aug; 135(8):2012-2020. Lee DJ, Du F, Chen SW, Nakasaki M, Rana I, Shih VFS, Hoffmann A, Jamora C. PMID: 25815426; PMCID: PMC4504759.
      View in: PubMed   Mentions: 20     Fields:    Translation:AnimalsCells
    60. A multi-scale approach reveals that NF-κB cRel enforces a B-cell decision to divide. Mol Syst Biol. 2015 Feb 13; 11(1):783. Shokhirev MN, Almaden J, Davis-Turak J, Birnbaum HA, Russell TM, Vargas JA, Hoffmann A. PMID: 25680807; PMCID: PMC4358656.
      View in: PubMed   Mentions: 13     Fields:    Translation:AnimalsCells
    61. Studying NF-κB signaling with mathematical models. Methods Mol Biol. 2015; 1280:647-61. Mitchell S, Tsui R, Hoffmann A. PMID: 25736777.
      View in: PubMed   Mentions: 4     Fields:    Translation:Cells
    62. Considering the kinetics of mRNA synthesis in the analysis of the genome and epigenome reveals determinants of co-transcriptional splicing. Nucleic Acids Res. 2015 Jan; 43(2):699-707. Davis-Turak JC, Allison K, Shokhirev MN, Ponomarenko P, Tsimring LS, Glass CK, Johnson TL, Hoffmann A. PMID: 25541195; PMCID: PMC4333389.
      View in: PubMed   Mentions: 9     Fields:    Translation:HumansAnimalsCells
    63. Systems biology. Accurate information transmission through dynamic biochemical signaling networks. Science. 2014 Dec 12; 346(6215):1370-3. Selimkhanov J, Taylor B, Yao J, Pilko A, Albeck J, Hoffmann A, Tsimring L, Wollman R. PMID: 25504722; PMCID: PMC4813785.
      View in: PubMed   Mentions: 139     Fields:    Translation:HumansCells
    64. A pathway switch directs BAFF signaling to distinct NFκB transcription factors in maturing and proliferating B cells. Cell Rep. 2014 Dec 24; 9(6):2098-111. Almaden JV, Tsui R, Liu YC, Birnbaum H, Shokhirev MN, Ngo KA, Davis-Turak JC, Otero D, Basak S, Rickert RC, Hoffmann A. PMID: 25497099; PMCID: PMC4889572.
      View in: PubMed   Mentions: 20     Fields:    Translation:AnimalsCells
    65. MAP kinase p38α regulates type III interferon (IFN-λ1) gene expression in human monocyte-derived dendritic cells in response to RNA stimulation. J Leukoc Biol. 2015 Feb; 97(2):307-20. Jiang M, Österlund P, Fagerlund R, Rios DN, Hoffmann A, Poranen MM, Bamford DH, Julkunen I. PMID: 25473098.
      View in: PubMed   Mentions: 10     Fields:    Translation:HumansAnimalsCells
    66. Network dynamics determine the autocrine and paracrine signaling functions of TNF. Genes Dev. 2014 Oct 01; 28(19):2120-33. Caldwell AB, Cheng Z, Vargas JD, Birnbaum HA, Hoffmann A. PMID: 25274725; PMCID: PMC4180974.
      View in: PubMed   Mentions: 45     Fields:    Translation:AnimalsCells
    67. Performance studies on distributed virtual screening. Biomed Res Int. 2014; 2014:624024. Krüger J, Grunzke R, Herres-Pawlis S, Hoffmann A, de la Garza L, Kohlbacher O, Nagel WE, Gesing S. PMID: 25032219; PMCID: PMC4083208.
      View in: PubMed   Mentions: 1     Fields:    
    68. Positive feedback within a kinase signaling complex functions as a switch mechanism for NF-κB activation. Science. 2014 May 16; 344(6185):760-4. Shinohara H, Behar M, Inoue K, Hiroshima M, Yasuda T, Nagashima T, Kimura S, Sanjo H, Maeda S, Yumoto N, Ki S, Akira S, Sako Y, Hoffmann A, Kurosaki T, Okada-Hatakeyama M. PMID: 24833394.
      View in: PubMed   Mentions: 44     Fields:    Translation:AnimalsCells
    69. IκBε is a key regulator of B cell expansion by providing negative feedback on cRel and RelA in a stimulus-specific manner. J Immunol. 2014 Apr 01; 192(7):3121-32. Alves BN, Tsui R, Almaden J, Shokhirev MN, Davis-Turak J, Fujimoto J, Birnbaum H, Ponomarenko J, Hoffmann A. PMID: 24591377; PMCID: PMC3965642.
      View in: PubMed   Mentions: 28     Fields:    Translation:AnimalsCells
    70. Cross-talk between aryl hydrocarbon receptor and the inflammatory response: a role for nuclear factor-κB. J Biol Chem. 2014 Jan 17; 289(3):1866-75. Vogel CF, Khan EM, Leung PS, Gershwin ME, Chang WL, Wu D, Haarmann-Stemmann T, Hoffmann A, Denison MS. PMID: 24302727; PMCID: PMC3894361.
      View in: PubMed   Mentions: 103     Fields:    Translation:HumansAnimalsCells
    71. The dynamics of signaling as a pharmacological target. Cell. 2013 Oct 10; 155(2):448-61. Behar M, Barken D, Werner SL, Hoffmann A. PMID: 24120141; PMCID: PMC3856316.
      View in: PubMed   Mentions: 67     Fields:    Translation:HumansAnimalsCells
    72. Ex vivo innate immune cytokine signature of enhanced risk of relapsing brucellosis. PLoS Negl Trop Dis. 2013; 7(9):e2424. Feldman KE, Loriaux PM, Saito M, Tuero I, Villaverde H, Siva T, Gotuzzo E, Gilman RH, Hoffmann A, Vinetz JM. PMID: 24040434; PMCID: PMC3764229.
      View in: PubMed   Mentions: 1     Fields:    Translation:HumansCells
    73. Analysis of the RelA:CBP/p300 interaction reveals its involvement in NF-κB-driven transcription. PLoS Biol. 2013 Sep; 11(9):e1001647. Mukherjee SP, Behar M, Birnbaum HA, Hoffmann A, Wright PE, Ghosh G. PMID: 24019758; PMCID: PMC3760798.
      View in: PubMed   Mentions: 60     Fields:    Translation:AnimalsCells
    74. Chromatin-bound IκBα regulates a subset of polycomb target genes in differentiation and cancer. Cancer Cell. 2013 Aug 12; 24(2):151-66. Mulero MC, Ferres-Marco D, Islam A, Margalef P, Pecoraro M, Toll A, Drechsel N, Charneco C, Davis S, Bellora N, Gallardo F, López-Arribillaga E, Asensio-Juan E, Rodilla V, González J, Iglesias M, Shih V, Mar Albà M, Di Croce L, Hoffmann A, Miyamoto S, Villà-Freixa J, López-Bigas N, Keyes WM, Domínguez M, Bigas A, Espinosa L. PMID: 23850221; PMCID: PMC3962677.
      View in: PubMed   Mentions: 23     Fields:    Translation:HumansAnimalsCells
    75. Tunable signal processing through a kinase control cycle: the IKK signaling node. Biophys J. 2013 Jul 02; 105(1):231-41. Behar M, Hoffmann A. PMID: 23823243; PMCID: PMC3699752.
      View in: PubMed   Mentions: 16     Fields:    Translation:Cells
    76. FlowMax: A Computational Tool for Maximum Likelihood Deconvolution of CFSE Time Courses. PLoS One. 2013; 8(6):e67620. Shokhirev MN, Hoffmann A. PMID: 23826329; PMCID: PMC3694893.
      View in: PubMed   Mentions: 9     Fields:    Translation:AnimalsCells
    77. Dual delayed feedback provides sensitivity and robustness to the NF-κB signaling module. PLoS Comput Biol. 2013; 9(6):e1003112. Longo DM, Selimkhanov J, Kearns JD, Hasty J, Hoffmann A, Tsimring LS. PMID: 23825938; PMCID: PMC3694842.
      View in: PubMed   Mentions: 23     Fields:    Translation:Cells
    78. A structural basis for IκB kinase 2 activation via oligomerization-dependent trans auto-phosphorylation. PLoS Biol. 2013; 11(6):e1001581. Polley S, Huang DB, Hauenstein AV, Fusco AJ, Zhong X, Vu D, Schröfelbauer B, Kim Y, Hoffmann A, Verma IM, Ghosh G, Huxford T. PMID: 23776406; PMCID: PMC3678999.
      View in: PubMed   Mentions: 53     Fields:    Translation:HumansCells
    79. Characterizing the relationship between steady state and response using analytical expressions for the steady states of mass action models. PLoS Comput Biol. 2013; 9(2):e1002901. Loriaux PM, Tesler G, Hoffmann A. PMID: 23509437; PMCID: PMC3585464.
      View in: PubMed   Mentions: 8     Fields:    Translation:HumansCells
    80. A protein turnover signaling motif controls the stimulus-sensitivity of stress response pathways. PLoS Comput Biol. 2013; 9(2):e1002932. Loriaux PM, Hoffmann A. PMID: 23468615; PMCID: PMC3585401.
      View in: PubMed   Mentions: 6     Fields:    Translation:HumansAnimalsCells
    81. ER stress activates NF-κB by integrating functions of basal IKK activity, IRE1 and PERK. PLoS One. 2012; 7(10):e45078. Tam AB, Mercado EL, Hoffmann A, Niwa M. PMID: 23110043; PMCID: PMC3482226.
      View in: PubMed   Mentions: 145     Fields:    Translation:HumansAnimalsCells
    82. Control of RelB during dendritic cell activation integrates canonical and noncanonical NF-κB pathways. Nat Immunol. 2012 Dec; 13(12):1162-70. Shih VF, Davis-Turak J, Macal M, Huang JQ, Ponomarenko J, Kearns JD, Yu T, Fagerlund R, Asagiri M, Zuniga EI, Hoffmann A. PMID: 23086447; PMCID: PMC3634611.
      View in: PubMed   Mentions: 95     Fields:    Translation:AnimalsCells
    83. The transcriptional specificity of NF-κB dimers is coded within the κB DNA response elements. Cell Rep. 2012 Oct 25; 2(4):824-39. Wang VY, Huang W, Asagiri M, Spann N, Hoffmann A, Glass C, Ghosh G. PMID: 23063365; PMCID: PMC4167904.
      View in: PubMed   Mentions: 51     Fields:    Translation:AnimalsCells
    84. NEMO ensures signaling specificity of the pleiotropic IKKβ by directing its kinase activity toward IκBα. Mol Cell. 2012 Jul 13; 47(1):111-21. Schröfelbauer B, Polley S, Behar M, Ghosh G, Hoffmann A. PMID: 22633953; PMCID: PMC3398199.
      View in: PubMed   Mentions: 46     Fields:    Translation:HumansAnimalsCells
    85. Paternal RLIM/Rnf12 is a survival factor for milk-producing alveolar cells. Cell. 2012 Apr 27; 149(3):630-41. Jiao B, Ma H, Shokhirev MN, Drung A, Yang Q, Shin J, Lu S, Byron M, Kalantry S, Mercurio AM, Lawrence JB, Hoffmann A, Bach I. PMID: 22541433; PMCID: PMC3342660.
      View in: PubMed   Mentions: 19     Fields:    Translation:Animals
    86. Lessons from mathematically modeling the NF-κB pathway. Immunol Rev. 2012 Mar; 246(1):221-38. Basak S, Behar M, Hoffmann A. PMID: 22435558; PMCID: PMC3343698.
      View in: PubMed   Mentions: 65     Fields:    Translation:HumansAnimalsCells
    87. A framework for modeling the relationship between cellular steady-state and stimulus-responsiveness. Methods Cell Biol. 2012; 110:81-109. Loriaux PM, Hoffmann A. PMID: 22482946; PMCID: PMC5763568.
      View in: PubMed   Mentions: 4     Fields:    Translation:HumansCells
    88. Mechanisms establishing TLR4-responsive activation states of inflammatory response genes. PLoS Genet. 2011 Dec; 7(12):e1002401. Escoubet-Lozach L, Benner C, Kaikkonen MU, Lozach J, Heinz S, Spann NJ, Crotti A, Stender J, Ghisletti S, Reichart D, Cheng CS, Luna R, Ludka C, Sasik R, Garcia-Bassets I, Hoffmann A, Subramaniam S, Hardiman G, Rosenfeld MG, Glass CK. PMID: 22174696; PMCID: PMC3234212.
      View in: PubMed   Mentions: 76     Fields:    Translation:HumansAnimalsCells
    89. NF-κB–inducing kinase plays an essential T cell–intrinsic role in graft-versus-host disease and lethal autoimmunity in mice. J Clin Invest. 2011 Dec; 121(12):4775-86. Murray SE, Polesso F, Rowe AM, Basak S, Koguchi Y, Toren KG, Hoffmann A, Parker DC. PMID: 22045568; PMCID: PMC3223068.
      View in: PubMed   Mentions: 32     Fields:    Translation:AnimalsCells
    90. How do pleiotropic kinase hubs mediate specific signaling by TNFR superfamily members? Immunol Rev. 2011 Nov; 244(1):29-43. Schröfelbauer B, Hoffmann A. PMID: 22017429; PMCID: PMC3357464.
      View in: PubMed   Mentions: 12     Fields:    Translation:HumansAnimalsCells
    91. The specificity of innate immune responses is enforced by repression of interferon response elements by NF-κB p50. Sci Signal. 2011 Feb 22; 4(161):ra11. Cheng CS, Feldman KE, Lee J, Verma S, Huang DB, Huynh K, Chang M, Ponomarenko JV, Sun SC, Benedict CA, Ghosh G, Hoffmann A. PMID: 21343618; PMCID: PMC3096068.
      View in: PubMed   Mentions: 49     Fields:    Translation:HumansAnimalsCells
    92. Nuclear export of the NF-κB inhibitor IκBα is required for proper B cell and secondary lymphoid tissue formation. Immunity. 2011 Feb 25; 34(2):188-200. Wuerzberger-Davis SM, Chen Y, Yang DT, Kearns JD, Bates PW, Lynch C, Ladell NC, Yu M, Podd A, Zeng H, Huang TT, Wen R, Hoffmann A, Wang D, Miyamoto S. PMID: 21333553; PMCID: PMC3111750.
      View in: PubMed   Mentions: 21     Fields:    Translation:AnimalsCells
    93. NF-κB potentiates caspase independent hydrogen peroxide induced cell death. PLoS One. 2011 Feb 15; 6(2):e16815. Ho JQ, Asagiri M, Hoffmann A, Ghosh G. PMID: 21347231; PMCID: PMC3039651.
      View in: PubMed   Mentions: 6     Fields:    Translation:HumansAnimalsCells
    94. Understanding the logic of IκB:NF-κB regulation in structural terms. Curr Top Microbiol Immunol. 2011; 349:1-24. Huxford T, Hoffmann A, Ghosh G. PMID: 20845107.
      View in: PubMed   Mentions: 14     Fields:    Translation:HumansAnimalsCells
    95. A single NFκB system for both canonical and non-canonical signaling. Cell Res. 2011 Jan; 21(1):86-102. Shih VF, Tsui R, Caldwell A, Hoffmann A. PMID: 21102550; PMCID: PMC3193412.
      View in: PubMed   Mentions: 201     Fields:    Translation:HumansCells
    96. Understanding the temporal codes of intra-cellular signals. Curr Opin Genet Dev. 2010 Dec; 20(6):684-93. Behar M, Hoffmann A. PMID: 20956081; PMCID: PMC2982931.
      View in: PubMed   Mentions: 75     Fields:    Translation:AnimalsCells
    97. IkappaBbeta acts to inhibit and activate gene expression during the inflammatory response. Nature. 2010 Aug 26; 466(7310):1115-9. Rao P, Hayden MS, Long M, Scott ML, West AP, Zhang D, Oeckinghaus A, Lynch C, Hoffmann A, Baltimore D, Ghosh S. PMID: 20740013; PMCID: PMC2946371.
      View in: PubMed   Mentions: 97     Fields:    Translation:AnimalsCells
    98. Defective regulation of CXCR2 facilitates neutrophil release from bone marrow causing spontaneous inflammation in severely NF-kappa B-deficient mice. J Immunol. 2010 Jul 01; 185(1):670-8. von Vietinghoff S, Asagiri M, Azar D, Hoffmann A, Ley K. PMID: 20519647; PMCID: PMC2891140.
      View in: PubMed   Mentions: 21     Fields:    Translation:AnimalsCells
    99. Differential activation and antagonistic function of HIF-{alpha} isoforms in macrophages are essential for NO homeostasis. Genes Dev. 2010 Mar 01; 24(5):491-501. Takeda N, O'Dea EL, Doedens A, Kim JW, Weidemann A, Stockmann C, Asagiri M, Simon MC, Hoffmann A, Johnson RS. PMID: 20194441; PMCID: PMC2827844.
      View in: PubMed   Mentions: 254     Fields:    Translation:AnimalsCells
    100. The regulatory logic of the NF-kappaB signaling system. Cold Spring Harb Perspect Biol. 2010 Jan; 2(1):a000216. O'Dea E, Hoffmann A. PMID: 20182598; PMCID: PMC2827908.
      View in: PubMed   Mentions: 55     Fields:    Translation:HumansAnimalsCells
    101. Kinetic enhancement of NF-kappaBxDNA dissociation by IkappaBalpha. Proc Natl Acad Sci U S A. 2009 Nov 17; 106(46):19328-33. Bergqvist S, Alverdi V, Mengel B, Hoffmann A, Ghosh G, Komives EA. PMID: 19887633; PMCID: PMC2780789.
      View in: PubMed   Mentions: 56     Fields:    Translation:HumansCells
    102. A unifying model for the selective regulation of inducible transcription by CpG islands and nucleosome remodeling. Cell. 2009 Jul 10; 138(1):114-28. Ramirez-Carrozzi VR, Braas D, Bhatt DM, Cheng CS, Hong C, Doty KR, Black JC, Hoffmann A, Carey M, Smale ST. PMID: 19596239; PMCID: PMC2712736.
      View in: PubMed   Mentions: 303     Fields:    Translation:HumansAnimalsCells
    103. NF-κB signaling. Wiley Interdiscip Rev Syst Biol Med. 2009 Jul-Aug; 1(1):107-115. O'Dea E, Hoffmann A. PMID: 20151024; PMCID: PMC2819170.
      View in: PubMed   Mentions: 32     Fields:    Translation:HumansAnimalsCells
    104. The Nfkb1 and Nfkb2 proteins p105 and p100 function as the core of high-molecular-weight heterogeneous complexes. Mol Cell. 2009 Jun 12; 34(5):591-602. Savinova OV, Hoffmann A, Ghosh G. PMID: 19524538; PMCID: PMC4167889.
      View in: PubMed   Mentions: 68     Fields:    Translation:HumansCells
    105. Kinetic control of negative feedback regulators of NF-kappaB/RelA determines their pathogen- and cytokine-receptor signaling specificity. Proc Natl Acad Sci U S A. 2009 Jun 16; 106(24):9619-24. Shih VF, Kearns JD, Basak S, Savinova OV, Ghosh G, Hoffmann A. PMID: 19487661; PMCID: PMC2701028.
      View in: PubMed   Mentions: 69     Fields:    Translation:AnimalsCells
    106. Of elections and cell-death decisions. Mol Cell. 2009 May 15; 34(3):257-8. Loriaux P, Hoffmann A. PMID: 19450524; PMCID: PMC3703440.
      View in: PubMed   Mentions: 2     Fields:    Translation:HumansCells
    107. Antigen-mediated T cell expansion regulated by parallel pathways of death. Proc Natl Acad Sci U S A. 2008 Nov 11; 105(45):17463-8. Ch'en IL, Beisner DR, Degterev A, Lynch C, Yuan J, Hoffmann A, Hedrick SM. PMID: 18981423; PMCID: PMC2582294.
      View in: PubMed   Mentions: 78     Fields:    Translation:AnimalsCells
    108. Integrating computational and biochemical studies to explore mechanisms in NF-{kappa}B signaling. J Biol Chem. 2009 Feb 27; 284(9):5439-43. Kearns JD, Hoffmann A. PMID: 18940809; PMCID: PMC2645808.
      View in: PubMed   Mentions: 14     Fields:    Translation:HumansAnimalsCells
    109. Encoding NF-kappaB temporal control in response to TNF: distinct roles for the negative regulators IkappaBalpha and A20. Genes Dev. 2008 Aug 01; 22(15):2093-101. Werner SL, Kearns JD, Zadorozhnaya V, Lynch C, O'Dea E, Boldin MP, Ma A, Baltimore D, Hoffmann A. PMID: 18676814; PMCID: PMC2492747.
      View in: PubMed   Mentions: 114     Fields:    Translation:AnimalsCells
    110. UV as an amplifier rather than inducer of NF-kappaB activity. Mol Cell. 2008 Jun 06; 30(5):632-41. O'Dea EL, Kearns JD, Hoffmann A. PMID: 18538661; PMCID: PMC2682114.
      View in: PubMed   Mentions: 52     Fields:    Translation:AnimalsCells
    111. Crosstalk via the NF-kappaB signaling system. Cytokine Growth Factor Rev. 2008 Jun-Aug; 19(3-4):187-97. Basak S, Hoffmann A. PMID: 18515173; PMCID: PMC2675004.
      View in: PubMed   Mentions: 71     Fields:    Translation:AnimalsCells
    112. Understanding NF-kappaB signaling via mathematical modeling. Mol Syst Biol. 2008; 4:192. Cheong R, Hoffmann A, Levchenko A. PMID: 18463616; PMCID: PMC2424295.
      View in: PubMed   Mentions: 81     Fields:    Translation:Cells
    113. Negative regulation of constitutive NF-kappaB and JNK signaling by PKN1-mediated phosphorylation of TRAF1. Genes Cells. 2008 May; 13(5):509-20. Kato T, Gotoh Y, Hoffmann A, Ono Y. PMID: 18429822.
      View in: PubMed   Mentions: 19     Fields:    Translation:HumansCells
    114. Epigenetic control: slow and global, nimble and local. Genes Dev. 2008 May 01; 22(9):1110-4. Cheng CS, Johnson TL, Hoffmann A. PMID: 18451102; PMCID: PMC2732403.
      View in: PubMed   Mentions: 4     Fields:    Translation:AnimalsCells
    115. NF-kappaB dictates the degradation pathway of IkappaBalpha. EMBO J. 2008 May 07; 27(9):1357-67. Mathes E, O'Dea EL, Hoffmann A, Ghosh G. PMID: 18401342; PMCID: PMC2374849.
      View in: PubMed   Mentions: 88     Fields:    Translation:HumansAnimalsCells
    116. Stabilization of RelB requires multidomain interactions with p100/p52. J Biol Chem. 2008 May 02; 283(18):12324-32. Fusco AJ, Savinova OV, Talwar R, Kearns JD, Hoffmann A, Ghosh G. PMID: 18321863; PMCID: PMC2431000.
      View in: PubMed   Mentions: 40     Fields:    Translation:HumansAnimalsCells
    117. Generation and activation of multiple dimeric transcription factors within the NF-kappaB signaling system. Mol Cell Biol. 2008 May; 28(10):3139-50. Basak S, Shih VF, Hoffmann A. PMID: 18299388; PMCID: PMC2423155.
      View in: PubMed   Mentions: 62     Fields:    Translation:AnimalsCells
    118. NF-kappaB as a determinant of distinct cell death pathways. Methods Enzymol. 2008; 446:175-87. Ch'en IL, Hedrick SM, Hoffmann A. PMID: 18603122.
      View in: PubMed   Mentions: 3     Fields:    Translation:AnimalsCells
    119. A homeostatic model of IkappaB metabolism to control constitutive NF-kappaB activity. Mol Syst Biol. 2007; 3:111. O'Dea EL, Barken D, Peralta RQ, Tran KT, Werner SL, Kearns JD, Levchenko A, Hoffmann A. PMID: 17486138; PMCID: PMC2673708.
      View in: PubMed   Mentions: 89     Fields:    Translation:AnimalsCells
    120. Inflammatory tales of liver cancer. Cancer Cell. 2007 Feb; 11(2):99-101. Hoffmann A, Xia Y, Verma IM. PMID: 17292819.
      View in: PubMed   Mentions: 9     Fields:    Translation:AnimalsCells
    121. A fourth IkappaB protein within the NF-kappaB signaling module. Cell. 2007 Jan 26; 128(2):369-81. Basak S, Kim H, Kearns JD, Tergaonkar V, O'Dea E, Werner SL, Benedict CA, Ware CF, Ghosh G, Verma IM, Hoffmann A. PMID: 17254973; PMCID: PMC1831796.
      View in: PubMed   Mentions: 187     Fields:    Translation:AnimalsCells
    122. IkappaBepsilon provides negative feedback to control NF-kappaB oscillations, signaling dynamics, and inflammatory gene expression. J Cell Biol. 2006 Jun 05; 173(5):659-64. Kearns JD, Basak S, Werner SL, Huang CS, Hoffmann A. PMID: 16735576; PMCID: PMC2063883.
      View in: PubMed   Mentions: 108     Fields:    Translation:AnimalsCells
    123. Circuitry of nuclear factor kappaB signaling. Immunol Rev. 2006 Apr; 210:171-86. Hoffmann A, Baltimore D. PMID: 16623771.
      View in: PubMed   Mentions: 369     Fields:    Translation:HumansCells
    124. Transient IkappaB kinase activity mediates temporal NF-kappaB dynamics in response to a wide range of tumor necrosis factor-alpha doses. J Biol Chem. 2006 Feb 03; 281(5):2945-50. Cheong R, Bergmann A, Werner SL, Regal J, Hoffmann A, Levchenko A. PMID: 16321974.
      View in: PubMed   Mentions: 67     Fields:    Translation:AnimalsCells
    125. Coordination between NF-kappaB family members p50 and p52 is essential for mediating LTbetaR signals in the development and organization of secondary lymphoid tissues. Blood. 2006 Feb 01; 107(3):1048-55. Lo JC, Basak S, James ES, Quiambo RS, Kinsella MC, Alegre ML, Weih F, Franzoso G, Hoffmann A, Fu YX. PMID: 16195333; PMCID: PMC1895903.
      View in: PubMed   Mentions: 50     Fields:    Translation:AnimalsCells
    126. Immortalized fibroblasts from NF-kappaB RelA knockout mice show phenotypic heterogeneity and maintain increased sensitivity to tumor necrosis factor alpha after transformation by v-Ras. Oncogene. 2005 Sep 29; 24(43):6574-83. Gapuzan ME, Schmah O, Pollock AD, Hoffmann A, Gilmore TD. PMID: 16027734.
      View in: PubMed   Mentions: 24     Fields:    Translation:AnimalsCells
    127. Stimulus specificity of gene expression programs determined by temporal control of IKK activity. Science. 2005 Sep 16; 309(5742):1857-61. Werner SL, Barken D, Hoffmann A. PMID: 16166517.
      View in: PubMed   Mentions: 238     Fields:    Translation:AnimalsCells
    128. A c-Rel subdomain responsible for enhanced DNA-binding affinity and selective gene activation. Genes Dev. 2005 Sep 15; 19(18):2138-51. Sanjabi S, Williams KJ, Saccani S, Zhou L, Hoffmann A, Ghosh G, Gerondakis S, Natoli G, Smale ST. PMID: 16166378; PMCID: PMC1221885.
      View in: PubMed   Mentions: 61     Fields:    Translation:AnimalsCells
    129. Cutting edge: innate immunity conferred by B cells is regulated by caspase-8. J Immunol. 2005 Sep 15; 175(6):3469-73. Beisner DR, Ch'en IL, Kolla RV, Hoffmann A, Hedrick SM. PMID: 16148088.
      View in: PubMed   Mentions: 84     Fields:    Translation:AnimalsCells
    130. Molecular determinants of crosstalk between nuclear receptors and toll-like receptors. Cell. 2005 Sep 09; 122(5):707-21. Ogawa S, Lozach J, Benner C, Pascual G, Tangirala RK, Westin S, Hoffmann A, Subramaniam S, David M, Rosenfeld MG, Glass CK. PMID: 16143103; PMCID: PMC1430687.
      View in: PubMed   Mentions: 252     Fields:    Translation:AnimalsCells
    131. Signaling pathways and genes that inhibit pathogen-induced macrophage apoptosis--CREB and NF-kappaB as key regulators. Immunity. 2005 Sep; 23(3):319-29. Park JM, Greten FR, Wong A, Westrick RJ, Arthur JS, Otsu K, Hoffmann A, Montminy M, Karin M. PMID: 16169504.
      View in: PubMed   Mentions: 137     Fields:    Translation:AnimalsCells
    132. Initiation and termination of NF-kappaB signaling by the intracellular protozoan parasite Toxoplasma gondii. J Cell Sci. 2005 Aug 01; 118(Pt 15):3501-8. Shapira S, Harb OS, Margarit J, Matrajt M, Han J, Hoffmann A, Freedman B, May MJ, Roos DS, Hunter CA. PMID: 16079291.
      View in: PubMed   Mentions: 32     Fields:    Translation:HumansAnimalsCells
    133. Induction of NR4A orphan nuclear receptor expression in macrophages in response to inflammatory stimuli. J Biol Chem. 2005 Aug 12; 280(32):29256-62. Pei L, Castrillo A, Chen M, Hoffmann A, Tontonoz P. PMID: 15964844.
      View in: PubMed   Mentions: 110     Fields:    Translation:HumansAnimalsCells
    134. Comment on "Oscillations in NF-kappaB signaling control the dynamics of gene expression". Science. 2005 Apr 01; 308(5718):52; author reply 52. Barken D, Wang CJ, Kearns J, Cheong R, Hoffmann A, Levchenko A. PMID: 15802586; PMCID: PMC2821939.
      View in: PubMed   Mentions: 44     Fields:    Translation:HumansCells
    135. One nucleotide in a kappaB site can determine cofactor specificity for NF-kappaB dimers. Cell. 2004 Aug 20; 118(4):453-64. Leung TH, Hoffmann A, Baltimore D. PMID: 15315758.
      View in: PubMed   Mentions: 175     Fields:    Translation:HumansAnimalsCells
    136. Unique CD40-mediated biological program in B cell activation requires both type 1 and type 2 NF-kappaB activation pathways. Proc Natl Acad Sci U S A. 2004 May 25; 101(21):8108-13. Zarnegar B, He JQ, Oganesyan G, Hoffmann A, Baltimore D, Cheng G. PMID: 15148378; PMCID: PMC419565.
      View in: PubMed   Mentions: 38     Fields:    Translation:AnimalsCells
    137. Genetic analysis of NF-kappaB/Rel transcription factors defines functional specificities. EMBO J. 2003 Oct 15; 22(20):5530-9. Hoffmann A, Leung TH, Baltimore D. PMID: 14532125; PMCID: PMC213788.
      View in: PubMed   Mentions: 166     Fields:    Translation:AnimalsCells
    138. CK2 Is a C-Terminal IkappaB Kinase Responsible for NF-kappaB Activation during the UV Response. Mol Cell. 2003 Oct; 12(4):829-39. Kato T, Delhase M, Hoffmann A, Karin M. PMID: 14580335.
      View in: PubMed   Mentions: 121     Fields:    Translation:HumansCells
    139. The IkappaB-NF-kappaB signaling module: temporal control and selective gene activation. Science. 2002 Nov 08; 298(5596):1241-5. Hoffmann A, Levchenko A, Scott ML, Baltimore D. PMID: 12424381.
      View in: PubMed   Mentions: 735     Fields:    Translation:HumansAnimalsCells
    140. Cooperation of multiple signaling pathways in CD40-regulated gene expression in B lymphocytes. Proc Natl Acad Sci U S A. 2002 Feb 05; 99(3):1497-502. Dadgostar H, Zarnegar B, Hoffmann A, Qin XF, Truong U, Rao G, Baltimore D, Cheng G. PMID: 11830667; PMCID: PMC122219.
      View in: PubMed   Mentions: 31     Fields:    Translation:AnimalsCells
    Alexander's Networks
    Concepts (541)
    Derived automatically from this person's publications.
    _
    Co-Authors (58)
    People in Profiles who have published with this person.
    _
    Similar People (60)
    People who share similar concepts with this person.
    _
    Same Department
    Search Department
    _