Michael B Elowitz

Title(s)Assistant Adjunct Professor, Biological Chemistry
SchoolMedicine
Address
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    Collapse Research 
    Collapse Research Activities and Funding
    Dynamics of chromosome organization and chromatin states in single cells
    NIH U01DK127420Sep 19, 2020 - Jun 30, 2025
    Role: Co-Principal Investigator
    Cell targeting with synthetic sense-and-respond protease circuits
    NIH R01EB030015Sep 1, 2020 - May 31, 2024
    Role: Principal Investigator
    MEMOIR: Recording, and in situ readout of cell lineage and transcriptional history
    NIH R01MH116508Sep 20, 2017 - Jun 30, 2022
    Role: Principal Investigator
    Deciphering the Dynamic Notch Signaling Code
    NIH R01HD075335Sep 26, 2012 - Feb 28, 2025
    Role: Principal Investigator
    Genetic Interactions and Synthetic Population Biology
    NIH R01GM086793Sep 1, 2010 - Jun 30, 2015
    Role: Principal Investigator
    Stochastic Pulsing in Microbial Regulation and Differentiation
    NIH R01GM079771Feb 1, 2007 - Jun 30, 2017
    Role: Principal Investigator

    Collapse Bibliographic 
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    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.
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    1. Benchmarked approaches for reconstruction of in vitro cell lineages and in silico models of C. elegans and M. musculus developmental trees. Cell Syst. 2021 Jun 15. Gong W, Granados AA, Hu J, Jones MG, Raz O, Salvador-Martínez I, Zhang H, Chow KK, Kwak IY, Retkute R, Prusokas A, Prusokas A, Khodaverdian A, Zhang R, Rao S, Wang R, Rennert P, Saipradeep VG, Sivadasan N, Rao A, Joseph T, Srinivasan R, Peng J, Han L, Shang X, Garry DJ, Yu T, Chung V, Mason M, Liu Z, Guan Y, Yosef N, Shendure J, Telford MJ, Shapiro E, Elowitz MB, Meyer P. PMID: 34146472.
      View in: PubMed   Mentions:    Fields:    
    2. Programmable protein circuit design. Cell. 2021 Apr 29; 184(9):2284-2301. Chen Z, Elowitz MB. PMID: 33848464.
      View in: PubMed   Mentions:    Fields:    
    3. Imaging cell lineage with a synthetic digital recording system. Science. 2021 04 09; 372(6538). Chow KK, Budde MW, Granados AA, Cabrera M, Yoon S, Cho S, Huang TH, Koulena N, Frieda KL, Cai L, Lois C, Elowitz MB. PMID: 33833095.
      View in: PubMed   Mentions: 1     Fields:    Translation:AnimalsCells
    4. Publisher Correction: In situ readout of DNA barcodes and single base edits facilitated by in vitro transcription. Nat Biotechnol. 2020 Feb; 38(2):245. Askary A, Sanchez-Guardado L, Linton JM, Chadly DM, Budde MW, Cai L, Lois C, Elowitz MB. PMID: 31988471.
      View in: PubMed   Mentions:    Fields:    
    5. In situ readout of DNA barcodes and single base edits facilitated by in vitro transcription. Nat Biotechnol. 2020 01; 38(1):66-75. Askary A, Sanchez-Guardado L, Linton JM, Chadly DM, Budde MW, Cai L, Lois C, Elowitz MB. PMID: 31740838.
      View in: PubMed   Mentions: 8     Fields:    Translation:HumansAnimalsCells
    6. Communication codes in developmental signaling pathways. Development. 2019 06 27; 146(12). Li P, Elowitz MB. PMID: 31249008.
      View in: PubMed   Mentions: 7     Fields:    Translation:HumansAnimalsCells
    7. Constitutive splicing and economies of scale in gene expression. Nat Struct Mol Biol. 2019 06; 26(6):424-432. Ding F, Elowitz MB. PMID: 31133700.
      View in: PubMed   Mentions: 10     Fields:    Translation:HumansAnimalsCells
    8. Cis-activation in the Notch signaling pathway. Elife. 2019 01 10; 8. Nandagopal N, Santat LA, Elowitz MB. PMID: 30628888.
      View in: PubMed   Mentions: 10     Fields:    Translation:HumansAnimalsCells
    9. A stochastic epigenetic switch controls the dynamics of T-cell lineage commitment. Elife. 2018 11 20; 7. Ng KK, Yui MA, Mehta A, Siu S, Irwin B, Pease S, Hirose S, Elowitz MB, Rothenberg EV, Kueh HY. PMID: 30457103.
      View in: PubMed   Mentions: 21     Fields:    Translation:AnimalsCells
    10. Self-Amplifying Pulsatile Protein Dynamics without Positive Feedback. Cell Syst. 2018 10 24; 7(4):453-462.e1. Martinez-Corral R, Raimundez E, Lin Y, Elowitz MB, Garcia-Ojalvo J. PMID: 30316816.
      View in: PubMed   Mentions: 2     Fields:    Translation:Animals
    11. Programmable protein circuits in living cells. Science. 2018 09 21; 361(6408):1252-1258. Gao XJ, Chong LS, Kim MS, Elowitz MB. PMID: 30237357.
      View in: PubMed   Mentions: 36     Fields:    Translation:Cells
    12. Metabolic interactions between dynamic bacterial subpopulations. Elife. 2018 05 29; 7. Rosenthal AZ, Qi Y, Hormoz S, Park J, Li SH, Elowitz MB. PMID: 29809139.
      View in: PubMed   Mentions: 10     Fields:    Translation:Cells
    13. Morphogen gradient reconstitution reveals Hedgehog pathway design principles. Science. 2018 05 04; 360(6388):543-548. Li P, Markson JS, Wang S, Chen S, Vachharajani V, Elowitz MB. PMID: 29622726.
      View in: PubMed   Mentions: 22     Fields:    Translation:AnimalsCells
    14. Molecular Time Sharing through Dynamic Pulsing in Single Cells. Cell Syst. 2018 Feb 28; 6(2):216-229.e15. Park J, Dies M, Lin Y, Hormoz S, Smith-Unna SE, Quinodoz S, Hernández-Jiménez MJ, Garcia-Ojalvo J, Locke JCW, Elowitz MB. PMID: 29454936.
      View in: PubMed   Mentions: 9     Fields:    Translation:Cells
    15. Dynamic Ligand Discrimination in the Notch Signaling Pathway. Cell. 2018 02 08; 172(4):869-880.e19. Nandagopal N, Santat LA, LeBon L, Sprinzak D, Bronner ME, Elowitz MB. PMID: 29398116.
      View in: PubMed   Mentions: 67     Fields:    Translation:HumansAnimalsCells
    16. Combinatorial Signal Perception in the BMP Pathway. Cell. 2017 Sep 07; 170(6):1184-1196.e24. Antebi YE, Linton JM, Klumpe H, Bintu B, Gong M, Su C, McCardell R, Elowitz MB. PMID: 28886385.
      View in: PubMed   Mentions: 41     Fields:    Translation:AnimalsCells
    17. Challenges and emerging directions in single-cell analysis. Genome Biol. 2017 05 08; 18(1):84. Yuan GC, Cai L, Elowitz M, Enver T, Fan G, Guo G, Irizarry R, Kharchenko P, Kim J, Orkin S, Quackenbush J, Saadatpour A, Schroeder T, Shivdasani R, Tirosh I. PMID: 28482897.
      View in: PubMed   Mentions: 62     Fields:    Translation:HumansAnimals
    18. An operational view of intercellular signaling pathways. Curr Opin Syst Biol. 2017 Feb; 1:16-24. Antebi YE, Nandagopal N, Elowitz MB. PMID: 29104946.
      View in: PubMed   Mentions:
    19. Inferring Cell-State Transition Dynamics from Lineage Trees and Endpoint Single-Cell Measurements. Cell Syst. 2016 11 23; 3(5):419-433.e8. Hormoz S, Singer ZS, Linton JM, Antebi YE, Shraiman BI, Elowitz MB. PMID: 27883889.
      View in: PubMed   Mentions: 17     Fields:    Translation:AnimalsCells
    20. Synthetic recording and in situ readout of lineage information in single cells. Nature. 2017 01 05; 541(7635):107-111. Frieda KL, Linton JM, Hormoz S, Choi J, Chow KK, Singer ZS, Budde MW, Elowitz MB, Cai L. PMID: 27869821.
      View in: PubMed   Mentions: 67     Fields:    Translation:AnimalsCells
    21. Synthetic biology: Precision timing in a cell. Nature. 2016 10 27; 538(7626):462-463. Gao XJ, Elowitz MB. PMID: 27732579.
      View in: PubMed   Mentions: 1     Fields:    Translation:Humans
    22. Asynchronous combinatorial action of four regulatory factors activates Bcl11b for T cell commitment. Nat Immunol. 2016 08; 17(8):956-65. Kueh HY, Yui MA, Ng KK, Pease SS, Zhang JA, Damle SS, Freedman G, Siu S, Bernstein ID, Elowitz MB, Rothenberg EV. PMID: 27376470.
      View in: PubMed   Mentions: 58     Fields:    Translation:AnimalsCells
    23. Central Dogma Goes Digital. Mol Cell. 2016 Mar 17; 61(6):791-2. Lin Y, Elowitz MB. PMID: 26990983.
      View in: PubMed   Mentions: 1     Fields:    Translation:HumansAnimals
    24. Dynamics of epigenetic regulation at the single-cell level. Science. 2016 Feb 12; 351(6274):720-4. Bintu L, Yong J, Antebi YE, McCue K, Kazuki Y, Uno N, Oshimura M, Elowitz MB. PMID: 26912859.
      View in: PubMed   Mentions: 103     Fields:    Translation:HumansAnimalsCells
    25. Combinatorial gene regulation by modulation of relative pulse timing. Nature. 2015 Nov 05; 527(7576):54-8. Lin Y, Sohn CH, Dalal CK, Cai L, Elowitz MB. PMID: 26466562.
      View in: PubMed   Mentions: 40     Fields:    Translation:AnimalsCells
    26. Single-cell transcriptome analysis reveals dynamic changes in lncRNA expression during reprogramming. Cell Stem Cell. 2015 Jan 08; 16(1):88-101. Kim DH, Marinov GK, Pepke S, Singer ZS, He P, Williams B, Schroth GP, Elowitz MB, Wold BJ. PMID: 25575081.
      View in: PubMed   Mentions: 58     Fields:    Translation:AnimalsCells
    27. Synthetic biology of multicellular systems: new platforms and applications for animal cells and organisms. ACS Synth Biol. 2014 Dec 19; 3(12):875-6. Markson JS, Elowitz MB. PMID: 25524091.
      View in: PubMed   Mentions: 2     Fields:    Translation:HumansAnimals
    28. Polyphasic feedback enables tunable cellular timers. Curr Biol. 2014 Oct 20; 24(20):R994-5. Levine JH, Elowitz MB. PMID: 25442853.
      View in: PubMed   Mentions: 6     Fields:    Translation:AnimalsCells
    29. Fringe proteins modulate Notch-ligand cis and trans interactions to specify signaling states. Elife. 2014 Sep 25; 3:e02950. LeBon L, Lee TV, Sprinzak D, Jafar-Nejad H, Elowitz MB. PMID: 25255098.
      View in: PubMed   Mentions: 57     Fields:    Translation:AnimalsCells
    30. Pulsatile dynamics in the yeast proteome. Curr Biol. 2014 Sep 22; 24(18):2189-2194. Dalal CK, Cai L, Lin Y, Rahbar K, Elowitz MB. PMID: 25220054.
      View in: PubMed   Mentions: 27     Fields:    Translation:Animals
    31. Dynamic heterogeneity and DNA methylation in embryonic stem cells. Mol Cell. 2014 Jul 17; 55(2):319-31. Singer ZS, Yong J, Tischler J, Hackett JA, Altinok A, Surani MA, Cai L, Elowitz MB. PMID: 25038413.
      View in: PubMed   Mentions: 114     Fields:    Translation:AnimalsCells
    32. Brf1 posttranscriptionally regulates pluripotency and differentiation responses downstream of Erk MAP kinase. Proc Natl Acad Sci U S A. 2014 Apr 29; 111(17):E1740-8. Tan FE, Elowitz MB. PMID: 24733888.
      View in: PubMed   Mentions: 8     Fields:    Translation:AnimalsCells
    33. Realizing the potential of synthetic biology. Nat Rev Mol Cell Biol. 2014 04; 15(4):289-94. Church GM, Elowitz MB, Smolke CD, Voigt CA, Weiss R. PMID: 24622617.
      View in: PubMed   Mentions: 44     Fields:    Translation:Humans
    34. Functional roles of pulsing in genetic circuits. Science. 2013 Dec 06; 342(6163):1193-200. Levine JH, Lin Y, Elowitz MB. PMID: 24311681.
      View in: PubMed   Mentions: 123     Fields:    Translation:AnimalsCells
    35. Positive feedback between PU.1 and the cell cycle controls myeloid differentiation. Science. 2013 Aug 09; 341(6146):670-3. Kueh HY, Champhekar A, Champhekhar A, Nutt SL, Elowitz MB, Rothenberg EV. PMID: 23868921.
      View in: PubMed   Mentions: 109     Fields:    Translation:AnimalsCells
    36. Rate of environmental change determines stress response specificity. Proc Natl Acad Sci U S A. 2013 Mar 05; 110(10):4140-5. Young JW, Locke JC, Elowitz MB. PMID: 23407164.
      View in: PubMed   Mentions: 53     Fields:    Translation:Cells
    37. Pulsed feedback defers cellular differentiation. PLoS Biol. 2012 Jan; 10(1):e1001252. Levine JH, Fontes ME, Dworkin J, Elowitz MB. PMID: 22303282.
      View in: PubMed   Mentions: 59     Fields:    Translation:Cells
    38. Following evolution of bacterial antibiotic resistance in real time. Nat Genet. 2011 Dec 27; 44(1):11-3. Rosenthal AZ, Elowitz MB. PMID: 22200772.
      View in: PubMed   Mentions: 3     Fields:    
    39. Measuring single-cell gene expression dynamics in bacteria using fluorescence time-lapse microscopy. Nat Protoc. 2011 Dec 15; 7(1):80-8. Young JW, Locke JC, Altinok A, Rosenfeld N, Bacarian T, Swain PS, Mjolsness E, Elowitz MB. PMID: 22179594.
      View in: PubMed   Mentions: 105     Fields:    Translation:Cells
    40. Stochastic pulse regulation in bacterial stress response. Science. 2011 Oct 21; 334(6054):366-9. Locke JC, Young JW, Fontes M, Hernández Jiménez MJ, Elowitz MB. PMID: 21979936.
      View in: PubMed   Mentions: 84     Fields:    Translation:Cells
    41. The ePetri dish, an on-chip cell imaging platform based on subpixel perspective sweeping microscopy (SPSM). Proc Natl Acad Sci U S A. 2011 Oct 11; 108(41):16889-94. Zheng G, Lee SA, Antebi Y, Elowitz MB, Yang C. PMID: 21969539.
      View in: PubMed   Mentions: 44     Fields:    Translation:HumansAnimalsCells
    42. Dynamical consequences of bandpass feedback loops in a bacterial phosphorelay. PLoS One. 2011; 6(9):e25102. Sen S, Garcia-Ojalvo J, Elowitz MB. PMID: 21980382.
      View in: PubMed   Mentions: 12     Fields:    Translation:Cells
    43. Synthetic biology: integrated gene circuits. Science. 2011 Sep 02; 333(6047):1244-8. Nandagopal N, Elowitz MB. PMID: 21885772.
      View in: PubMed   Mentions: 67     Fields:    Translation:AnimalsCells
    44. Mutual inactivation of Notch receptors and ligands facilitates developmental patterning. PLoS Comput Biol. 2011 Jun; 7(6):e1002069. Sprinzak D, Lakhanpal A, LeBon L, Garcia-Ojalvo J, Elowitz MB. PMID: 21695234.
      View in: PubMed   Mentions: 41     Fields:    Translation:Animals
    45. Mixed messages: how bacteria resolve conflicting signals. Mol Cell. 2011 May 20; 42(4):405-6. Young JW, Elowitz MB. PMID: 21596304.
      View in: PubMed   Mentions:    Fields:    
    46. Build life to understand it. Nature. 2010 Dec 16; 468(7326):889-90. Elowitz M, Lim WA. PMID: 21164460.
      View in: PubMed   Mentions: 51     Fields:    Translation:Animals
    47. A general mechanism for network-dosage compensation in gene circuits. Science. 2010 Sep 24; 329(5999):1656-60. Acar M, Pando BF, Arnold FH, Elowitz MB, van Oudenaarden A. PMID: 20929850.
      View in: PubMed   Mentions: 54     Fields:    Translation:AnimalsCells
    48. Functional roles for noise in genetic circuits. Nature. 2010 Sep 09; 467(7312):167-73. Eldar A, Elowitz MB. PMID: 20829787.
      View in: PubMed   Mentions: 474     Fields:    Translation:HumansAnimals
    49. A synthetic three-color scaffold for monitoring genetic regulation and noise. J Biol Eng. 2010 Jul 21; 4:10. Cox RS, Dunlop MJ, Elowitz MB. PMID: 20646328.
      View in: PubMed   Mentions:
    50. Cis-interactions between Notch and Delta generate mutually exclusive signalling states. Nature. 2010 May 06; 465(7294):86-90. Sprinzak D, Lakhanpal A, Lebon L, Santat LA, Fontes ME, Anderson GA, Garcia-Ojalvo J, Elowitz MB. PMID: 20418862.
      View in: PubMed   Mentions: 220     Fields:    Translation:HumansAnimalsCells
    51. Architecture-dependent noise discriminates functionally analogous differentiation circuits. Cell. 2009 Oct 30; 139(3):512-22. Cagatay T, Turcotte M, Elowitz MB, Garcia-Ojalvo J, Süel GM. PMID: 19853288.
      View in: PubMed   Mentions: 106     Fields:    Translation:Cells
    52. Partial penetrance facilitates developmental evolution in bacteria. Nature. 2009 Jul 23; 460(7254):510-4. Eldar A, Chary VK, Xenopoulos P, Fontes ME, Losón OC, Dworkin J, Piggot PJ, Elowitz MB. PMID: 19578359.
      View in: PubMed   Mentions: 50     Fields:    Translation:Cells
    53. Using movies to analyse gene circuit dynamics in single cells. Nat Rev Microbiol. 2009 May; 7(5):383-92. Locke JC, Elowitz MB. PMID: 19369953.
      View in: PubMed   Mentions: 95     Fields:    Translation:Cells
    54. Regulatory activity revealed by dynamic correlations in gene expression noise. Nat Genet. 2008 Dec; 40(12):1493-8. Dunlop MJ, Cox RS, Levine JH, Murray RM, Elowitz MB. PMID: 19029898.
      View in: PubMed   Mentions: 98     Fields:    Translation:Cells
    55. Frequency-modulated nuclear localization bursts coordinate gene regulation. Nature. 2008 Sep 25; 455(7212):485-90. Cai L, Dalal CK, Elowitz MB. PMID: 18818649.
      View in: PubMed   Mentions: 205     Fields:    Translation:AnimalsCells
    56. The evolutionary dynamics of the Saccharomyces cerevisiae protein interaction network after duplication. Proc Natl Acad Sci U S A. 2008 Jan 22; 105(3):950-4. Presser A, Elowitz MB, Kellis M, Kishony R. PMID: 18199840.
      View in: PubMed   Mentions: 24     Fields:    Translation:AnimalsCells
    57. Accurate prediction of gene feedback circuit behavior from component properties. Mol Syst Biol. 2007; 3:143. Rosenfeld N, Young JW, Alon U, Swain PS, Elowitz MB. PMID: 18004276.
      View in: PubMed   Mentions: 25     Fields:    Translation:Cells
    58. Programming gene expression with combinatorial promoters. Mol Syst Biol. 2007; 3:145. Cox RS, Surette MG, Elowitz MB. PMID: 18004278.
      View in: PubMed   Mentions: 138     Fields:    Translation:Cells
    59. Tunability and noise dependence in differentiation dynamics. Science. 2007 Mar 23; 315(5819):1716-9. Süel GM, Kulkarni RP, Dworkin J, Garcia-Ojalvo J, Elowitz MB. PMID: 17379809.
      View in: PubMed   Mentions: 199     Fields:    Translation:Cells
    60. A fluctuation method to quantify in vivo fluorescence data. Biophys J. 2006 Jul 15; 91(2):759-66. Rosenfeld N, Perkins TJ, Alon U, Elowitz MB, Swain PS. PMID: 16648159.
      View in: PubMed   Mentions: 31     Fields:    Translation:Cells
    61. An excitable gene regulatory circuit induces transient cellular differentiation. Nature. 2006 Mar 23; 440(7083):545-50. Süel GM, Garcia-Ojalvo J, Liberman LM, Elowitz MB. PMID: 16554821.
      View in: PubMed   Mentions: 250     Fields:    Translation:Cells
    62. Reconstruction of genetic circuits. Nature. 2005 Nov 24; 438(7067):443-8. Sprinzak D, Elowitz MB. PMID: 16306982.
      View in: PubMed   Mentions: 102     Fields:    Translation:Animals
    63. Systems biology: deviations in mating. Nature. 2005 Sep 29; 437(7059):631-2. Eldar A, Elowitz M. PMID: 16193031.
      View in: PubMed   Mentions: 2     Fields:    Translation:AnimalsCells
    64. Gene regulation at the single-cell level. Science. 2005 Mar 25; 307(5717):1962-5. Rosenfeld N, Young JW, Alon U, Swain PS, Elowitz MB. PMID: 15790856.
      View in: PubMed   Mentions: 394     Fields:    Translation:Cells
    65. Modeling a synthetic multicellular clock: repressilators coupled by quorum sensing. Proc Natl Acad Sci U S A. 2004 Jul 27; 101(30):10955-60. Garcia-Ojalvo J, Elowitz MB, Strogatz SH. PMID: 15256602.
      View in: PubMed   Mentions: 97     Fields:    Translation:Cells
    66. Dynamics of the p53-Mdm2 feedback loop in individual cells. Nat Genet. 2004 Feb; 36(2):147-50. Lahav G, Rosenfeld N, Sigal A, Geva-Zatorsky N, Levine AJ, Elowitz MB, Alon U. PMID: 14730303.
      View in: PubMed   Mentions: 339     Fields:    Translation:HumansCells
    67. The presence of p53 mutations in human osteosarcomas correlates with high levels of genomic instability. Proc Natl Acad Sci U S A. 2003 Sep 30; 100(20):11547-52. Overholtzer M, Rao PH, Favis R, Lu XY, Elowitz MB, Barany F, Ladanyi M, Gorlick R, Levine AJ. PMID: 12972634.
      View in: PubMed   Mentions: 69     Fields:    Translation:HumansCells
    68. Negative autoregulation speeds the response times of transcription networks. J Mol Biol. 2002 Nov 08; 323(5):785-93. Rosenfeld N, Elowitz MB, Alon U. PMID: 12417193.
      View in: PubMed   Mentions: 228     Fields:    Translation:Cells
    69. Intrinsic and extrinsic contributions to stochasticity in gene expression. Proc Natl Acad Sci U S A. 2002 Oct 01; 99(20):12795-800. Swain PS, Elowitz MB, Siggia ED. PMID: 12237400.
      View in: PubMed   Mentions: 480     Fields:    Translation:Cells
    70. Stochastic gene expression in a single cell. Science. 2002 Aug 16; 297(5584):1183-6. Elowitz MB, Levine AJ, Siggia ED, Swain PS. PMID: 12183631.
      View in: PubMed   Mentions: 1588     Fields:    Translation:Cells
    71. Combinatorial synthesis of genetic networks. Science. 2002 May 24; 296(5572):1466-70. Guet CC, Elowitz MB, Hsing W, Leibler S. PMID: 12029133.
      View in: PubMed   Mentions: 157     Fields:    Translation:Cells
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