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    Hana El-Samad, PhD

    TitleAssociate Professor
    SchoolUCSF School of Medicine
    DepartmentBiochemistry and Biophysics
    Address1700 4th Street
    San Francisco CA 94158
    Phone415-476-2596
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      Collapse Biography 
      Collapse Awards and Honors
      American Automatic Control Council2011Donald P. Eckman Award
      David and Lucille Packard Foundation2009Packard Fellowship
      University of California, San Francisco2008Grace Boyer Junior Faculty Endowed Chair

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      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.
      List All   |   Timeline
      1. Al-Sady B, Greenstein RA, El-Samad HJ, Braun S, Madhani HD. Sensitive and Quantitative Three-Color Protein Imaging in Fission Yeast Using Spectrally Diverse, Recoded Fluorescent Proteins with Experimentally-Characterized In Vivo Maturation Kinetics. PLoS One. 2016; 11(8):e0159292. PMID: 27479698.
        View in: PubMed
      2. Heimberg G, Bhatnagar R, El-Samad H, Thomson M. Low Dimensionality in Gene Expression Data Enables the Accurate Extraction of Transcriptional Programs from Shallow Sequencing. Cell Syst. 2016 Apr 27; 2(4):239-50. PMID: 27135536.
        View in: PubMed
      3. Chevalier M, Venturelli O, El-Samad H. The Impact of Different Sources of Fluctuations on Mutual Information in Biochemical Networks. PLoS Comput Biol. 2015 Oct; 11(10):e1004462. PMID: 26484538; PMCID: PMC4615624.
      4. Yang J, McCormick MA, Zheng J, Xie Z, Tsuchiya M, Tsuchiyama S, El-Samad H, Ouyang Q, Kaeberlein M, Kennedy BK, Li H. Systematic analysis of asymmetric partitioning of yeast proteome between mother and daughter cells reveals "aging factors" and mechanism of lifespan asymmetry. Proc Natl Acad Sci U S A. 2015 Sep 22; 112(38):11977-82. PMID: 26351681; PMCID: PMC4586869 [Available on 03/22/16].
      5. Venturelli OS, Zuleta I, Murray RM, El-Samad H. Population diversification in a yeast metabolic program promotes anticipation of environmental shifts. PLoS Biol. 2015 Jan; 13(1):e1002042. PMID: 25626086; PMCID: PMC4307983.
      6. Chevalier MW, El-Samad H. A master equation and moment approach for biochemical systems with creation-time-dependent bimolecular rate functions. J Chem Phys. 2014 Dec 7; 141(21):214108. PMID: 25481130; PMCID: PMC4257977 [Available on 12/07/15].
      7. Pincus D, Aranda-Díaz A, Zuleta IA, Walter P, El-Samad H. Delayed Ras/PKA signaling augments the unfolded protein response. Proc Natl Acad Sci U S A. 2014 Oct 14; 111(41):14800-5. PMID: 25275008; PMCID: PMC4205644.
      8. Venugopalan G, Camarillo DB, Webster KD, Reber CD, Sethian JA, Weaver VM, Fletcher DA, El-Samad H, Rycroft CH. Multicellular architecture of malignant breast epithelia influences mechanics. PLoS One. 2014; 9(8):e101955. PMID: 25111489; PMCID: PMC4128597.
      9. Lipinski-Kruszka J, Stewart-Ornstein J, Chevalier MW, El-Samad H. Using dynamic noise propagation to infer causal regulatory relationships in biochemical networks. ACS Synth Biol. 2015 Mar 20; 4(3):258-64. PMID: 24967515; PMCID: PMC4384829.
      10. Zuleta IA, Aranda-Díaz A, Li H, El-Samad H. Dynamic characterization of growth and gene expression using high-throughput automated flow cytometry. Nat Methods. 2014 Apr; 11(4):443-8. PMID: 24608180; PMCID: PMC4016179.
      11. Stewart-Ornstein J, Nelson C, DeRisi J, Weissman JS, El-Samad H. Msn2 coordinates a stoichiometric gene expression program. Curr Biol. 2013 Dec 2; 23(23):2336-45. PMID: 24210615; PMCID: PMC4072881.
      12. Chen S, Harrigan P, Heineike B, Stewart-Ornstein J, El-Samad H. Building robust functionality in synthetic circuits using engineered feedback regulation. Curr Opin Biotechnol. 2013 Aug; 24(4):790-6. PMID: 23566378; PMCID: PMC3732497.
      13. Irannejad R, Tomshine JC, Tomshine JR, Chevalier M, Mahoney JP, Steyaert J, Rasmussen SG, Sunahara RK, El-Samad H, Huang B, von Zastrow M. Conformational biosensors reveal GPCR signalling from endosomes. Nature. 2013 Mar 28; 495(7442):534-8. PMID: 23515162; PMCID: PMC3835555.
      14. Vidal SE, Pincus D, Stewart-Ornstein J, El-Samad H. Formation of subnuclear foci is a unique spatial behavior of mating MAPKs during hyperosmotic stress. Cell Rep. 2013 Feb 21; 3(2):328-34. PMID: 23416049; PMCID: PMC3616637.
      15. Venturelli OS, El-Samad H, Murray RM. Synergistic dual positive feedback loops established by molecular sequestration generate robust bimodal response. Proc Natl Acad Sci U S A. 2012 Nov 27; 109(48):E3324-33. PMID: 23150580; PMCID: PMC3511703.
      16. Fordyce PM, Pincus D, Kimmig P, Nelson CS, El-Samad H, Walter P, DeRisi JL. Basic leucine zipper transcription factor Hac1 binds DNA in two distinct modes as revealed by microfluidic analyses. Proc Natl Acad Sci U S A. 2012 Nov 6; 109(45):E3084-93. PMID: 23054834; PMCID: PMC3494901.
      17. Chevalier MW, El-Samad H. Towards a minimal stochastic model for a large class of diffusion-reactions on biological membranes. J Chem Phys. 2012 Aug 28; 137(8):084103. PMID: 22938214; PMCID: PMC3436915.
      18. Stewart-Ornstein J, Weissman JS, El-Samad H. Cellular noise regulons underlie fluctuations in Saccharomyces cerevisiae. Mol Cell. 2012 Feb 24; 45(4):483-93. PMID: 22365828; PMCID: PMC3327736.
      19. Stewart-Ornstein J, El-Samad H. Stochastic modeling of cellular networks. Methods Cell Biol. 2012; 110:111-37. PMID: 22482947.
        View in: PubMed
      20. Chevalier MW, El-Samad H. A data-integrated method for analyzing stochastic biochemical networks. J Chem Phys. 2011 Dec 7; 135(21):214110. PMID: 22149782; PMCID: PMC3324259.
      21. El-Samad H, Weissman JS. Genetics: Noise rules. Nature. 2011 Dec 8; 480(7376):188-9. PMID: 22158239.
        View in: PubMed
      22. Milias-Argeitis A, Summers S, Stewart-Ornstein J, Zuleta I, Pincus D, El-Samad H, Khammash M, Lygeros J. In silico feedback for in vivo regulation of a gene expression circuit. Nat Biotechnol. 2011 Dec; 29(12):1114-6. PMID: 22057053; PMCID: PMC4565053.
      23. El-Samad H, Madhani HD. Can a systems perspective help us appreciate the biological meaning of small effects? Dev Cell. 2011 Jul 19; 21(1):11-3. PMID: 21763599; PMCID: PMC3615985.
      24. Rubio C, Pincus D, Korennykh A, Schuck S, El-Samad H, Walter P. Homeostatic adaptation to endoplasmic reticulum stress depends on Ire1 kinase activity. J Cell Biol. 2011 Apr 4; 193(1):171-84. PMID: 21444684; PMCID: PMC3082176.
      25. McCullagh E, Seshan A, El-Samad H, Madhani HD. Coordinate control of gene expression noise and interchromosomal interactions in a MAP kinase pathway. Nat Cell Biol. 2010 Oct; 12(10):954-62. PMID: 20852627; PMCID: PMC2948760.
      26. Garcia JF, Dumesic PA, Hartley PD, El-Samad H, Madhani HD. Combinatorial, site-specific requirement for heterochromatic silencing factors in the elimination of nucleosome-free regions. Genes Dev. 2010 Aug 15; 24(16):1758-71. PMID: 20675407; PMCID: PMC2922504.
      27. Pincus D, Chevalier MW, Aragón T, van Anken E, Vidal SE, El-Samad H, Walter P. BiP binding to the ER-stress sensor Ire1 tunes the homeostatic behavior of the unfolded protein response. PLoS Biol. 2010; 8(7):e1000415. PMID: 20625545; PMCID: PMC2897766.
      28. Mélykúti B, August E, Papachristodoulou A, El-Samad H. Discriminating between rival biochemical network models: three approaches to optimal experiment design. BMC Syst Biol. 2010; 4:38. PMID: 20356406; PMCID: PMC2873315.
      29. McCullagh E, Farlow J, Fuller C, Girard J, Lipinski-Kruszka J, Lu D, Noriega T, Rollins G, Spitzer R, Todhunter M, El-Samad H. Not all quiet on the noise front. Nat Chem Biol. 2009 Oct; 5(10):699-704. PMID: 19763097.
        View in: PubMed
      30. Ma W, Trusina A, El-Samad H, Lim WA, Tang C. Defining network topologies that can achieve biochemical adaptation. Cell. 2009 Aug 21; 138(4):760-73. PMID: 19703401; PMCID: PMC3068210.
      31. Chevalier MW, El-Samad H. A rigorous framework for multiscale simulation of stochastic cellular networks. J Chem Phys. 2009 Aug 7; 131(5):054102. PMID: 19673546; PMCID: PMC2736569.
      32. Justman QA, Serber Z, Ferrell JE, El-Samad H, Shokat KM. Tuning the activation threshold of a kinase network by nested feedback loops. Science. 2009 Apr 24; 324(5926):509-12. PMID: 19390045; PMCID: PMC2880456.
      33. Herzmark P, Campbell K, Wang F, Wong K, El-Samad H, Groisman A, Bourne HR. Bound attractant at the leading vs. the trailing edge determines chemotactic prowess. Proc Natl Acad Sci U S A. 2007 Aug 14; 104(33):13349-54. PMID: 17684096; PMCID: PMC1940227.
      34. Kurata H, El-Samad H, Iwasaki R, Ohtake H, Doyle JC, Grigorova I, Gross CA, Khammash M. Module-based analysis of robustness tradeoffs in the heat shock response system. PLoS Comput Biol. 2006 Jul 28; 2(7):e59. PMID: 16863396; PMCID: PMC1523291.
      35. El-Samad H, Khammash M. Regulated degradation is a mechanism for suppressing stochastic fluctuations in gene regulatory networks. Biophys J. 2006 May 15; 90(10):3749-61. PMID: 16500958; PMCID: PMC1440756.
      36. El-Samad H, Kurata H, Doyle JC, Gross CA, Khammash M. Surviving heat shock: control strategies for robustness and performance. Proc Natl Acad Sci U S A. 2005 Feb 22; 102(8):2736-41. PMID: 15668395; PMCID: PMC549435.
      37. El-Samad H, Goff JP, Khammash M. Calcium homeostasis and parturient hypocalcemia: an integral feedback perspective. J Theor Biol. 2002 Jan 7; 214(1):17-29. PMID: 11786029.
        View in: PubMed
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