Hana El-Samad - Publications

Affiliations: 
Cell Biology University of California, San Francisco, San Francisco, CA 
Area:
Cell Biology, General Biophysics

57 high-probability publications. We are testing a new system for linking publications to authors. You can help! If you notice any inaccuracies, please sign in and mark papers as correct or incorrect matches. If you identify any major omissions or other inaccuracies in the publication list, please let us know.

Year Citation  Score
2024 Kim MS, Bhargava HK, Shavey GE, Lim WA, El-Samad H, Ng AH. Degron-based bioPROTACs for controlling signaling in CAR T cells. Biorxiv : the Preprint Server For Biology. PMID 38405763 DOI: 10.1101/2024.02.16.580396  0.753
2024 Weinberg ZY, Soliman SS, Kim MS, Chen IP, Ott M, El-Samad H. -designed minibinders expand the synthetic biology sensing repertoire. Biorxiv : the Preprint Server For Biology. PMID 38293112 DOI: 10.1101/2024.01.12.575267  0.72
2022 Allen GM, Frankel NW, Reddy NR, Bhargava HK, Yoshida MA, Stark SR, Purl M, Lee J, Yee JL, Yu W, Li AW, Garcia KC, El-Samad H, Roybal KT, Spitzer MH, et al. Synthetic cytokine circuits that drive T cells into immune-excluded tumors. Science (New York, N.Y.). 378: eaba1624. PMID 36520915 DOI: 10.1126/science.aba1624  0.727
2021 Woodall NB, Weinberg Z, Park J, Busch F, Johnson RS, Feldbauer MJ, Murphy M, Ahlrichs M, Yousif I, MacCoss MJ, Wysocki VH, El-Samad H, Baker D. De novo design of tyrosine and serine kinase-driven protein switches. Nature Structural & Molecular Biology. 28: 762-770. PMID 34518698 DOI: 10.1038/s41594-021-00649-8  0.717
2021 Weinberg ZY, Hilburger CE, Kim M, Cao L, Khalid M, Elmes S, Diwanji D, Hernandez E, Lopez J, Schaefer K, Smith AM, Zhou F, Renuka Kumar G, Ott M, ... ... El-Samad H, et al. Sentinel cells enable genetic detection of SARS-CoV-2 Spike protein. Biorxiv : the Preprint Server For Biology. PMID 33907743 DOI: 10.1101/2021.04.20.440678  0.733
2020 Chen SY, Osimiri LC, Chevalier M, Bugaj LJ, Nguyen TH, Greenstein RA, Ng AH, Stewart-Ornstein J, Neves LT, El-Samad H. Optogenetic Control Reveals Differential Promoter Interpretation of Transcription Factor Nuclear Translocation Dynamics. Cell Systems. PMID 32898473 DOI: 10.1016/J.Cels.2020.08.009  0.325
2020 Chen Z, Kibler RD, Hunt A, Busch F, Pearl J, Jia M, VanAernum ZL, Wicky BIM, Dods G, Liao H, Wilken MS, Ciarlo C, Green S, El-Samad H, Stamatoyannopoulos J, et al. De novo design of protein logic gates. Science (New York, N.Y.). 368: 78-84. PMID 32241946 DOI: 10.1126/Science.Aay2790  0.362
2020 Mace K, Krakowiak J, El-Samad H, Pincus D. Multi-kinase control of environmental stress responsive transcription. Plos One. 15: e0230246. PMID 32160258 DOI: 10.1371/Journal.Pone.0230246  0.575
2019 Dalal CK, Zuleta IA, Lohse MB, Zordan RE, El-Samad H, Johnson AD. A population shift between two heritable cell types of the pathogen is based both on switching and selective proliferation. Proceedings of the National Academy of Sciences of the United States of America. PMID 31822605 DOI: 10.1073/Pnas.1908986116  0.321
2019 Langan RA, Boyken SE, Ng AH, Samson JA, Dods G, Westbrook AM, Nguyen TH, Lajoie MJ, Chen Z, Berger S, Mulligan VK, Dueber JE, Novak WRP, El-Samad H, Baker D. De novo design of bioactive protein switches. Nature. PMID 31341284 DOI: 10.1038/S41586-019-1432-8  0.338
2019 Ng AH, Nguyen TH, Gómez-Schiavon M, Dods G, Langan RA, Boyken SE, Samson JA, Waldburger LM, Dueber JE, Baker D, El-Samad H. Modular and tunable biological feedback control using a de novo protein switch. Nature. PMID 31341280 DOI: 10.1038/S41586-019-1425-7  0.389
2018 Harrigan P, Madhani HD, El-Samad H. Real-Time Genetic Compensation Defines the Dynamic Demands of Feedback Control. Cell. 175: 877-886.e10. PMID 30340045 DOI: 10.1016/J.Cell.2018.09.044  0.362
2017 Stewart-Ornstein J, Chen S, Bhatnagar R, Weissman JS, El-Samad H. Model-guided optogenetic study of PKA signaling in budding yeast. Molecular Biology of the Cell. 28: 221-227. PMID 28035051 DOI: 10.1091/Mbc.E16-06-0354  0.366
2016 Aranda-Diaz A, Mace K, Zuleta I, Harrigan P, El-Samad H. Robust synthetic circuits for two-dimensional control of gene expression in yeast. Acs Synthetic Biology. PMID 27930885 DOI: 10.1021/Acssynbio.6B00251  0.352
2016 Dalal CK, Zuleta IA, Mitchell KF, Andes DR, El-Samad H, Johnson AD. Transcriptional rewiring over evolutionary timescales changes quantitative and qualitative properties of gene expression. Elife. 5. PMID 27614020 DOI: 10.7554/Elife.18981  0.327
2016 Bhatnagar R, El-Samad H. Tradeoffs in adapting biological systems European Journal of Control. DOI: 10.1016/J.Ejcon.2016.04.010  0.332
2015 Chevalier M, Venturelli O, El-Samad H. The Impact of Different Sources of Fluctuations on Mutual Information in Biochemical Networks. Plos Computational Biology. 11: e1004462. PMID 26484538 DOI: 10.1371/Journal.Pcbi.1004462  0.335
2015 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. Proceedings of the National Academy of Sciences of the United States of America. 112: 11977-82. PMID 26351681 DOI: 10.1073/Pnas.1506054112  0.329
2015 Lipinski-Kruszka J, Stewart-Ornstein J, Chevalier MW, El-Samad H. Using dynamic noise propagation to infer causal regulatory relationships in biochemical networks. Acs Synthetic Biology. 4: 258-64. PMID 24967515 DOI: 10.1021/Sb5000059  0.712
2014 Pincus D, Aranda-Díaz A, Zuleta IA, Walter P, El-Samad H. Delayed Ras/PKA signaling augments the unfolded protein response. Proceedings of the National Academy of Sciences of the United States of America. 111: 14800-5. PMID 25275008 DOI: 10.1073/Pnas.1409588111  0.643
2014 Zuleta IA, Aranda-Díaz A, Li H, El-Samad H. Dynamic characterization of growth and gene expression using high-throughput automated flow cytometry. Nature Methods. 11: 443-8. PMID 24608180 DOI: 10.1038/Nmeth.2879  0.327
2014 Bhatnagar R, El-Samad H. Sensitivity Analysis and Model Reduction Applied to Adapting Biological Systems Biophysical Journal. 106: 3-7. DOI: 10.1016/J.Bpj.2013.11.2136  0.307
2013 Stewart-Ornstein J, Nelson C, DeRisi J, Weissman JS, El-Samad H. Msn2 coordinates a stoichiometric gene expression program. Current Biology : Cb. 23: 2336-45. PMID 24210615 DOI: 10.1016/J.Cub.2013.09.043  0.321
2013 Chen S, Harrigan P, Heineike B, Stewart-Ornstein J, El-Samad H. Building robust functionality in synthetic circuits using engineered feedback regulation. Current Opinion in Biotechnology. 24: 790-6. PMID 23566378 DOI: 10.1016/J.Copbio.2013.02.025  0.338
2013 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. 495: 534-8. PMID 23515162 DOI: 10.1038/Nature12000  0.304
2013 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 Reports. 3: 328-34. PMID 23416049 DOI: 10.1016/J.Celrep.2013.01.022  0.553
2012 Venturelli OS, El-Samad H, Murray RM. Synergistic dual positive feedback loops established by molecular sequestration generate robust bimodal response. Proceedings of the National Academy of Sciences of the United States of America. 109: E3324-33. PMID 23150580 DOI: 10.1073/Pnas.1211902109  0.368
2012 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. Proceedings of the National Academy of Sciences of the United States of America. 109: E3084-93. PMID 23054834 DOI: 10.1073/Pnas.1212457109  0.613
2012 Stewart-Ornstein J, El-Samad H. Stochastic modeling of cellular networks. Methods in Cell Biology. 110: 111-37. PMID 22482947 DOI: 10.1016/B978-0-12-388403-9.00005-9  0.38
2012 Stewart-Ornstein J, Weissman JS, El-Samad H. Cellular noise regulons underlie fluctuations in Saccharomyces cerevisiae. Molecular Cell. 45: 483-93. PMID 22365828 DOI: 10.1016/J.Molcel.2011.11.035  0.4
2012 Paluch E, El-Samad H. Modeling and simulation of cellular functions Molecular Biology of the Cell. 23: 972. DOI: 10.1091/Mbc.E11-12-0968  0.369
2011 El-Samad H, Weissman JS. Genetics: Noise rules. Nature. 480: 188-9. PMID 22158239 DOI: 10.1038/480188A  0.301
2011 Chevalier MW, El-Samad H. A data-integrated method for analyzing stochastic biochemical networks. The Journal of Chemical Physics. 135: 214110. PMID 22149782 DOI: 10.1063/1.3664126  0.318
2011 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. Nature Biotechnology. 29: 1114-6. PMID 22057053 DOI: 10.1038/Nbt.2018  0.67
2011 Rubio C, Pincus D, Korennykh A, Schuck S, El-Samad H, Walter P. Homeostatic adaptation to endoplasmic reticulum stress depends on Ire1 kinase activity. The Journal of Cell Biology. 193: 171-84. PMID 21444684 DOI: 10.1083/Jcb.201007077  0.65
2011 El-Samad H. Homeostatic Regulation of the Unfolded Protein Response Biophysical Journal. 100. DOI: 10.1016/J.Bpj.2010.12.1153  0.374
2010 McCullagh E, Seshan A, El-Samad H, Madhani HD. Coordinate control of gene expression noise and interchromosomal interactions in a MAP kinase pathway. Nature Cell Biology. 12: 954-62. PMID 20852627 DOI: 10.1038/Ncb2097  0.403
2010 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 Biology. 8: e1000415. PMID 20625545 DOI: 10.1371/Journal.Pbio.1000415  0.633
2010 El-Samad H, Khammash M. Modelling and analysis of gene regulatory network using feedback control theory International Journal of Systems Science. 41: 17-33. DOI: 10.1080/00207720903144545  0.577
2009 Arkin A, Berry D, Church G, Arnold F, Boldt J, Müller O, Ellington AD, Endy D, Fussenegger M, Gold ER, Greenwood J, Lee SY, Lim W, Minshull J, Murray TH, ... ... El-Samad H, et al. What's in a name? Nature Biotechnology. 27: 1071-1073. PMID 20010573 DOI: 10.1038/nbt1209-1071  0.422
2009 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. Nature Chemical Biology. 5: 699-704. PMID 19763097 DOI: 10.1038/Nchembio.222  0.711
2009 Ma W, Trusina A, El-Samad H, Lim WA, Tang C. Defining network topologies that can achieve biochemical adaptation. Cell. 138: 760-73. PMID 19703401 DOI: 10.1016/J.Cell.2009.06.013  0.564
2009 Chevalier MW, El-Samad H. A rigorous framework for multiscale simulation of stochastic cellular networks. The Journal of Chemical Physics. 131: 054102. PMID 19673546 DOI: 10.1063/1.3190327  0.321
2009 Justman QA, Serber Z, Ferrell JE, El-Samad H, Shokat KM. Tuning the activation threshold of a kinase network by nested feedback loops. Science (New York, N.Y.). 324: 509-12. PMID 19390045 DOI: 10.1126/Science.1169498  0.35
2006 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 Computational Biology. 2: e59. PMID 16863396 DOI: 10.1371/Journal.Pcbi.0020059  0.555
2006 El-Samad H, Khammash M. Regulated degradation is a mechanism for suppressing stochastic fluctuations in gene regulatory networks. Biophysical Journal. 90: 3749-61. PMID 16500958 DOI: 10.1529/Biophysj.105.060491  0.624
2006 El-Samad H, Prajna S, Papachristodoulou A, Doyle J, Khammash M. Advanced methods and algorithms for biological networks analysis Proceedings of the Ieee. 94: 832-852. DOI: 10.1109/JPROC.2006.871776  0.458
2006 El-Samad H, Khammash M. Coherence resonance: A mechanism for noise induced stable oscillations in gene regulatory networks Proceedings of the Ieee Conference On Decision and Control. 2382-2387.  0.544
2005 El-Samad H, Kurata H, Doyle JC, Gross CA, Khammash M. Surviving heat shock: control strategies for robustness and performance. Proceedings of the National Academy of Sciences of the United States of America. 102: 2736-41. PMID 15668395 DOI: 10.1073/Pnas.0403510102  0.583
2004 Khammash M, El-Samad H. Systems biology: From physiology to gene regulation Ieee Control Systems Magazine. 24: 62-76. DOI: 10.1109/Mcs.2004.1316654  0.564
2004 El-Samad H, Khammash M. Intrinsic noise rejection in gene networks by regulation of stability International Symposium On Control, Communications and Signal Processing, Isccsp. 187-190.  0.567
2003 El-Samad H, Prajna S, Papachristodoulou A, Khammash M, Doyle JC. Model Validation and Robust Stability Analysis of the Bacterial Heat Shock Response Using SOSTOOLS Proceedings of the Ieee Conference On Decision and Control. 4: 3766-3771.  0.452
2002 El-Samad H, Goff JP, Khammash M. Calcium homeostasis and parturient hypocalcemia: an integral feedback perspective. Journal of Theoretical Biology. 214: 17-29. PMID 11786029 DOI: 10.1006/Jtbi.2001.2422  0.521
2002 El-Samad H, Khammash M, Kurata H, Doyle J. Robustness analysis of the heat shock response in E. coli Proceedings of the American Control Conference. 3: 1742-1747.  0.499
2001 Kurata i, El-Samad H, Yi TM, Khammash M, Doyle J. Feedback regulation of the heat shock response in E. coli Proceedings of the Ieee Conference On Decision and Control. 1: 837-842.  0.506
2000 El-Samad H, Khammash M. Feedback analysis of calcium homeostasis and parturient paresis Proceedings - Ieee International Symposium On Bio-Informatics and Biomedical Engineering, Bibe 2000. 365-369. DOI: 10.1109/BIBE.2000.889629  0.435
2000 El-Samad H, Khammash M, Goff J. Calcium homeostasis: a feedback control point of view Proceedings of the American Control Conference. 5: 2962-2966.  0.464
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