Elowitz, Michael

Combined from CaltechAUTHORS

• Xia, Shiyu and Lu, Andrew C., et el. (2024) Synthetic protein circuits for programmable control of mammalian cell death; Cell; Vol. 187; No. 11; 2785-2800.e16; PMCID PMC11127782; 10.1016/j.cell.2024.03.031
• Tran, Martin and Askary, Amjad, et el. (2024) Lineage motifs as developmental modules for control of cell type proportions; Developmental Cell; Vol. 59; No. 6; 812-826.e3; PMCID PMC10910499
• Flynn, Michael James and Mayfield, Acacia M., et el. (2024) Synthetic dosage-compensating miRNA circuits allow precision gene therapy for Rett syndrome; bioRxiv; 2024.03.13.584179; PMCID PMC10980028; 10.1101/2024.03.13.584179
• Du, Rongrong and Flynn, Michael J., et el. (2024) miRNA circuit modules for precise, tunable control of gene expression; bioRxiv; 2024.03.12.583048; PMCID PMC10979901; 10.1101/2024.03.12.583048
• Granados, Alejandro A. and Kanrar, Nivedita, et el. (2024) Combinatorial expression motifs in signaling pathways; Cell Genomics; Vol. 4; No. 1; 100463; PMCID PMC10794782; 10.1016/j.xgen.2023.100463
• Ma, Yitong and Budde, Mark W., et el. (2023) Tuning Methylation-Dependent Silencing Dynamics by Synthetic Modulation of CpG Density; ACS Synthetic Biology; Vol. 12; No. 9; 2536-2545; PMCID PMC10510725; 10.1021/acssynbio.3c00078
• Horns, Felix and Martinez, Joe A., et el. (2023) Engineering RNA export for measurement and manipulation of living cells; Cell; Vol. 186; No. 17; 3642-3658.e32; PMCID PMC10528933; 10.1016/j.cell.2023.06.013
• Tran, Martin and Askary, Amjad, et el. (2023) Lineage motifs: developmental modules for control of cell type proportions; PMCID PMC10274800; 10.1101/2023.06.06.543925
• Zhu, Ronghui and Santat, Leah A., et el. (2023) Reconstitution of morphogen shuttling circuits; Science Advances; Vol. 9; No. 28; eadf9336; PMCID PMC10337948; 10.1126/sciadv.adf9336
• Klumpe, Heidi E. and Garcia-Ojalvo, Jordi, et el. (2023) The computational capabilities of many-to-many protein interaction networks; Cell Systems; Vol. 14; No. 6; 430-446; PMCID PMC10318606; 10.1016/j.cels.2023.05.001
• Kong, Qing and Xia, Shiyu, et el. (2023) Alternative splicing of GSDMB modulates killer lymphocyte-triggered pyroptosis; Science Immunology; Vol. 8; No. 82; Art. No. eadg3196; PMCID PMC10338320; 10.1126/sciimmunol.adg3196
• Cabrera, Alan and Edelstein, Hailey I., et el. (2022) The sound of silence: Transgene silencing in mammalian cell engineering; Cell Systems; Vol. 13; No. 12; 950-973; PMCID PMC9880859; 10.1016/j.cels.2022.11.005
• Wang, Sheng and Garcia-Ojalvo, Jordi, et el. (2022) Periodic spatial patterning with a single morphogen; Cell Systems; Vol. 13; No. 12; 1033-1047.e7; 10.1016/j.cels.2022.11.001
• Amadei, Gianluca and Handford, Charlotte E., et el. (2022) Embryo model completes gastrulation to neurulation and organogenesis; Nature; Vol. 610; No. 7930; 143-153; PMCID PMC9534772; 10.1038/s41586-022-05246-3
• Granados, Alejandro A. and Kanrar, Nivedita, et el. (2022) Combinatorial expression motifs in signaling pathways; 10.1101/2022.08.21.504714
• Chen, Zibo and Linton, James M., et el. (2022) A synthetic protein-level neural network in mammalian cells; 10.1101/2022.07.10.499405
• Ding, Fangyuan and Su, Christina J., et el. (2022) Dynamics and functional roles of splicing factor autoregulation; Cell Reports; Vol. 39; No. 12; Art. No. 110985; PMCID PMC9262138; 10.1016/j.celrep.2022.110985
• Su, Christina J. and Murugan, Arvind, et el. (2022) Ligand-receptor promiscuity enables cellular addressing; Cell Systems; Vol. 13; No. 5; 408-425; PMCID PMC10897978; 10.1016/j.cels.2022.03.001
• Klumpe, Heidi E. and Langley, Matthew A., et el. (2022) The context-dependent, combinatorial logic of BMP signaling; Cell Systems; Vol. 13; No. 5; 388-407; PMCID PMC9127470; 10.1016/j.cels.2022.03.002
• Wang, Sheng and Garcia-Ojalvo, Jordi, et el. (2022) Periodic spatial patterning with a single morphogen; 10.1101/2022.03.21.484932
• Ma, Yitong and Budde, Mark W., et el. (2022) Synthetic mammalian signaling circuits for robust cell population control; Cell; Vol. 185; No. 6; 967-979; PMCID PMC8995209; 10.1016/j.cell.2022.01.026
• Vlahos, Alexander E. and Kang, Jeewoo, et el. (2022) Protease-controlled secretion and display of intercellular signals; Nature Communications; Vol. 13; Art. No. 912; PMCID PMC8854555; 10.1038/s41467-022-28623-y
• Zhu, Ronghui and del Rio-Salgado, Jesus M., et el. (2022) Synthetic multistability in mammalian cells; Science; Vol. 375; No. 6578; Art. No. eabg9765; 10.1126/science.abg9765
• Cable, Jennifer and Elowitz, Michael B., et el. (2021) Single cell biology—a Keystone Symposia report; Annals of the New York Academy of Sciences; Vol. 1506; 74-97; 10.1111/nyas.14692
• Xu, Shuhui and Li, Kai, et el. (2021) Ratiometric RNA labeling allows dynamic multiplexed analysis of gene circuits in single cells; 10.1101/2021.09.23.461487
• Gong, Wuming and Granados, Alejandro A., et el. (2021) Benchmarked approaches for reconstruction of in vitro cell lineages and in silico models of C. elegans and M. musculus developmental trees; Cell Systems; Vol. 12; No. 8; 810-826; 10.1016/j.cels.2021.05.008
• Chen, Zibo and Elowitz, Michael B. (2021) Programmable protein circuit design; Cell; Vol. 184; No. 9; 2284-2301; PMCID PMC8087657; 10.1016/j.cell.2021.03.007
• Chow, Ke-Huan K. and Budde, Mark W., et el. (2021) Imaging cell lineage with a synthetic digital recording system; Science; Vol. 372; No. 6538; Art. No. eabb3099; 10.1126/science.abb3099
• Flynn, Michael J. and Snitser, Olga, et el. (2020) A simple direct RT-LAMP SARS-CoV-2 saliva diagnostic; 10.1101/2020.11.19.20234948
• Ding, Fangyuan and Elowitz, Michael B. (2020) Quantitative single-cell splicing analysis reveals an 'economy of scale' filter for gene expression; 10.1101/457432
• Gao, Xiaojing J. and Chong, Lucy S., et el. (2020) Engineering multiple levels of specificity in an RNA viral vector
• Askary, Amjad and Sánchez-Guardado, Luis, et el. (2020) In situ readout of DNA barcodes and single base edits facilitated by in vitro transcription; Nature Biotechnology; Vol. 38; No. 1; 66-75; PMCID PMC6954335; 10.1038/s41587-019-0299-4
• Ding, Fangyuan and Elowitz, Michael B. (2019) Constitutive splicing and economies of scale in gene expression; Nature Structural & Molecular Biology; Vol. 26; No. 6; 424-432; PMCID PMC6663491; 10.1038/s41594-019-0226-x
• Li, Pulin and Elowitz, Michael B. (2019) Communication codes in developmental signaling pathways; Development; Vol. 146; No. 12; Art. No. dev170977; PMCID PMC6602343; 10.1242/dev.170977
• Nandagopal, Nagarajan and Santat, Leah A., et el. (2019) Cis-activation in the Notch signaling pathway; eLife; Vol. 8; Art. No. e37880; PMCID PMC6345567; 10.7554/eLife.37880
• Ng, Kenneth K. N. and Yui, Mary A., et el. (2018) A stochastic epigenetic switch controls the dynamics of T-cell lineage commitment; eLife; Vol. 7; Art. No. e37851; PMCID PMC6245732; 10.7554/eLife.37851
• Martinez-Corral, Rosa and Raimundez, Elba, et el. (2018) Self-Amplifying Pulsatile Protein Dynamics without Positive Feedback; Cell Systems; Vol. 7; No. 4; 453-462; 10.1016/j.cels.2018.08.012
• Siddique, Hifzur and Zheng, Mengmei, et el. (2018) Novel NOTCH-Binding Protein Directs Self-Renewal of Tumor-Initiating Stem-like Cells and HCC Development through Cell Fate Reprogramming; Hepatology; Vol. 68; No. S1; Art. No. 1365; 10.1002/hep.30257
• Gao, Xiaojing J. and Chong, Lucy S., et el. (2018) Programmable protein circuits in living cells; Science; Vol. 361; No. 6408; 1252-1258; PMCID PMC7176481; 10.1126/science.aat5062
• Siddique, H. R. and Zheng, M., et el. (2018) Cell fate and metabolic reprogramming of tumor-initiating stem-like cells; Alcoholism: Clinical and Experimental Research; Vol. 42; No. S2; Art. No. 427; 10.1111/acer.13834
• Rosenthal, Adam Z. and Qi, Yutao, et el. (2018) Metabolic interactions between dynamic bacterial subpopulations; eLife; Vol. 7; Art. No. e33099; PMCID PMC6025961; 10.7554/eLife.33099
• Li, Pulin and Markson, Joseph S., et el. (2018) Morphogen gradient reconstitution reveals Hedgehog pathway design principles; Science; Vol. 360; No. 6388; 543-548; PMCID PMC6516753; 10.1126/science.aao0645
• Park, Jin and Dies, Marta, et el. (2018) Molecular Time Sharing through Dynamic Pulsing in Single Cells; Cell Systems; Vol. 6; No. 2; 216-229; PMCID PMC6070344; 10.1016/j.cels.2018.01.011
• Nandagopal, Nagarajan and Santat, Leah A., et el. (2018) Dynamic Ligand Discrimination in the Notch Signaling Pathway; Cell; Vol. 172; No. 4; 869-880; PMCID PMC6414217; 10.1016/j.cell.2018.01.002
• Tycko, Josh and Van, Mike V., et el. (2017) Advancing towards a global mammalian gene regulation model through single-cell analysis and synthetic biology; Current Opinion in Biomedical Engineering; Vol. 4; 174-193; 10.1016/j.cobme.2017.10.011
• Antebi, Yaron E. and Linton, James M., et el. (2017) Combinatorial Signal Perception in the BMP Pathway; Cell; Vol. 170; No. 6; 1184-1196; PMCID PMC5612783; 10.1016/j.cell.2017.08.015
• Yuan, Guo-Cheng and Cai, Long, et el. (2017) Challenges and emerging directions in single-cell analysis; Genome Biology; Vol. 18; No. 1; Art. No. 84; PMCID PMC5421338; 10.1186/s13059-017-1218-y
• Clevers, Hans and Rafelski, Susanne, et el. (2017) What Is Your Conceptual Definition of "Cell Type" in the Context of a Mature Organism?; Cell Systems; Vol. 4; No. 3; 255-259; 10.1016/j.cels.2017.03.006
• Antebi, Yaron E. and Nandagopal, Nagarajan, et el. (2017) An operational view of intercellular signaling pathways; Current Opinion in Systems Biology; Vol. 1; 16-24; PMCID PMC5665397; 10.1016/j.coisb.2016.12.003
• Frieda, Kirsten L. and Linton, James M., et el. (2017) Synthetic recording and in situ readout of lineage information in single cells; Nature; Vol. 541; No. 7635; 107-111; PMCID PMC6487260; 10.1038/nature20777
• Hormoz, Sahand and Singer, Zakary S., et el. (2016) Inferring Cell-State Transition Dynamics from Lineage Trees and Endpoint Single-Cell Measurements; Cell Systems; Vol. 3; No. 5; 419-433; PMCID PMC5142829; 10.1016/j.cels.2016.10.015
• Gao, Xiaojing J. and Elowitz, Michael B. (2016) Synthetic biology: Precision timing in a cell; Nature; Vol. 538; No. 7626; 462-463; 10.1038/nature19478
• Rothenberg, E. and Kueh, H. Y., et el. (2016) Dissecting the transcriptional regulatory network for early T-cell commitment; European Journal of Immunology; Vol. 46; No. S1; 797; 10.1002/eji.201670200
• Kueh, Hao Yuan and Yui, Mary A., et el. (2016) Asynchronous combinatorial action of four regulatory factors activates Bcl11b for T cell commitment; Nature Immunology; Vol. 17; No. 8; 956-965; PMCID PMC4955789; 10.1038/ni.3514
• Lin, Yihan and Elowitz, Michael B. (2016) Central Dogma Goes Digital; Molecular Cell; Vol. 61; No. 6; 791-792; 10.1016/j.molcel.2016.03.005
• Bintu, Lacramioara and Yong, John, et el. (2016) Dynamics of epigenetic regulation at the single-cell level; Science; Vol. 351; No. 6274; 720-724; PMCID PMC5108652; 10.1126/science.aab2956
• Lin, Yihan and Sohn, Chang Ho, et el. (2015) Combinatorial gene regulation by modulation of relative pulse timing; Nature; Vol. 527; No. 7576; 54-58; PMCID PMC4870307; 10.1038/nature15710
• Kim, Daniel H. and Marinov, Georgi K., et el. (2015) Single-Cell Transcriptome Analysis Reveals Dynamic Changes in lncRNA Expression during Reprogramming; Cell Stem Cell; Vol. 16; No. 1; 88-101; PMCID PMC4291542; 10.1016/j.stem.2014.11.005
• Markson, Joseph S. and Elowitz, Michael B. (2014) Synthetic Biology of Multicellular Systems: New Platforms and Applications for Animal Cells and Organisms; ACS Synthetic Biology; Vol. 3; No. 12; 875-876; PMCID PMC4476972; 10.1021/sb500358y
• Sanghez, Valentina and Kee, Dustin, et el. (2014) HoxA3 Controls Notch Pathway to Repress Blood Development; Blood; Vol. 124; No. 21
• Levine, Joe H. and Elowitz, Michael B. (2014) Polyphasic feedback enables tunable cellular timers; Current Biology; Vol. 24; No. 20; R994-R995; PMCID PMC4451454; 10.1016/j.cub.2014.08.030
• LeBon, Lauren and Lee, Tom V., et el. (2014) Fringe proteins modulate Notch-ligand cis and trans interactions to specify signaling states; eLife; Vol. 3; Art. No. e02950; PMCID PMC4174579; 10.7554/eLife.02950
• Dalal, Chiraj K. and Cai, Long, et el. (2014) Pulsatile Dynamics in the Yeast Proteome; Current Biology; Vol. 24; No. 18; 2189-2194; PMCID PMC4203654; 10.1016/j.cub.2014.07.076
• Kueh, Hao Yuan and Elowitz, Michael B., et el. (2014) Macrophage and T-cell fate control: Insights from tracking transcription factor dynamics in single cells; Experimental Hematology; Vol. 42; No. 8; S16; 10.1016/j.exphem.2014.07.054
• Singer, Zakary S. and Yong, John, et el. (2014) Dynamic Heterogeneity and DNA Methylation in Embryonic Stem Cells; Molecular Cell; Vol. 55; No. 2; 319-331; PMCID PMC4104113; 10.1016/j.molcel.2014.06.029
• Tan, Frederick E. and Elowitz, Michael B. (2014) Brf1 posttranscriptionally regulates pluripotency and differentiation responses downstream of Erk MAP kinase; Proceedings of the National Academy of Sciences of the United States of America; Vol. 111; No. 17; E1740-E1748; PMCID PMC4035916; 10.1073/pnas.1320873111
• Church, George M. and Elowitz, Michael B., et el. (2014) Realizing the potential of synthetic biology; Nature Reviews. Molecular Cell Biology; Vol. 15; No. 4; 289-294; PMCID PMC9645560; 10.1038/nrm3767
• Levine, Joe H. and Lin, Yihan, et el. (2013) Functional Roles of Pulsing in Genetic Circuits; Science; Vol. 342; No. 6163; 1193-1200; PMCID PMC4100686; 10.1126/science.1239999
• Kueh, Hao Yuan and Champhekhar, Ameya, et el. (2013) Positive Feedback Between PU.1 and the Cell Cycle Controls Myeloid Differentiation; Science; Vol. 341; No. 6146; 670-673; PMCID PMC3913367; 10.1126/science.1240831
• Young, Jonathan W. and Locke, James C. W., et el. (2013) Rate of environmental change determines stress response specificity; Proceedings of the National Academy of Sciences of the United States of America; Vol. 110; No. 10; 4140-4145; PMCID PMC3593889; 10.1073/pnas.1213060110
• Rosenthal, Adam Z. and Elowitz, Michael B. (2012) Following evolution of bacterial antibiotic resistance in real time; Nature Genetics; Vol. 44; No. 1; 11-13; 10.1038/ng.1048
• Young, Jonathan W. and Locke, James C. W., et el. (2012) Measuring single-cell gene expression dynamics in bacteria using fluorescence time-lapse microscopy; Nature Protocols; Vol. 7; No. 1; 80-88; PMCID PMC4161363; 10.1038/nprot.2011.432
• Levine, Joe H. and Fontes, Michael E., et el. (2012) Pulsed Feedback Defers Cellular Differentiation; PLoS Biology; Vol. 10; No. 1; e1001252; PMCID PMC3269414; 10.1371/journal.pbio.1001252
• Locke, James C. W. and Young, Jonathan W., et el. (2011) Stochastic Pulse Regulation in Bacterial Stress Response; Science; Vol. 334; No. 6054; 366-369; PMCID PMC4100694; 10.1126/science.1208144
• Zheng, Guoan and Lee, Seung Ah, et el. (2011) The ePetri dish, an on-chip cell imaging platform based on subpixel perspective sweeping microscopy (SPSM); Proceedings of the National Academy of Sciences of the United States of America; Vol. 108; No. 41; 16889-16894; PMCID PMC3193234; 10.1073/pnas.1110681108
• Sen, Shaunak and Garcia-Ojalvo, Jordi, et el. (2011) Dynamical Consequences of Bandpass Feedback Loops in a Bacterial Phosphorelay; PLoS ONE; Vol. 6; No. 9; Art. No. e25102; PMCID PMC3182994; 10.1371/journal.pone.0025102
• Nandagopal, Nagarajan and Elowitz, Michael B. (2011) Synthetic Biology: Integrated Gene Circuits; Science; Vol. 333; No. 6047; 1244-1248; PMCID PMC4117316; 10.1126/science.1207084
• Sprinzak, David and Lakhanpal, Amit, et el. (2011) Mutual Inactivation of Notch Receptors and Ligands Facilitates Developmental Patterning; PLoS Computational Biology; Vol. 7; No. 6; Art. No. e1002069; PMCID PMC3111533; 10.1371/journal.pcbi.1002069
• Young, Jonathan W. and Elowitz, Michael B. (2011) Mixed Messages: How Bacteria Resolve Conflicting Signals; Molecular Cell; Vol. 42; No. 4; 405-406; PMCID PMC4117311; 10.1016/j.molcel.2011.05.005
• Elowitz, Michael B. and Lim, Wendell A. (2010) Build life to understand it; Nature; Vol. 468; 889-890; PMCID PMC3068207; 10.1038/468889a
• Acar, Murat and Pando, Bernardo F., et el. (2010) A General Mechanism for Network-Dosage Compensation in Gene Circuits; Science; Vol. 329; No. 5999; 1656-1660; PMCID PMC3138731; 10.1126/science.1190544
• Eldar, Avigdor and Elowitz, Michael B. (2010) Functional roles for noise in genetic circuits; Nature; Vol. 467; No. 7312; 167-173; PMCID PMC4100692; 10.1038/nature09326
• Cox, Robert Sidney, III and Dunlop, Mary J., et el. (2010) A synthetic three-color scaffold for monitoring genetic regulation and noise; Journal of Biological Engineering; Vol. 4; Art. No. 10; PMCID PMC2918530; 10.1186/1754-1611-4-10
• Sprinzak, David and Lakhanpal, Amit, et el. (2010) Cis-interactions between Notch and Delta generate mutually exclusive signalling states; Nature; Vol. 465; No. 7294; 86-91; PMCID PMC2886601; 10.1038/nature08959
• Çağatay, Tolga and Turcotte, Marc, et el. (2009) Architecture-Dependent Noise Discriminates Functionally Analogous Differentiation Circuits; Cell; Vol. 139; No. 3; 512-522; 10.1016/j.cell.2009.07.046
• Eldar, Avigdor and Chary, Vasant K., et el. (2009) Partial penetrance facilitates developmental evolution in bacteria; Nature; Vol. 460; No. 7254; 510-514; PMCID PMC2716064; 10.1038/nature08150
• Locke, James C. W. and Elowitz, Michael B. (2009) Using movies to analyse gene circuit dynamics in single cells; Nature Reviews Microbiology; Vol. 7; No. 5; 383-392; PMCID PMC2853934; 10.1038/nrmicro2056
• Dunlop, Mary J. and Cox, Robert Sidney, III, et el. (2008) Regulatory activity revealed by dynamic correlations in gene expression noise; Nature Genetics; Vol. 40; No. 12; 1493-1498; PMCID PMC2829635; 10.1038/ng.281
• Cai, Long and Dalal, Chiraj K., et el. (2008) Frequency-modulated nuclear localization bursts coordinate gene regulation; Nature; Vol. 455; No. 7212; 485-491; PMCID PMC2695983; 10.1038/nature07292
• Presser, Aviva and Elowitz, Michael B., et el. (2008) The evolutionary dynamics of the Saccharomyces cerevisiae protein interaction network after duplication; Proceedings of the National Academy of Sciences of the United States of America; Vol. 105; No. 3; 950-954; PMCID PMC2242688; 10.1073/pnas.0707293105
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• Cox, Robert Sidney, III and Surette, Michael G., et el. (2007) Programming gene expression with combinatorial promoters; Molecular Systems Biology; Vol. 3; Art. No. 145; PMCID PMC2132448; 10.1038/msb4100187
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• Rosenfeld, Nitzan and Perkins, Theodore J., et el. (2006) A Fluctuation Method to Quantify In Vivo Fluorescence Data; Biophysical Journal; Vol. 91; No. 2; 759-766; PMCID PMC1483091; 10.1529/biophysj.105.073098
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• Rosenfeld, Nitzan and Young, Jonathan W., et el. (2005) Gene Regulation at the Single-Cell Level; Science; Vol. 307; No. 5717; 1962-1965; 10.1126/science.1106914
• Garcia-Ojalvo, Jordi and Elowitz, Michael B., et el. (2004) Modeling a synthetic multicellular clock: Repressilators coupled by quorum sensing; Proceedings of the National Academy of Sciences of the United States of America; Vol. 101; No. 30; 10955-10960; PMCID PMC503725; 10.1073/pnas.0307095101
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• Rosenfeld, Nitzan and Elowitz, Michael B., et el. (2002) Negative Autoregulation Speeds the Response Times of Transcription Networks; Journal of Molecular Biology; Vol. 323; No. 5; 785-793; 10.1016/s0022-2836(02)00994-4
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