Dynamic Characterization of Growth and Gene Expression Using High-throughput Automated Flow cytometry
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Hana El-Samad | Hao Li | Hao Li | H. El-Samad | Ignacio A Zuleta | A. Aranda-Díaz | Ignacio A. Zuleta | Andrés Aranda-Díaz | Andrés Aranda-Díaz
[1] A. Varshavsky. Ubiquitin fusion technique and related methods. , 2005, Methods in enzymology.
[2] R. Kishony,et al. Nonoptimal Microbial Response to Antibiotics Underlies Suppressive Drug Interactions , 2009, Cell.
[3] L. Pemberton,et al. Optimization of yeast cell cycle analysis and morphological characterization by multispectral imaging flow cytometry , 2008, Cytometry. Part A : the journal of the International Society for Analytical Cytology.
[4] A. Varshavsky. The early history of the ubiquitin field , 2006, Protein science : a publication of the Protein Society.
[5] Corey Nislow,et al. A unique and universal molecular barcode array , 2006, Nature Methods.
[6] Peter Walter,et al. The Transmembrane Kinase Ire1p Is a Site-Specific Endonuclease That Initiates mRNA Splicing in the Unfolded Protein Response , 1997, Cell.
[7] A. Varshavsky,et al. In vivo half-life of a protein is a function of its amino-terminal residue. , 1986, Science.
[8] Matthew J. Brauer,et al. Slow Growth Induces Heat-shock Resistance in Normal and Respiratory-deficient Yeast , 2022 .
[9] Brigitte Gasser,et al. Oxidative protein folding and unfolded protein response elicit differing redox regulation in endoplasmic reticulum and cytosol of yeast. , 2012, Free radical biology & medicine.
[10] Paul J. Smith,et al. Flow-Based Cytometric Analysis of Cell Cycle via Simulated Cell Populations , 2010, PLoS Comput. Biol..
[11] Jeffrey L. Brodsky,et al. One step at a time: endoplasmic reticulum-associated degradation , 2008, Nature Reviews Molecular Cell Biology.
[12] Steven E. Lindow,et al. Predictive and Interpretive Simulation of Green Fluorescent Protein Expression in Reporter Bacteria , 2001, Journal of bacteriology.
[13] A. Cooper,et al. Degradation of misfolded proteins prevents ER-derived oxidative stress and cell death. , 2004, Molecular cell.
[14] D. Pincus,et al. BiP Binding to the ER-Stress Sensor Ire1 Tunes the Homeostatic Behavior of the Unfolded Protein Response , 2010, PLoS biology.
[15] Julian Parkhill,et al. Brothers in arms , 2005, Nature Reviews Microbiology.
[16] Daniel J. Ehrlich,et al. A Parallel Microfluidic Flow Cytometer for High Content Screening , 2011, Nature Methods.
[17] Naama Barkai,et al. Strategy of Transcription Regulation in the Budding Yeast , 2007, PloS one.
[18] P. Brown,et al. Exploring the metabolic and genetic control of gene expression on a genomic scale. , 1997, Science.
[19] J. Tobias,et al. Ubiquitin-specific proteases of Saccharomyces cerevisiae. Cloning of UBP2 and UBP3, and functional analysis of the UBP gene family. , 1992, The Journal of biological chemistry.
[20] Stephen G Oliver,et al. Dynamics of Protein Turnover, a Missing Dimension in Proteomics* , 2002, Molecular & Cellular Proteomics.
[21] D. Botstein,et al. The cost of gene expression underlies a fitness trade-off in yeast , 2009, Proceedings of the National Academy of Sciences.
[22] Douglas A Lauffenburger,et al. Lyapunov exponents and phase diagrams reveal multi-factorial control over TRAIL-induced apoptosis , 2011, Molecular systems biology.
[23] T. Hwa,et al. Interdependence of Cell Growth and Gene Expression: Origins and Consequences , 2010, Science.
[24] Uri Alon,et al. Proteome Half-Life Dynamics in Living Human Cells , 2011, Science.
[25] J. Yewdell,et al. Out with the old, in with the new? Comparing methods for measuring protein degradation , 2011, Cell biology international.
[26] A. van Oudenaarden,et al. Quantitative time-lapse fluorescence microscopy in single cells. , 2009, Annual review of cell and developmental biology.
[27] J. O'connor,et al. The glyceraldehyde-3-phosphate dehydrogenase polypeptides encoded by the Saccharomyces cerevisiae TDH1, TDH2 and TDH3 genes are also cell wall proteins. , 2001, Microbiology.
[28] M. Tyers,et al. A dynamic transcriptional network communicates growth potential to ribosome synthesis and critical cell size. , 2004, Genes & development.
[29] M. Gerstein,et al. The Transcriptional Landscape of the Yeast Genome Defined by RNA Sequencing , 2008, Science.
[30] K. Mori,et al. Endoplasmic reticulum stress-induced mRNA splicing permits synthesis of transcription factor Hac1p/Ern4p that activates the unfolded protein response. , 1997, Molecular biology of the cell.
[31] G. Nolan,et al. A regression model approach to enable cell morphology correction in high-throughput flow cytometry , 2011, Molecular systems biology.
[32] Christopher A. Voigt,et al. Environmental signal integration by a modular AND gate , 2007, Molecular systems biology.
[33] P Latimer,et al. Light scattering vs. microscopy for measuring average cell size and shape. , 1979, Biophysical journal.
[34] K. Tar,et al. Proteasomal degradation of Sfp1 contributes to the repression of ribosome biogenesis during starvation and is mediated by the proteasome activator Blm10 , 2011, Molecular biology of the cell.
[35] E. O’Shea,et al. Quantification of protein half-lives in the budding yeast proteome , 2006, Proceedings of the National Academy of Sciences.
[36] Jun Onodera,et al. Autophagy Is Required for Maintenance of Amino Acid Levels and Protein Synthesis under Nitrogen Starvation* , 2005, Journal of Biological Chemistry.
[37] Kristin L. Hazelwood,et al. Far-red fluorescent tags for protein imaging in living tissues. , 2009, The Biochemical journal.
[38] M. Kirschner,et al. Dynamics extracted from fixed cells reveal feedback linking cell growth to cell cycle , 2013, Nature.
[39] S. Avery,et al. Flow cytometric investigation of heterogeneous copper-sensitivity in asynchronously grown Saccharomyces cerevisiae. , 1999, FEMS microbiology letters.
[40] R T Schimke,et al. Control of enzyme levels in animal tissues. , 1970, Annual review of biochemistry.
[41] M. Cárdenas,et al. Tor and Cyclic AMP-Protein Kinase A: Two Parallel Pathways Regulating Expression of Genes Required for Cell Growth , 2005, Eukaryotic Cell.
[42] B. Bukau,et al. Protein quality control in the cytosol and the endoplasmic reticulum: brothers in arms. , 2010, Molecular cell.
[43] Brian Munsky,et al. Listening to the noise: random fluctuations reveal gene network parameters , 2009, Molecular systems biology.
[44] M. Kirschner,et al. Optimizing Optical Flow Cytometry for Cell Volume-Based Sorting and Analysis , 2011, PloS one.
[45] A. Varshavsky,et al. Using ubiquitin to follow the metabolic fate of a protein. , 1996, Proceedings of the National Academy of Sciences of the United States of America.
[46] J. Derisi,et al. Single-cell proteomic analysis of S. cerevisiae reveals the architecture of biological noise , 2006, Nature.
[47] J. Tobias,et al. Cloning and functional analysis of the ubiquitin-specific protease gene UBP1 of Saccharomyces cerevisiae. , 1991, The Journal of biological chemistry.
[48] U. Alon,et al. A comprehensive library of fluorescent transcriptional reporters for Escherichia coli , 2006, Nature Methods.
[49] R. Kishony,et al. Resolution of gene regulatory conflicts caused by combinations of antibiotics. , 2011, Molecular cell.
[50] K. Mori,et al. Palindrome with Spacer of One Nucleotide Is Characteristic of thecis-Acting Unfolded Protein Response Element inSaccharomyces cerevisiae * , 1998, The Journal of Biological Chemistry.
[51] A. Varshavsky,et al. The degradation signal in a short-lived protein , 1989, Cell.
[52] Christopher J. Murakami,et al. Ribosome Deficiency Protects Against ER Stress in Saccharomyces cerevisiae , 2012, Genetics.
[53] John,et al. Ubiquitin-specific Proteases of Saccharomyces cereuisiae , 2001 .
[54] T. Hwa,et al. Growth Rate-Dependent Global Effects on Gene Expression in Bacteria , 2009, Cell.
[55] Albert Goldbeter,et al. Oscillatory nucleocytoplasmic shuttling of the general stress response transcriptional activators Msn2 and Msn4 in Saccharomyces cerevisiae , 2003, The Journal of cell biology.
[56] P. N. Dean,et al. The small angle light scattering of biological cells. Theoretical considerations. , 1970, Biophysical journal.
[57] Peter Walter,et al. Functional and Genomic Analyses Reveal an Essential Coordination between the Unfolded Protein Response and ER-Associated Degradation , 2000, Cell.
[58] B Sonnleitner,et al. The decisive role of the Saccharomyces cerevisiae cell cycle behaviour for dynamic growth characterization. , 1992, Journal of biotechnology.
[59] Z. Ronai,et al. Ubiquitin-recognition protein Ufd1 couples the endoplasmic reticulum (ER) stress response to cell cycle control , 2011, Proceedings of the National Academy of Sciences.
[60] Matthew J. Brauer,et al. Coordination of growth rate, cell cycle, stress response, and metabolic activity in yeast. , 2008, Molecular biology of the cell.
[61] A. Blomberg. Measuring growth rate in high-throughput growth phenotyping. , 2011, Current opinion in biotechnology.
[62] Boris N. Kholodenko,et al. Emergence of bimodal cell population responses from the interplay between analog single-cell signaling and protein expression noise , 2012, BMC Systems Biology.
[63] Hana El-Samad,et al. Cellular noise regulons underlie fluctuations in Saccharomyces cerevisiae. , 2012, Molecular cell.
[64] Tom A. Rapoport,et al. Retrotranslocation of a Misfolded Luminal ER Protein by the Ubiquitin-Ligase Hrd1p , 2010, Cell.
[65] Ole Winther,et al. Growth-rate regulated genes have profound impact on interpretation of transcriptome profiling in Saccharomyces cerevisiae , 2006, Genome Biology.
[66] Megan N. McClean,et al. Fast-acting and Nearly Gratuitous Induction of Gene Expression and Protein Depletion in Saccharomyces Cerevisiae Graduate Program in Quantitative and Computational Biology, And , 2011 .
[67] Y Wang,et al. A regulatory system for use in gene transfer. , 1994, Proceedings of the National Academy of Sciences of the United States of America.
[68] Dirk Müller,et al. Precise Regulation of Gene Expression Dynamics Favors Complex Promoter Architectures , 2009, PLoS Comput. Biol..
[69] M. Khammash,et al. Systematic Identification of Signal-Activated Stochastic Gene Regulation , 2013, Science.
[70] J. Weissman,et al. Ero1p: a novel and ubiquitous protein with an essential role in oxidative protein folding in the endoplasmic reticulum. , 1998, Molecular cell.
[71] Victor Chubukov,et al. Dynamics and Design Principles of a Basic Regulatory Architecture Controlling Metabolic Pathways , 2008, PLoS Biology.
[72] P. Walter,et al. A Novel Mechanism for Regulating Activity of a Transcription Factor That Controls the Unfolded Protein Response , 1996, Cell.
[73] F. Srienc,et al. Quantitative analysis of transient gene expression in mammalian cells using the green fluorescent protein. , 1996, Journal of biotechnology.
[74] Jeff Hasty,et al. Monitoring dynamics of single-cell gene expression over multiple cell cycles , 2005, 2006 Bio Micro and Nanosystems Conference.
[75] Qiang Zhang,et al. Dose Response Relationship in Anti-Stress Gene Regulatory Networks , 2006, PLoS Comput. Biol..
[76] D. Finley,et al. A Ubiquitin Stress Response Induces Altered Proteasome Composition , 2007, Cell.