Pamela A. Silver, PhD

High spontaneous integration rates of end-modified linear DNAs upon mammalian cell transfection. Sci Rep. 2023 04 26; 13(1):6835. View in: Pubmed

Screen for Modulation of Nucleocapsid Protein Condensation Identifies Small Molecules with Anti-Coronavirus Activity. ACS Chem Biol. 2023 03 17; 18(3):583-594. View in: Pubmed

Riboflavin synthesis from gaseous nitrogen and carbon dioxide by a hybrid inorganic-biological system. Proc Natl Acad Sci U S A. 2022 09 13; 119(37):e2210538119. View in: Pubmed

Bioinspired Design of Artificial Signaling Systems. Biochemistry. 2023 01 17; 62(2):178-186. View in: Pubmed

High-Content Screening and Computational Prediction Reveal Viral Genes That Suppress the Innate Immune Response. mSystems. 2022 Apr 26; 7(2):e0146621. View in: Pubmed

Natural and Designed Proteins Inspired by Extremotolerant Organisms Can Form Condensates and Attenuate Apoptosis in Human Cells. ACS Synth Biol. 2022 03 18; 11(3):1292-1302. View in: Pubmed

Modular and Single-Cell Sensors of Bacterial Ser/Thr Kinase Activity. ACS Synth Biol. 2021 09 17; 10(9):2340-2350. View in: Pubmed

Theranostic cells: emerging clinical applications of synthetic biology. Nat Rev Genet. 2021 11; 22(11):730-746. View in: Pubmed

Author Correction: Bacterial variability in the mammalian gut captured by a single-cell synthetic oscillator. Nat Commun. 2021 Mar 16; 12(1):1818. View in: Pubmed

Exploring targeting peptide-shell interactions in encapsulin nanocompartments. Sci Rep. 2021 03 02; 11(1):4951. View in: Pubmed

Rational engineering of an erythropoietin fusion protein to treat hypoxia. Protein Eng Des Sel. 2021 02 15; 34. View in: Pubmed

In situ reprogramming of gut bacteria by oral delivery. Nat Commun. 2020 10 06; 11(1):5030. View in: Pubmed

Valorization of CO2 through lithoautotrophic production of sustainable chemicals in Cupriavidus necator. Metab Eng. 2020 11; 62:207-220. View in: Pubmed

Toward a translationally independent RNA-based synthetic oscillator using deactivated CRISPR-Cas. Nucleic Acids Res. 2020 08 20; 48(14):8165-8177. View in: Pubmed

Barcoded microbial system for high-resolution object provenance. Science. 2020 06 05; 368(6495):1135-1140. View in: Pubmed

Controlling the Implementation of Transgenic Microbes: Are We Ready for What Synthetic Biology Has to Offer? Mol Cell. 2020 05 21; 78(4):614-623. View in: Pubmed

Publisher Correction: Genetic tool development in marine protists: emerging model organisms for experimental cell biology. Nat Methods. 2020 05; 17(5):551. View in: Pubmed

Genetic tool development in marine protists: emerging model organisms for experimental cell biology. Nat Methods. 2020 05; 17(5):481-494. View in: Pubmed

The case for biotech on Mars. Nat Biotechnol. 2020 04; 38(4):401-407. View in: Pubmed

Enabling community-based metrology for wood-degrading fungi. Fungal Biol Biotechnol. 2020; 7:2. View in: Pubmed

Synthetic Cassettes for pH-Mediated Sensing, Counting, and Containment. Cell Rep. 2020 03 03; 30(9):3139-3148.e4. View in: Pubmed

Stable Neutralization of a Virulence Factor in Bacteria Using Temperate Phage in the Mammalian Gut. mSystems. 2020 Jan 28; 5(1). View in: Pubmed

The Discovery of Twenty-Eight New Encapsulin Sequences, Including Three in Anammox Bacteria. Sci Rep. 2019 12 27; 9(1):20122. View in: Pubmed

Rational Design of a Bifunctional AND-Gate Ligand To Modulate Cell-Cell Interactions. ACS Synth Biol. 2020 02 21; 9(2):191-197. View in: Pubmed

De novo-designed translation-repressing riboregulators for multi-input cellular logic. Nat Chem Biol. 2019 12; 15(12):1173-1182. View in: Pubmed

Bacterial variability in the mammalian gut captured by a single-cell synthetic oscillator. Nat Commun. 2019 10 11; 10(1):4665. View in: Pubmed

Engineered Interspecies Amino Acid Cross-Feeding Increases Population Evenness in a Synthetic Bacterial Consortium. mSystems. 2019 Aug 13; 4(4). View in: Pubmed

Large protein organelles form a new iron sequestration system with high storage capacity. Elife. 2019 07 08; 8. View in: Pubmed

Synthetic Gene Circuits Enable Systems-Level Biosensor Trigger Discovery at the Host-Microbe Interface. mSystems. 2019 Jun 11; 4(4). View in: Pubmed

Dynamic Modulation of the Gut Microbiota and Metabolome by Bacteriophages in a Mouse Model. Cell Host Microbe. 2019 Jun 12; 25(6):803-814.e5. View in: Pubmed

Early-Career Scientists Shaping the World. mSystems. 2019 May 07; 4(3). View in: Pubmed

Beyond the Four Bases: A Home Run for Synthetic Epigenetic Control? Mol Cell. 2019 04 04; 74(1):5-7. View in: Pubmed

Identification of a Fifth Antibacterial Toxin Produced by a Single Bacteroides fragilis Strain. J Bacteriol. 2019 04 15; 201(8). View in: Pubmed

Harnessing undomesticated life. Nat Microbiol. 2019 02; 4(2):212-213. View in: Pubmed

A Synthetic System That Senses Candida albicans and Inhibits Virulence Factors. ACS Synth Biol. 2019 02 15; 8(2):434-444. View in: Pubmed

Escherichia coli NGF-1, a Genetically Tractable, Efficiently Colonizing Murine Gut Isolate. Microbiol Resour Announc. 2018 Dec; 7(22). View in: Pubmed

Rational Design of Evolutionarily Stable Microbial Kill Switches. Mol Cell. 2018 10 18; 72(2):395. View in: Pubmed

Quorum Sensing Can Be Repurposed To Promote Information Transfer between Bacteria in the Mammalian Gut. ACS Synth Biol. 2018 09 21; 7(9):2270-2281. View in: Pubmed

Mammalian Cells Engineered To Produce New Steroids. Chembiochem. 2018 09 04; 19(17):1827-1833. View in: Pubmed

Chimeric Fatty Acyl-Acyl Carrier Protein Thioesterases Provide Mechanistic Insight into Enzyme Specificity and Expression. Appl Environ Microbiol. 2018 05 15; 84(10). View in: Pubmed

Prokaryotic nanocompartments form synthetic organelles in a eukaryote. Nat Commun. 2018 04 03; 9(1):1311. View in: Pubmed

Engineering bacteria for diagnostic and therapeutic applications. Nat Rev Microbiol. 2018 04; 16(4):214-225. View in: Pubmed

Rational Design of Evolutionarily Stable Microbial Kill Switches. Mol Cell. 2017 Nov 16; 68(4):686-697.e3. View in: Pubmed

Biological-inorganic hybrid systems as a generalized platform for chemical production. Curr Opin Chem Biol. 2017 Dec; 41:107-113. View in: Pubmed

Synthetic genome recoding: new genetic codes for new features. Curr Genet. 2018 Apr; 64(2):327-333. View in: Pubmed

Superresolution microscopy of the ß-carboxysome reveals a homogeneous matrix. Mol Biol Cell. 2017 Oct 01; 28(20):2734-2745. View in: Pubmed

Super-resolution microscopy of the ß-carboxysome reveals a homogenous matrix. Mol Biol Cell. 2017 Aug 09. View in: Pubmed

Complex cellular logic computation using ribocomputing devices. Nature. 2017 08 03; 548(7665):117-121. View in: Pubmed

Large-scale recoding of a bacterial genome by iterative recombineering of synthetic DNA. Nucleic Acids Res. 2017 Jun 20; 45(11):6971-6980. View in: Pubmed

Ambient nitrogen reduction cycle using a hybrid inorganic-biological system. Proc Natl Acad Sci U S A. 2017 06 20; 114(25):6450-6455. View in: Pubmed

13C-Labeling the carbon-fixation pathway of a highly efficient artificial photosynthetic system. Faraday Discuss. 2017 06 02; 198:529-537. View in: Pubmed

Engineered bacteria can function in the mammalian gut long-term as live diagnostics of inflammation. Nat Biotechnol. 2017 Jul; 35(7):653-658. View in: Pubmed

Efficient size-independent chromosome delivery from yeast to cultured cell lines. Nucleic Acids Res. 2017 04 20; 45(7):e50. View in: Pubmed

Widespread distribution of encapsulin nanocompartments reveals functional diversity. Nat Microbiol. 2017 Mar 06; 2:17029. View in: Pubmed

Engineering carbon fixation with artificial protein organelles. Curr Opin Biotechnol. 2017 08; 46:42-50. View in: Pubmed

Synthetic photosynthetic consortia define interactions leading to robustness and photoproduction. J Biol Eng. 2017; 11:4. View in: Pubmed

Engineering Genetically-Encoded Mineralization and Magnetism via Directed Evolution. Sci Rep. 2016 11 29; 6:38019. View in: Pubmed

A Catalytic Nanoreactor Based on in Vivo Encapsulation of Multiple Enzymes in an Engineered Protein Nanocompartment. Chembiochem. 2016 10 17; 17(20):1931-1935. View in: Pubmed

Synthetic Lipid-Containing Scaffolds Enhance Production by Colocalizing Enzymes. ACS Synth Biol. 2016 12 16; 5(12):1396-1403. View in: Pubmed

Building Spatial Synthetic Biology with Compartments, Scaffolds, and Communities. Cold Spring Harb Perspect Biol. 2016 08 01; 8(8). View in: Pubmed

Creating Single-Copy Genetic Circuits. Mol Cell. 2016 07 21; 63(2):329-336. View in: Pubmed

Converting a Natural Protein Compartment into a Nanofactory for the Size-Constrained Synthesis of Antimicrobial Silver Nanoparticles. ACS Synth Biol. 2016 12 16; 5(12):1497-1504. View in: Pubmed

Water splitting-biosynthetic system with CO2 reduction efficiencies exceeding photosynthesis. Science. 2016 Jun 03; 352(6290):1210-3. View in: Pubmed

GENOME ENGINEERING. The Genome Project-Write. Science. 2016 Jul 08; 353(6295):126-7. View in: Pubmed

Targeted erythropoietin selectively stimulates red blood cell expansion in vivo. Proc Natl Acad Sci U S A. 2016 May 10; 113(19):5245-50. View in: Pubmed

A Tunable Protein Piston That Breaks Membranes to Release Encapsulated Cargo. ACS Synth Biol. 2016 Apr 15; 5(4):303-11. View in: Pubmed

Engineering acyl carrier protein to enhance production of shortened fatty acids. Biotechnol Biofuels. 2016; 9:24. View in: Pubmed

Streptomyces thermoautotrophicus does not fix nitrogen. Sci Rep. 2016 Feb 01; 6:20086. View in: Pubmed

Tools for the Microbiome: Nano and Beyond. ACS Nano. 2016 Jan 26; 10(1):6-37. View in: Pubmed

A distributed cell division counter reveals growth dynamics in the gut microbiota. Nat Commun. 2015 Nov 30; 6:10039. View in: Pubmed

Encapsulation as a Strategy for the Design of Biological Compartmentalization. J Mol Biol. 2016 Feb 27; 428(5 Pt B):916-27. View in: Pubmed

Better together: engineering and application of microbial symbioses. Curr Opin Biotechnol. 2015 Dec; 36:40-9. View in: Pubmed

Synthetic biology expands chemical control of microorganisms. Curr Opin Chem Biol. 2015 Oct; 28:20-8. View in: Pubmed

Identification and selective expansion of functionally superior T cells expressing chimeric antigen receptors. J Transl Med. 2015 May 20; 13:161. View in: Pubmed

Efficient solar-to-fuels production from a hybrid microbial-water-splitting catalyst system. Proc Natl Acad Sci U S A. 2015 Feb 24; 112(8):2337-42. View in: Pubmed

Transplantability of a circadian clock to a noncircadian organism. Sci Adv. 2015; 1(5). View in: Pubmed

Using synthetic RNAs as scaffolds and regulators. Nat Struct Mol Biol. 2015 Jan; 22(1):8-10. View in: Pubmed

Designing cell-targeted therapeutic proteins reveals the interplay between domain connectivity and cell binding. Biophys J. 2014 Nov 18; 107(10):2456-66. View in: Pubmed

Toehold switches: de-novo-designed regulators of gene expression. Cell. 2014 Nov 06; 159(4):925-39. View in: Pubmed

Induced sensitivity of Bacillus subtilis colony morphology to mechanical media compression. PeerJ. 2014; 2:e597. View in: Pubmed

Unique nucleotide sequence-guided assembly of repetitive DNA parts for synthetic biology applications. Nat Protoc. 2014 Sep; 9(9):2075-89. View in: Pubmed

In vivo co-localization of enzymes on RNA scaffolds increases metabolic production in a geometrically dependent manner. Nucleic Acids Res. 2014 Aug; 42(14):9493-503. View in: Pubmed

Synthetic biology: Engineering explored. Nature. 2014 May 08; 509(7499):166-7. View in: Pubmed

Transient gene expression in tobacco using Gibson assembly and the Gene Gun. J Vis Exp. 2014 Apr 18; (86). View in: Pubmed

Integrating biological redesign: where synthetic biology came from and where it needs to go. Cell. 2014 Mar 27; 157(1):151-61. View in: Pubmed

Programmable bacteria detect and record an environmental signal in the mammalian gut. Proc Natl Acad Sci U S A. 2014 Apr 01; 111(13):4838-43. View in: Pubmed

HITS-CLIP and integrative modeling define the Rbfox splicing-regulatory network linked to brain development and autism. Cell Rep. 2014 Mar 27; 6(6):1139-1152. View in: Pubmed

Synthetic biology in mammalian cells: next generation research tools and therapeutics. Nat Rev Mol Cell Biol. 2014 Feb; 15(2):95-107. View in: Pubmed

Building synthetic cellular organization. Mol Biol Cell. 2013 Dec; 24(23):3585-7. View in: Pubmed

An objective function exploiting suboptimal solutions in metabolic networks. BMC Syst Biol. 2013 Oct 03; 7:98. View in: Pubmed

Rapid construction of insulated genetic circuits via synthetic sequence-guided isothermal assembly. Nucleic Acids Res. 2014 Jan; 42(1):681-9. View in: Pubmed

Building synthetic memory. Curr Biol. 2013 Sep 09; 23(17):R812-6. View in: Pubmed

Targeting a heterologous protein to multiple plant organelles via rationally designed 5' mRNA tags. J Biol Eng. 2013 Sep 08; 7(1):20. View in: Pubmed

The bacterial carbon-fixing organelle is formed by shell envelopment of preassembled cargo. PLoS One. 2013; 8(9):e76127. View in: Pubmed

Two- and three-input TALE-based AND logic computation in embryonic stem cells. Nucleic Acids Res. 2013 Nov; 41(21):9967-75. View in: Pubmed

Isothermal self-assembly of complex DNA structures under diverse and biocompatible conditions. Nano Lett. 2013 Sep 11; 13(9):4242-8. View in: Pubmed

Tailored fatty acid synthesis via dynamic control of fatty acid elongation. Proc Natl Acad Sci U S A. 2013 Jul 09; 110(28):11290-5. View in: Pubmed

Dynamics simulations for engineering macromolecular interactions. Chaos. 2013 Jun; 23(2):025110. View in: Pubmed

Protein scaffold-activated protein trans-splicing in mammalian cells. J Am Chem Soc. 2013 May 22; 135(20):7713-9. View in: Pubmed

PQBP1, a factor linked to intellectual disability, affects alternative splicing associated with neurite outgrowth. Genes Dev. 2013 Mar 15; 27(6):615-26. View in: Pubmed

Expression of the sub-pathways of the Chloroflexus aurantiacus 3-hydroxypropionate carbon fixation bicycle in E. coli: Toward horizontal transfer of autotrophic growth. Metab Eng. 2013 Mar; 16:130-9. View in: Pubmed

Spatial and temporal organization of chromosome duplication and segregation in the cyanobacterium Synechococcus elongatus PCC 7942. PLoS One. 2012; 7(10):e47837. View in: Pubmed

Designing and using RNA scaffolds to assemble proteins in vivo. Nat Protoc. 2012 Oct; 7(10):1797-807. View in: Pubmed

Designing biological compartmentalization. Trends Cell Biol. 2012 Dec; 22(12):662-70. View in: Pubmed

STAR RNA-binding protein Quaking suppresses cancer via stabilization of specific miRNA. Genes Dev. 2012 Jul 01; 26(13):1459-72. View in: Pubmed

Synthetic memory circuits for tracking human cell fate. Genes Dev. 2012 Jul 01; 26(13):1486-97. View in: Pubmed

A BioBrick compatible strategy for genetic modification of plants. J Biol Eng. 2012 Jun 20; 6(1):8. View in: Pubmed

Improving carbon fixation pathways. Curr Opin Chem Biol. 2012 Aug; 16(3-4):337-44. View in: Pubmed

Natural strategies for the spatial optimization of metabolism in synthetic biology. Nat Chem Biol. 2012 May 17; 8(6):527-35. View in: Pubmed

Engineering synthetic TAL effectors with orthogonal target sites. Nucleic Acids Res. 2012 Aug; 40(15):7584-95. View in: Pubmed

DNA ends alter the molecular composition and localization of Ku multicomponent complexes. Mol Cell Proteomics. 2012 Aug; 11(8):411-21. View in: Pubmed

A sensitive switch for visualizing natural gene silencing in single cells. ACS Synth Biol. 2012 Mar 16; 1(3):99-106. View in: Pubmed

Induction of biogenic magnetization and redox control by a component of the target of rapamycin complex 1 signaling pathway. PLoS Biol. 2012; 10(2):e1001269. View in: Pubmed

A tunable zinc finger-based framework for Boolean logic computation in mammalian cells. Nucleic Acids Res. 2012 Jun; 40(11):5180-7. View in: Pubmed

Pamela Silver: synthesizing a new biology. Interview by Caitlin Sedwick. J Cell Biol. 2012 Feb 06; 196(3):302-3. View in: Pubmed

Rerouting carbon flux to enhance photosynthetic productivity. Appl Environ Microbiol. 2012 Apr; 78(8):2660-8. View in: Pubmed

Modularity of a carbon-fixing protein organelle. Proc Natl Acad Sci U S A. 2012 Jan 10; 109(2):478-83. View in: Pubmed

A new approach to an old problem: synthetic biology tools for human disease and metabolism. Cold Spring Harb Symp Quant Biol. 2011; 76:145-54. View in: Pubmed

Parts plus pipes: synthetic biology approaches to metabolic engineering. Metab Eng. 2012 May; 14(3):223-32. View in: Pubmed

Recording cellular experiences of DNA damage. Cell Cycle. 2011 Aug 01; 10(15):2410-1. View in: Pubmed

Cell-to-cell variability of alternative RNA splicing. Mol Syst Biol. 2011 Jul 05; 7:506. View in: Pubmed

Organization of intracellular reactions with rationally designed RNA assemblies. Science. 2011 Jul 22; 333(6041):470-4. View in: Pubmed

Synthetic reversal of epigenetic silencing. J Biol Chem. 2011 Aug 05; 286(31):27176-82. View in: Pubmed

Visualization of single mRNAs reveals temporal association of proteins with microRNA-regulated mRNA. Nucleic Acids Res. 2011 Sep 01; 39(17):7740-9. View in: Pubmed

A synthetic system links FeFe-hydrogenases to essential E. coli sulfur metabolism. J Biol Eng. 2011 May 26; 5:7. View in: Pubmed

Towards a synthetic chloroplast. PLoS One. 2011 Apr 20; 6(4):e18877. View in: Pubmed

Whole genome siRNA cell-based screen links mitochondria to Akt signaling network through uncoupling of electron transport chain. Mol Biol Cell. 2011 May 15; 22(10):1791-805. View in: Pubmed

Nuclear origins of cell-to-cell variability. Cold Spring Harb Symp Quant Biol. 2010; 75:87-94. View in: Pubmed

Informing biological design by integration of systems and synthetic biology. Cell. 2011 Mar 18; 144(6):855-9. View in: Pubmed

Synthetic circuit identifies subpopulations with sustained memory of DNA damage. Genes Dev. 2011 Mar 01; 25(5):434-9. View in: Pubmed

Rewiring hydrogenase-dependent redox circuits in cyanobacteria. Proc Natl Acad Sci U S A. 2011 Mar 08; 108(10):3941-6. View in: Pubmed

Engineering cyanobacteria to generate high-value products. Trends Biotechnol. 2011 Feb; 29(2):95-103. View in: Pubmed

Dynamics in the mixed microbial concourse. Genes Dev. 2010 Dec 01; 24(23):2603-14. View in: Pubmed

Genome-wide RNAi screen discovers functional coupling of alternative splicing and cell cycle control to apoptosis regulation. Cell Cycle. 2010 Nov 15; 9(22):4419-21. View in: Pubmed

Modular electron transfer circuits for synthetic biology: insulation of an engineered biohydrogen pathway. Bioeng Bugs. 2010 Nov-Dec; 1(6):413-8. View in: Pubmed

A structurally tunable DNA-based extracellular matrix. J Am Chem Soc. 2010 Oct 27; 132(42):14727-9. View in: Pubmed

Emergent cooperation in microbial metabolism. Mol Syst Biol. 2010 Sep 07; 6:407. View in: Pubmed

An alternative splicing network links cell-cycle control to apoptosis. Cell. 2010 Aug 20; 142(4):625-36. View in: Pubmed

Knowing when to change: reprogramming (my) life. Nat Cell Biol. 2010 Aug; 12(8):730. View in: Pubmed

Engineering cyanobacteria to synthesize and export hydrophilic products. Appl Environ Microbiol. 2010 Jun; 76(11):3462-6. View in: Pubmed

Spatially ordered dynamics of the bacterial carbon fixation machinery. Science. 2010 Mar 05; 327(5970):1258-61. View in: Pubmed

Insulation of a synthetic hydrogen metabolism circuit in bacteria. J Biol Eng. 2010 Feb 25; 4:3. View in: Pubmed

A synthetic circuit for selectively arresting daughter cells to create aging populations. Nucleic Acids Res. 2010 May; 38(8):2727-35. View in: Pubmed

Anti-glycophorin single-chain Fv fusion to low-affinity mutant erythropoietin improves red blood cell-lineage specificity. Protein Eng Des Sel. 2010 Apr; 23(4):251-60. View in: Pubmed

Making cellular memories. Cell. 2010 Jan 08; 140(1):13-8. View in: Pubmed

Eukaryotic systems broaden the scope of synthetic biology. J Cell Biol. 2009 Nov 30; 187(5):589-96. View in: Pubmed

Metazoan stress granule assembly is mediated by P-eIF2alpha-dependent and -independent mechanisms. RNA. 2009 Oct; 15(10):1814-21. View in: Pubmed

Systems-level engineering of nonfermentative metabolism in yeast. Genetics. 2009 Sep; 183(1):385-97. View in: Pubmed

Synthetic biology: exploring and exploiting genetic modularity through the design of novel biological networks. Mol Biosyst. 2009 Jul; 5(7):704-13. View in: Pubmed

A conserved CCCH-type zinc finger protein regulates mRNA nuclear adenylation and export. J Cell Biol. 2009 Apr 20; 185(2):265-77. View in: Pubmed

Harnessing nature's toolbox: regulatory elements for synthetic biology. J R Soc Interface. 2009 Aug 06; 6 Suppl 4:S535-46. View in: Pubmed

Engineering a synthetic dual-organism system for hydrogen production. Appl Environ Microbiol. 2009 Apr; 75(7):1867-75. View in: Pubmed

Learning a prior on regulatory potential from eQTL data. PLoS Genet. 2009 Jan; 5(1):e1000358. View in: Pubmed

mRNA nuclear export and human disease. Dis Model Mech. 2008 Sep-Oct; 1(2-3):103-8. View in: Pubmed

Intron length increases oscillatory periods of gene expression in animal cells. Genes Dev. 2008 Sep 01; 22(17):2342-6. View in: Pubmed

Global histone acetylation induces functional genomic reorganization at mammalian nuclear pore complexes. Genes Dev. 2008 Mar 01; 22(5):627-39. View in: Pubmed

Intron delays and transcriptional timing during development. Dev Cell. 2008 Mar; 14(3):324-30. View in: Pubmed

Enhancement of cell type specificity by quantitative modulation of a chimeric ligand. J Biol Chem. 2008 Mar 28; 283(13):8469-76. View in: Pubmed

Defossiling fuel: how synthetic biology can transform biofuel production. ACS Chem Biol. 2008 Jan 18; 3(1):13-6. View in: Pubmed

Coupling and coordination in gene expression processes: a systems biology view. Nat Rev Genet. 2008 Jan; 9(1):38-48. View in: Pubmed

CARM1 regulates estrogen-stimulated breast cancer growth through up-regulation of E2F1. Cancer Res. 2008 Jan 01; 68(1):301-6. View in: Pubmed

Definition of global and transcript-specific mRNA export pathways in metazoans. Genes Dev. 2008 Jan 01; 22(1):66-78. View in: Pubmed

Global analysis of mRNA splicing. RNA. 2008 Feb; 14(2):197-203. View in: Pubmed

Functional specificity among ribosomal proteins regulates gene expression. Cell. 2007 Nov 02; 131(3):557-71. View in: Pubmed

Rational design of memory in eukaryotic cells. Genes Dev. 2007 Sep 15; 21(18):2271-6. View in: Pubmed

Molecular systems biology in drug development. Clin Pharmacol Ther. 2007 Nov; 82(5):586-90. View in: Pubmed

Systems perspectives on mRNA processing. Cell Res. 2007 Jul; 17(7):581-90. View in: Pubmed

Genetically encoded short peptide tags for orthogonal protein labeling by Sfp and AcpS phosphopantetheinyl transferases. ACS Chem Biol. 2007 May 22; 2(5):337-46. View in: Pubmed

Why do so few women speak at science meetings? Nature. 2007 Apr 19; 446(7138):856. View in: Pubmed

Transcriptional regulation at the nuclear pore complex. Curr Opin Genet Dev. 2007 Apr; 17(2):100-6. View in: Pubmed

Designing biological systems. Genes Dev. 2007 Feb 01; 21(3):242-54. View in: Pubmed

Exon expression profiling reveals stimulus-mediated exon use in neural cells. Genome Biol. 2007; 8(8):R159. View in: Pubmed

Differential recruitment of the splicing machinery during transcription predicts genome-wide patterns of mRNA splicing. Mol Cell. 2006 Dec 28; 24(6):903-15. View in: Pubmed

The role of protein arginine methylation in the formation of silent chromatin. Genes Dev. 2006 Dec 01; 20(23):3249-54. View in: Pubmed

Communication between levels of transcriptional control improves robustness and adaptivity. Mol Syst Biol. 2006; 2:65. View in: Pubmed

The unfolded protein response transducer Ire1p contains a nuclear localization sequence recognized by multiple beta importins. Mol Biol Cell. 2006 Dec; 17(12):5309-23. View in: Pubmed

Genome-wide analysis of estrogen receptor binding sites. Nat Genet. 2006 Nov; 38(11):1289-97. View in: Pubmed

An Explanation of Symbols Used for Analysis of FRET Data. CSH Protoc. 2006 Oct 01; 2006(5). View in: Pubmed

Equipment for In Vivo FRET Analysis. CSH Protoc. 2006 Oct 01; 2006(5). View in: Pubmed

Experimental Design for In Vivo FRET Analysis. CSH Protoc. 2006 Oct 01; 2006(5). View in: Pubmed

Analysis of Protein Interactions In Vivo with Fluorescence Resonance Energy Transfer (FRET). CSH Protoc. 2006 Oct 01; 2006(5). View in: Pubmed

Solenopsin, the alkaloidal component of the fire ant (Solenopsis invicta), is a naturally occurring inhibitor of phosphatidylinositol-3-kinase signaling and angiogenesis. Blood. 2007 Jan 15; 109(2):560-5. View in: Pubmed

Transcriptional regulation by the proteasome as a mechanism for cellular protein homeostasis. Cell Cycle. 2006 Jul; 5(14):1503-5. View in: Pubmed

The conserved ATPase Get3/Arr4 modulates the activity of membrane-associated proteins in Saccharomyces cerevisiae. Genetics. 2006 Sep; 174(1):215-27. View in: Pubmed

Genomic localization of RNA binding proteins reveals links between pre-mRNA processing and transcription. Genome Res. 2006 Jul; 16(7):912-21. View in: Pubmed

Systems biology of gene regulation fulfills its promise. Genome Biol. 2006; 7(5):316. View in: Pubmed

Pore-ing the right dose. Nat Cell Biol. 2006 May; 8(5):430-1. View in: Pubmed

Motion as a phenotype: the use of live-cell imaging and machine visual screening to characterize transcription-dependent chromosome dynamics. BMC Cell Biol. 2006 Apr 24; 7:19. View in: Pubmed

Genomic association of the proteasome demonstrates overlapping gene regulatory activity with transcription factor substrates. Mol Cell. 2006 Mar 17; 21(6):861-71. View in: Pubmed

Autoregulation of ribosome biosynthesis by a translational response in fission yeast. Mol Cell Biol. 2006 Mar; 26(5):1731-42. View in: Pubmed

Genome-wide identification of functionally distinct subsets of cellular mRNAs associated with two nucleocytoplasmic-shuttling mammalian splicing factors. Genome Biol. 2006; 7(11):R113. View in: Pubmed

The uses of green fluorescent protein in yeasts. Methods Biochem Anal. 2006; 47:179-201. View in: Pubmed

Biochemical and genetic analyses of integrase-interacting proteins lens epithelium-derived growth factor (LEDGF)/p75 and hepatoma-derived growth factor related protein 2 (HRP2) in preintegration complex function and HIV-1 replication. Virology. 2006 Mar 15; 346(2):415-26. View in: Pubmed

Multiple conformations in the ligand-binding site of the yeast nuclear pore-targeting domain of Nup116p. J Biol Chem. 2005 Oct 21; 280(42):35723-32. View in: Pubmed

A genome-wide in situ hybridization map of RNA-binding proteins reveals anatomically restricted expression in the developing mouse brain. BMC Dev Biol. 2005 Jul 20; 5:14. View in: Pubmed

Chromosome-wide mapping of estrogen receptor binding reveals long-range regulation requiring the forkhead protein FoxA1. Cell. 2005 Jul 15; 122(1):33-43. View in: Pubmed

Genomic mapping of RNA polymerase II reveals sites of co-transcriptional regulation in human cells. Genome Biol. 2005; 6(8):R64. View in: Pubmed

Ufd1 exhibits the AAA-ATPase fold with two distinct ubiquitin interaction sites. Structure. 2005 Jul; 13(7):995-1005. View in: Pubmed

Developmentally induced changes in transcriptional program alter spatial organization across chromosomes. Genes Dev. 2005 May 15; 19(10):1188-98. View in: Pubmed

The psammaplysenes, specific inhibitors of FOXO1a nuclear export. J Nat Prod. 2005 Apr; 68(4):574-6. View in: Pubmed

HIV-1 incorporates and proteolytically processes human NDR1 and NDR2 serine-threonine kinases. Virology. 2005 Jan 05; 331(1):181-9. View in: Pubmed

A systems view of mRNP biology. Genes Dev. 2004 Dec 01; 18(23):2845-60. View in: Pubmed

Class II integrase mutants with changes in putative nuclear localization signals are primarily blocked at a postnuclear entry step of human immunodeficiency virus type 1 replication. J Virol. 2004 Dec; 78(23):12735-46. View in: Pubmed

Genome-wide mRNA surveillance is coupled to mRNA export. Genes Dev. 2004 Nov 01; 18(21):2652-62. View in: Pubmed

Identification of an evolutionarily conserved domain in human lens epithelium-derived growth factor/transcriptional co-activator p75 (LEDGF/p75) that binds HIV-1 integrase. J Biol Chem. 2004 Nov 19; 279(47):48883-92. View in: Pubmed

Human cell proteins and human immunodeficiency virus DNA integration. Front Biosci. 2004 Sep 01; 9:3187-208. View in: Pubmed

Arginine methyltransferase affects interactions and recruitment of mRNA processing and export factors. Genes Dev. 2004 Aug 15; 18(16):2024-35. View in: Pubmed

PRMT3 is a ribosomal protein methyltransferase that affects the cellular levels of ribosomal subunits. EMBO J. 2004 Jul 07; 23(13):2641-50. View in: Pubmed

REF-ereeing the cytoplasmic fate of mRNA via nuclear export. Dev Cell. 2004 Jun; 6(6):740-2. View in: Pubmed

Genome-wide localization of the nuclear transport machinery couples transcriptional status and nuclear organization. Cell. 2004 May 14; 117(4):427-39. View in: Pubmed

Guardian at the gate: preventing unspliced pre-mRNA export. Trends Cell Biol. 2004 May; 14(5):222-5. View in: Pubmed

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Nuclear protein transport. Methods Enzymol. 2002; 351:587-607. View in: Pubmed

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The Saccharomyces cerevisiae cyclin Clb2p is targeted to multiple subcellular locations by cis- and trans-acting determinants. J Cell Sci. 2001 Feb; 114(Pt 3):589-97. View in: Pubmed

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Diverse nuclear transport pathways regulate cell proliferation and oncogenesis. Biochim Biophys Acta. 2000 Jul 31; 1471(1):M31-41. View in: Pubmed

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SAC3 may link nuclear protein export to cell cycle progression. Proc Natl Acad Sci U S A. 2000 Mar 28; 97(7):3224-9. View in: Pubmed

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Mapping interactions between nuclear transport factors in living cells reveals pathways through the nuclear pore complex. Mol Cell. 2000 Jan; 5(1):133-40. View in: Pubmed

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The importin/karyopherin Kap114 mediates the nuclear import of TATA-binding protein. Proc Natl Acad Sci U S A. 1999 Oct 26; 96(22):12542-7. View in: Pubmed

Nuclear export of the small ribosomal subunit requires the ran-GTPase cycle and certain nucleoporins. Genes Dev. 1999 Aug 15; 13(16):2118-33. View in: Pubmed

Uncoupling of the hnRNP Npl3p from mRNAs during the stress-induced block in mRNA export. Genes Dev. 1999 Aug 01; 13(15):1994-2004. View in: Pubmed

Slk19p is a centromere protein that functions to stabilize mitotic spindles. J Cell Biol. 1999 Jul 26; 146(2):415-25. View in: Pubmed

Nuclear transport HEATs up. Nat Cell Biol. 1999 Jul; 1(3):E66-7. View in: Pubmed

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A role for the DnaJ homologue Scj1p in protein folding in the yeast endoplasmic reticulum. J Cell Biol. 1998 Nov 16; 143(4):921-33. View in: Pubmed

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The yeast dynactin complex is involved in partitioning the mitotic spindle between mother and daughter cells during anaphase B. Mol Biol Cell. 1998 Jul; 9(7):1741-56. View in: Pubmed

A member of the Ran-binding protein family, Yrb2p, is involved in nuclear protein export. Proc Natl Acad Sci U S A. 1998 Jun 23; 95(13):7427-32. View in: Pubmed

Use of time-lapse microscopy to visualize rapid movement of the replication origin region of the chromosome during the cell cycle in Bacillus subtilis. Mol Microbiol. 1998 Jun; 28(5):883-92. View in: Pubmed

Nucleocytoplasmic transport and cell proliferation. Biochim Biophys Acta. 1998 Apr 17; 1377(2):M39-47. View in: Pubmed

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Arginine methylation facilitates the nuclear export of hnRNP proteins. Genes Dev. 1998 Mar 01; 12(5):679-91. View in: Pubmed

The Kar3p and Kip2p motors function antagonistically at the spindle poles to influence cytoplasmic microtubule numbers. J Cell Sci. 1998 Feb; 111 ( Pt 3):295-301. View in: Pubmed

HIV-1 Vpr interacts with the nuclear transport pathway to promote macrophage infection. Genes Dev. 1998 Jan 15; 12(2):175-85. View in: Pubmed

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Nuclear protein import is decreased by engineered mutants of nuclear transport factor 2 (NTF2) that do not bind GDP-Ran. J Mol Biol. 1997 Oct 10; 272(5):716-30. View in: Pubmed

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The NTF2 gene encodes an essential, highly conserved protein that functions in nuclear transport in vivo. J Biol Chem. 1996 Aug 02; 271(31):18477-84. View in: Pubmed

A novel methyltransferase (Hmt1p) modifies poly(A)+-RNA-binding proteins. Mol Cell Biol. 1996 Jul; 16(7):3668-78. View in: Pubmed

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A protein that shuttles between the nucleus and the cytoplasm is an important mediator of RNA export. Genes Dev. 1996 May 15; 10(10):1233-46. View in: Pubmed

Potential RNA binding proteins in Saccharomyces cerevisiae identified as suppressors of temperature-sensitive mutations in NPL3. Genetics. 1996 Jan; 142(1):103-15. View in: Pubmed

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