Silver: Publications (2000-)

Back to publications

2011

 * Delebecque CJ, Lindner AB, Silver PA, and Aldaye FA. Organization of intracellular reactions with rationally designed RNA assemblies.  Science, 2011. in press. (published online in ScienceExpress June 23, 2011.


 * Haynes KA, Silver P. Synthetic reversal of epigenetic silencing. J Biol Chem. 2011 Jun 12. [Epub ahead of print]


 * Ducat D, Sachdeva G and Silver PA. Rewiring Hydrogenase-dependent Redox Circuits in Cyanobacteria.  2011.  Proc Natl Acad Sci, 108:3941-6.


 * Ducat D, Way J, and Silver PA. Engineering Cyanobacteria to Generate High-Value Products.  2011.  Trends in Biotechnology, Feb;29(2):95-103. Epub 2011 Jan 5.


 * Burrill D and Silver PA. Synthetic circuit identifies sub-populations with sustained memory of DNA damage.  2011.  Genes & Dev., 25:434-9.


 * Smolke CD and Silver PA. Informing biological design by integration of systems and synthetic biology.  2011.  Cell, 144:855-9.


 * Agapakis CM, Niederholtmeyer H, Noche RR, Lieberman TD, Megason SG, Way JC and Silver PA. 2011. Towards a synthetic chloroplast. PLoS One, Apr 20;6(4):e18877.


 * Senapedis WT, Kennedy CJ, Boyle PM and Silver PA. Whole genome siRNA cell-based screen links mitochondria to Akt signaling network through uncoupling of electron transport chain.  2011.  Mol Biol Cell., May;22(10):1791-805. Epub 2011 Apr 1.


 * Waks Z, Klein AM and Silver PA. Cell-to-cell variability of alternative RNA splicing.  2011.  Nature Mol Systems Biol.  accepted for publication.


 * Shih J, Waks Z, Kedersha N, Silver PA. Visualization of single mRNAs reveals temporal association of proteins with microRNA-regulated mRNA.  2011.  Nuc Acids Res. Jun 7. [Epub ahead of print].


 * Barstow B, Agapakis CM, Boyle PM, Grandl G, Silver PA and Wintermute EH. A synthetic system links FeFe-hydrogenases to essential E. coli sulfur metabolism.  2011.  J Biol Eng. May 26;5(1):7. [Epub ahead of print].


 * Burrill D and Silver PA. Recording cellular experience of DNA damage.  2011.  Cell Cycle, Aug 1;10(15).[Epub ahead of print]in press.


 * Way JC, Silver PA and Howard RJ. Sun-driven microbial synthesis of chemicals in space.  2011.  International Journal of Astrobiology.  In press.

2010

 * Agapakis C. Mixed Cultures:art, science and cheese. 2010 Scientific American


 * Aldaye FA, Senapedis WT, Silver PA, and Way JC. A structurally tunable DNA-based extracellular matrix.  2010.  JACS, 132:14727-9.


 * Wintermute EH and Silver PA. Dynamics in the mixed microbial concourse. 2010 Genes and Development, 24:2603-14.


 * Wintermute EH and Silver PA. Emergent cooperation in microbial metabolism.  2010. Nature Mol Sys Biol., 6:407.


 * Moore MJ, Wang Q, Kennedy CJ and Silver PA. An alternative splicing network links cell cycle control to apoptosis. 2010.  Cell, 142:625-36.


 * Waks Z and Silver PA. Nuclear origins of cell-to-cell variability.  2010.  Cold Spring Harbor 75th Symposium in Quantitative Biology.


 * Niederholtmeyer, H, Wolfstadter, BT, Savage, DF, Silver PA, and Way JC. Engineering synthesis and export of hydrophilic products from cyanobacteria.  2010. App. & Env. Engineering, 76(11)3462-6.


 * Savage DF*, Afonso B*, Chen A and Silver PA. Spatially ordered dynamics of the bacterial carbon fixation machinery.  2010.  Science, 327:1258-61


 * Agapakis C, Ducat D, Boyle PM, Wintermute EH, Way JC and Silver PA. Insulation of a synthetic hydrogen metabolism circuit in bacteria.  2010.  J. of Biol. Eng., Feb 25.


 * Afonso B, Silver PA, and Ajo-Franklin C. A synthetic circuit for selectively arresting daughter cell to create aging populations. 2010. Nucleic Acids Res., Jan 26.


 * Burrill, DR and Silver, PA. Making Memories.  2010.  Cell, 140:13-18. (Free Featured Article)


 * Taylor N, Way J, Silver PA, and Cironi P. An erythropoietin-derived chimeric protein with improved red-cell line lineage. 2010. Protein Engineering and Design, Jan 18.


 * Agapakis C and Silver PA. Modular electron transfer circuits for synthetic biology: insulation of an engineered biohydrogen pathway.  2010. Bioengineered Bugs, in press


 * Wang QQ and Silver PA. Genome-wide RNAi Screen Discovers Functional Coupling of Alternative Splicing and Cell Cycle Control to Apoptosis Regulation. 2010.  Cell Cycle.


 * Silver PA. Knowing when to change: Reprogramming (my) life.  2010.  Nature Cell Biology, 8:730.

2009

 * Haynes, K and Silver, PA Eukaryotic systems broaden the scope of synthetic biology.  2009.  J Cell Biol. 187:589-96.


 * Kennedy, CJ*, Boyle, PM*, Waks, Z, and Silver, PA Systems-level engineering of non-fermentative metabolism in yeast.  2009. Genetics, 183:385-97.


 * Lee, S., Dudley, AM, Drubin, D., Silver, PA, Krogan, N., Pe'er, D., and Koller, D. Learning a Prior on Regulatory Potential from eQTL data.  2009,  PLos Genetics Jan5(1):e1000358.


 * Waks, Z. and Silver, PA. Engineering a synthetic dual organism system for hydrogen production. 2009.  Applied and Environmental Microbiology.  75:1867-75.


 * Boyle, P. and Silver, PA. Harnessing nature's toolbox: regulatory elements for synthetic biology.  2009.  Journal of the Royal Society.  4:535-46.


 * Hurt, J., Farny, N. and Silver, PA. A conserved CCCH-zinc finger type protein regulates mRNA nuclear adenylation and export.  2009.  J. Cell Biol., 185:279-290.


 * Agapakis, CM. and Silver, PA. Synthetic Biology: Exploring and exploiting genetic modularity through the design of novel biological networks.  2009.  Molecular BioSystems, 5:704-713. (special issue)


 * Farny, N., Kadersha, NL, and Silver, PA. Metazoan stress granule assembly is mediated by eIF2a-dependent and independent mechanisms.  2009. RNA, 15:1814-21.


 * Birmingham, A., Selfors, LM, Wrobel, D, Kennedy, CJ, Shanks, E, Santoyo-Lopez, J, Dumican, DJ, Long, A, Kelleher, D, Smith, Q, Beijersbergen, RL, Ghazi, P and Shamu, C. Statistical methods for analysis of high-throughput RNA interference screens.  2009.  Nature Methods, 8:569-75.

2008

 * Farny, NG, Hurt, JA and Silver, PA. Definition of global and transcript-specific mRNA export pathways in metazoans.  2008.  Genes & Dev., 22:66-78.


 * Savage, DF, Way, J and Silver, PA. Defossilling fuel: how synthetic biology can transform biofuel production. 2008.  ACS Chem. Biol.  3:13-6.


 * Cironi, P, Swinburne, IA, and Silver, PA. Enhancement of cell-type specificity by quantitative modulation of a chimeric ligand.  2008.  J. Biol Chem. 283:8469-76.


 * Frietze, S., Lupien, M., Silver, PA and Brown, M. CARM1 regulates estrogen-stimulated breast cancer growth through up-regulation of E2F1.  2008.  Cancer Research.  68:301-306.


 * Moore, M. and Silver, PA. Global analysis of mRNA splicing.  2008. RNA, 14:66-78.


 * Komili, S. and Silver, PA. Coupling of gene expression mechanisms - insights from global studiess. 2007.  Nature Reviews in Genetics. 9:38-48.


 * Brown, CR, Kennedy, CJ, Delmar, VA, Forbes, DJ, and Silver, PA. Global histone acetylation induces functional genomic reorganization at mammalian nuclear pore complexes.  2008.  Genes and Dev., 22:627-39.


 * Swinburne IA, and Silver PA. Intron delays and transcriptional timing during development. Dev Cell. 2008 Mar;14(3):324-30.


 * Swinburne IA, Miguez, D, Landgraf, D and Silver, PA. Intron length increases oscillatory periods of gene expression in animal cells.  2008.  Genes & Dev., 22:2342-6.


 * Hurt, JA and Silver, PA. mRNA export and human disease.  2008.  Disease Models and Mechanisms, 1:103-108.

2007

 * Drubin, DA, Way, JC, and Silver, PA. Designing Biological Systems.  2007.  Genes and Development, 21:242-54


 * Ajo-Franklin, CM, Drubin, DA, Eskin, J., Gee, E., Landgraf, D., Philips, I. and Silver, PA. Rational design of memory in eukaryotic cells.  2007. Genes and Development, 2271-6.


 * Komili, S., Farny, NG, Roth, FP and Silver, PA. Functional specificity among ribosomal proteins regulates gene expression.  2007. Cell 131:557-71.


 * Way, J. and Silver, PA. Molecular systems biology in drug development.  2007.  Clinical Pharmacology and Therapeutics, 82:586-90.


 * Brown, CR and Silver, PA. Transcriptional regulation at the nuclear pore complex.  2007.  Curr. Opin Genet Dev. 2:100-6.


 * Zhou, Z.*, Cironi, P.*, Lin, AJ.*, Xu, Y., Hrvatin, S., Golan, DE., Silver, PA., Walsh, CT., Yin, J. Genetically encoded short peptide tags for orthogonal protein labeling by Sfp and AcpS phosphopantetheinyl transferases. 2007. ACS Chemical Biology, 2:337-346. (* These authors contribute equally)


 * Arbiser, JL, Kau, T., Silver, PA, Bain, J., Bai, X., and Bowen, P. Solenopsin, the alkaloidal component of the fire ant (Solenopsis invicta), is a naturally occurring inhibitor of phosphatidylinositol-3-kinase signaling and angiogenesis. 2007. Blood, 109:560-5.


 * Silver, PA. Why do so few women speak at scientific meetings.  2007. Nature 446:856.


 * McKee, AE and Silver, PA. 2007. Systems perspective on mRNA processing.  2007.  Cell Research, 7:581-90.


 * Way, J. and Silver, PA. Systems engineering without an engineer:  Why we need systems biology.  2007, Complexity, 13:22-29.


 * McKee, A., Neretti, N., Carvalho, LE, Meyer, CA, Fox, EA, Brodsky, AS, and Silver, PA, Exon expression profiling reveals stimulus-mediated exon use in neural cells.  2007.  Genome Biology, in R15.


 * Silver. PA. Academic snakes and ladders.  2007. Nature 11:449.

2006

 * Moore, M., Schwartzfarb, EM, Silver, PA and Yu, MC. Differential recruitment of the splicing machinery during transcription predicts genome-wide patterns of mRNA splicing.  2006.  Molecular Cell,  24:903-915.


 * Yu, MC, Lamming, DW, Eskin, JA, Sinclair, DA, and Silver, PA. The role of protein arginine methylation in formation of silent chromatin.  2006,  Genes and Development, 20:3249-54.


 * Gama-Carva;ho, M., Barbosa-Morais, N., Brodsky, A., Silver, PA and Carmo-Fonesca, M. Genome wide identification of  functionally distinct subsets of cellular mRNAs associated with two nucleocytoplasmic-shuttling mammalian splicing factors.  2006.  Genome Biology, in press.


 * Tsankov, A., Brown, C., Yu, M., Win, M., Silver, PA. and Casolari, J.  Communication between levels of transcriptional organization improve robustness and adaptivity. 2006, Molecular Systems Biology, 2:65 (featured article)


 * Goffin, L., Vodala, S., Fraser, C., Ryan, J., Timms, M., Meusburger, S., Catimel, B., Nice, EC, Silver, PA., Xiao, CY, Jans, DA., and Gething, MJ. The unfolded protein response transducer Ire1p contains a nuclear localization sequence recognized by multiple beta importins.  2006. Mol Bio   Cell, 17:5309-5322.


 * Carroll, JS, Meyer, CA, Song, J., Li, W., Geistlinger, TR, Eeckhoute, J., Brodsky, A., Krasnickas, K., Fertuck, KC, Hall, G., Wang, Q., Bekiranov, S., Sementchenko, V., Fox, EF., Silver, PA, Gingeras, T., Liu, XS, and Brown, M. Genome-wide analysis of estrogen receptor binding sites.  2006.  Nature Genetics, 38:1289-97.


 * Phillips I, Silver P, A New Biobrick Assembly Strategy Designed for Facile Protein Engineering, MIT Synthetic Biology Working Group Reports, published online 20 April 2006 at MIT dspace (doi: 1721.1/32535)


 * Auld, K., Hitchcock, AL, Doherty, HK,  Frietze, S.,  Huang, LS and Silver PA .  A conserved ATPase Get3/Arr4 modulates the activity of membrane-associated proteins in Saccharomyces cerevisiae.  2006.  Genetics, 174:215-27.


 * Auld, K. and Silver, PA. Transcriptional regulation by the proteasome as a mechanism for cellular protein homeostasis.  2006.  Cell Cycle Abstract.


 * McKee, A. and Silver, PA. Systems Biology of Gene Regulation Fulfils its Promise.  2006.  Genome Biology 7:316.


 * Swinburne, IA., Meyer, CA., Liu, S., Silver, PA, and Brodsky, AS. Genomic localization of RNA binding proteins reveals links between pre-mRNA processing and transcription,  2006.  Genome Research, Abstract.


 * Drubin, DA., Garakani, AM., and Silver, PA. Motion as phenotype.  The use of live-cell imaging and machine visual screening to characterize transcription-dependent chromosome dynamics.  2006.  BMC Cell Biology, 7:19. Abstract.


 * Brown, CR and Silver, PA. Poreing the right dose. 2006.  Nature Cell Biology 8:430-1.


 * Auld, KL., Brown, CR., Casolari, JM., Komili, S. and Silver, PA. Genomic Association of the Proteasome Demonstrates Overlapping Gene Regulatory Activity with Transcription Factor Substrates.  2006. Molecular Cell, 21:861-871. Absract.


 * Bachand, F., Lackner, D., Bahler, J., and Silver, PA. Autoregulation of ribosome bio-synthesis by a translational response in fission yeast.  2006.  Mol Cell Biol., 26:1731-42. Absract


 * Vandegraaff, N., Devroe, E., Turlure, F., Silver, P.A., and Engelman, A. Genetic and biochemical analyses of integrase-interaction proteins lens epithelium-derived growth factor (LEDGF/p75) and hepatoma-derived growth factor 2 (HRP2) in preintegration complex formation and HIV replication.  2006, Virology, in press. Abstract


 * Hitchcock, A.L., Kahana, J.A., and Silver, P.A. The uses of green fluorescent protein in yeasts.  2006.  Methods Biochem Anal. 47:179-201

2005

 * Robinson, M.A., Park, S., Sun, Z.Y., Silver, P.A., Wagner, G., and Hogle, J.M. Multiple conformations in the ligand-binding  site of the yeast nuclear pore targeting domain of Nup116p J.  Biol. Chem. 2005. Aug 16. Abstract
 * Brodsky, A.S., Meyer, C.A., Hall, G., Swinburne, I.A., Keenan, B.J., Liu, X.S., Fox, E.A., and., Silver, P.A. Genomic mapping  of RNA Polymerase II reveals sites of co-transcriptional regulation  in human cells. Genome Biology. 2005. Jul 15:6(8): R64  Abstract
 * McKee, A.E., Minet, E., Stern, C., Riahi, S., Stiles, C.D., and., Silver, P.A. A genome-wide in situ hybridization map of  RNA-binding proteins reveals anatomically restricted expression  in the developing mouse brain. BMC Dev Biol. 2005. July  20;5(1):14 Abstract Full data set available here.
 * Carrol, J.S., Liu, X.S., C.R., Brodsky, A.S., Meyer, C.A., Li, W., Szary, A., Shao, W., Hesterman, E., Geistlinger, T.R.,  Fox, E.A., Silver, P.A., and Brown, M. Chromosome-wide mapping  of estrogen receptor binding reveals long-range combinatorial  regulation requiring forkhead proteins. Cell. 2005. July  15;122(1):33-43 Abstract
 * Park, S., Isaacson, R., Kim, H.T., Silver, P.A., and Wagner, G. Ufd1 exhibits the AAA-ATPase fold with two distinct ubiquitin  interaction sites. Structure (Camb) 2005. Jul; 13(7):995-1005.  Abstract
 * Casolari, J.M., Brown, C.R., Drubin, D.A., Rando, O.J., and Silver, P.A. Developmentally induced changes in transcriptional  program alter spatial organization across chromosomes. Genes  Dev. 2005. May 15;19(10):1188-98. Abstract
 * Schroeder, F.C., Kau, T.R., Silver, P.A., and Clardy, J. The psammaplysenes, specific inhibitors of FOXO1a nuclear export.  J Nat Prod 2005. Apr; 68(4):574-6. Abstract
 * Devroe, E., Silver, P.A., and Engelman, A. HIV-1 incorporates and proteolytically processes human NDR1 and NDR2 serine-threonine  kinases. Virology 2005. Jan 5; 331(1):181-9. Abstract

2004

 * Hieronymus, H., and Silver, P.A. A systems view of mRNP biology. Genes Dev.</B> 2004. Dec 1,18(23):2845-60.Abstract
 * Lu, R., Limon, A., Devroe, E., Cherepanov, P., Silver, P.A., and Engelman, Class II integrase mutants with changes in putative  nuclear localization signals are primarily blocked at a post-nuclear  entry step of human immunodeficiency virus type 1 replication.  J. Virol.</B> 2004. Dec; 78(23):12735-46.Abstract
 * Hieronymus, H., Yu, M.C., and Silver, P.A. Genome-wide mRNA surveillance is coupled to the mRNA export. Genes Dev.</B> 2004.  Nov 1; 18(21):2652-62.Abstract
 * Silver, P.A. and Way, Jeffrey. The potential for synthetic biology. The Scientist.</B> 2004. Sept. 27; 18(18);30-1. Epub
 * Cherepanov, P., Devroe, E., Silver, P.A., and Engelman, A. Identification of an evolutionarily-conserved domain in LEDGF/p75  that binds HIV-1 integrase. J. Biol. Chem.</B> 2004; Sept. 14. Epub
 * Turlure, F., Devroe, E., Silver, P.A., and Engelman, A. Human cell proteins and human immunodeficiency virus DNA integration.  Front Biosci.</B> 2004; Sept. 1; 9:3187-208. Abstract
 * Yu, M.C., Bachand F., McBride, A.E., Komili, S., Casolari, J.M., and Silver, P.A. Arginine methyltransferase affects interactions  and recruitment of mRNA processing and export factors. Genes  Dev</B> 2004, Aug. 15. 18(16):2024-35. Abstract
 * McKee A.E.. and Silver, P.A. REF-ereeing the cytoplasmic fate of mRNA via nuclear export. Dev Cell</B> 2004. July  7; 23(13):2641-50.Abstract
 * Bachand, F. and Silver, P.A. PRMT3 is a ribosomal protein methyltransferase that affects the cellular levels of ribosomal  subunits. EMBO J</B> 2004. July 7; 23(13):2641-50.Abstract
 * Casolari, J.M., Brown, C.R., Komili, S., West, J., Hieronymus, H., and Silver, P.A. Genome-wide localization of the nuclear  transport machinery reveals coupling of transcriptional status  and nuclear organization. Cell.</B> 2004. May 14; 117(4):427-39.Abstract
 * Casolari, J.M. and Silver, P.A. Guardian at the gate: preventing unspliced pre-mRNA export. Trends Cell B iol.</B> 2004.  May, 14(5):222-5 Abstract
 * Devroe, E., Erdjument-Bromage, H., Tempst, P., and Silver, P.A. Human Mob proteins regulate the NDR1 and NDR2 serine-threonine  kinases. JBC.</B> April 2, 2004. Abstract
 * Devroe, E., and Silver, P.A. Therapeutic potential of retroviral RNAi vectors Expert Opin. Biol. Ther.</B> 2004; 4(3):319-27.
 * Kau, T.R., Way, J.C., and Silver, P.A. Nuclear transport and cancer: from mechanism to intervention. Nat. Rev. Cancer. </B> 2004; Feb; 4(2):106-17. Abstract
 * Jiang, Y., Minet, E., Zhang, Z., Silver, P.A., and Bai, M. Modulation of interprotomer relationship is important for activation  of dimeric calcium-sensing receptor. J. Biol. Chem.</B> 2004. Abstract
 * Pierrat, B., Simonen, M., Cueto, M, Mestan, J., Ferrigno, P and Heim, J. SH3GLB, a new endophilin-related protein family featuring an SH3 domain,  Genomics 2004 15:222-234. (work done in Silver lab in collaboration with Novartis)

2003

 * Kau, T.R., Schroeder, F., Ramazwamy, S., Wojciechowski, C.L., Zhao, J.J., Roberts, T.M., Clardy, J., Sellers, W.R., and Silver,  P.A. A Chemical genetic screen identifies inhibitors of regulated  nuclear export of a Forkhead transcription factor in PTEN deficient  tumor cells. Cancer Cell.</B> 2003; 4(6):463-76. Abstract
 * Haggarty, S.J., Koeller, K.M., Kau, T.R., Silver, P.A., Roberge, M., and Schreiber, S.L. Small molecule modulation of the human  chromatid decatenation checkpoint. <B>Chem. Biol.</B> 2003; 10(12):1267-79.  Abstract
 * Hitchcock, A.L., Auld, K., Gygi, S.P., and Silver, P.A. A subset of membrane-associated proteins is ubiquitinated in response  to mutations in the endoplasmic reticulum degradation machinery.  <B>Proc. Nat. Acad. Sci</B>.<B></B> 2003, 100(22):12735-40.Abstract
 * Devroe, E., Engelman, A., and Silver, P.A. Intracellular transport of human immunodeficiency virus type 1 integrase <B>J. Cell.  Sci.</B> 2003; 116(Pt21):4401-8. Abstract
 * Brodsky, A.S,, Johnston, A.P,, Trau, M., and Silver, P.A. Analysis of RNA-protein interactions by flow cytometry. <B>Curr.  Opin. Mol. Ther</B> 2003; 5(3):235-40. Abstract
 * Kau, T.R. and Silver, P.A. Nuclear transport as a target for cell growth. <B>Drug Discov. Today.</B> 2003; 8(2):78-85. Abstract
 * Hieronymus, H. and Silver, P.A. Genome-wide analysis of RNA-protein interactions illustrates specificity of the mRNA export machinery.  <B>Nat. Genet.</B> 2003; 33(2):155-61. Abstract
 * Beilharz T., Egan, B., Silver, P.A. Hofmann, K., and Lithgow, T. Bipartite signals mediate subcellular targeting of tail-anchored  membrane protein in saccharomyces cerevisiae. <B>J. Biol. Chem. </B> 2003; [epub ahead of print].Abstract

2002

 * Damelin, M. and Silver, P.A. In situ analysis of spatial relationships between proteins of the nuclear pore complex. <B>Biophys J.</B> 2002;  83(6): 3626-36.Abstract
 * Brodsky, A.S. and Silver, P.A. A microbead-based system for identifying and characterizing RNA-protein interactions by flow  cytometry. <B>Mol Cell Proteomics</B> 2002; 1(12): 922-9. Abstract
 * Lei, E.P., Stern, C.A., Fahrenkrog, B., Krebber, H., Moy, T.I., Aebi, U. and Silver, P.A., Sac3 is an mRNA export factor  that localizes to the cytoplasmic fibrils of the nuclear pore  complex. <B>Mol Biol Cell</B> 2002; <I>In Press.</I>
 * Lei, E. P. and Silver, P.A. Intron status and 3'-end formation control cotranscriptional export of mRNA. <B>Genes Dev</B> 2002;  16: 2761-2766. Abstract
 * Limon A., Devroe, E., Lu, R., Ghory, H.Z., Silver, P.A., and Engelman, A. Nuclear localization of human immunodeficiency virus  type 1 preintegration complexes (PICs): V165A and R166A are pleiotropic  integrase mutants primarily defective for integration, not PIC  nuclear import. <B>J Virol.</B> 2002; 76(21): 10598-607.Abstract
 * Devroe, E. and Silver, P.A. Retrovirus-delivered siRNA. <B>BMC Biotechnol.</B> 2002; 2(1): 15. Abstract
 * Moy, T.I., and Silver, P.A. Requirements for the nuclear export of the small ribosomal subunit. <B>J Cell Sci</B> 2002; 115 (Pt  14): 2985-95.Abstract
 * Damelin, M., Silver, P.A., and Corbett, A.H. Nuclear protein transport. <B>Methods Enzymol.</B> 2002; 351:587-607.
 * Brodsky, A..S. and Silver, P.A. Identifying proteins that affect mRNA localization in living cells. <B>Methods</B> 2002;  26(2):151-5.
 * Moy, T.I., Boettner, D., Rhodes, J.C., Silver, P.A., and Askew, D.S. Identification of a role for Saccharomyces cerevisiae Cgr1p  in pre-rRNA processing and 60S ribosome subunit synthesis. <B>Microbiology </B> 2002; 148 (Pt 4): 1081-1090. Abstract
 * Damelin, M., Simon, I., Moy, T.I., Wilson, B., Komili, S., Tempst, P., Roth, F.P., Young, R.A., Carins, B.R., and Silver,  P.A. The genome-wide localization of Rsc9, a component of the  RSC chromatin-remodeling complex, changes in response to stress.  <B>Mol Cell</B> 2002; 9 (3): 563-73. Abstract
 * Lei, E.P. and Silver, P.A. Protein and RNA export from the nucleus. <B>Dev Cell.</B> 2002; 2 (3): 261-72. Abstract
 * Valentini, S.R., Casolari, J.M., Oliveira, C.C., Silver, P.A. and McBride, A.E. Genetic interactions of yeast eukaryotic translation  initiation factor 5A (eIF5A) reveal connections to poly(A)-binding  protein and protein kinase C signaling. <B>Genetics</B> 2002;  160 (2): 393-405. Abstract

2001

 * Hitchcock, A.L., Krebber, H., Frietze, S., Lin, A., Latterich, M., and Silver, P.A. The conserved Npl4 protein complex mediates  proteasome-dependent membrane-bound transcription factor activation.  <B>Mol Biol Cell</B> 2001; 12 (10): 3226-3241. Abstract
 * Lei, E.P., Krebber, H., and Silver, P.A. Messenger RNAs are recruited for nuclear export during transcription. <B>Genes Dev. </B> 2001; 15(14): 1771-1782. Abstract
 * McBride, A.E. and Silver, P.A. State of the Arg: Protein methylation at arginine comes of age. <B>Cell</B> 2001; 106(1): 5-8.
 * Tham, W., Wyithe, J.S., Ferrigno, P.K., Silver, P.A., and Zakian, V.A. Localization of yeast telomeres to the nuclear periphery  is separable from transcriptional repression and telomere stability  functions. <B>Mol Cell</B> 2001; 8(1): 189-199. Abstract
 * Hood, J.K., Hwang, W.W., and Silver, P.A. The Saccharomyces cerevisiae cyclin Clb2p is targeted to multiple subcellular locations  by cis- and trans-acting determinants. <B>J. Cell Sci.</B> 2001;  114 (3): 589-597. Abstract

2000

 * Brodsky, A.S. and Silver, P.A. Pre-mRNA processing factors are required for nuclear export. <B>RNA</B> 2000; 6(12): 1737-1749.Abstract
 * Colas, P., Cohen, B., Ferrigno, P.K., Silver, P.A., and Brent, R. Targeted modification and transportation of cellular proteins.  <B>Proc.Natl.Acad.Sci. USA</B> 2000 Dec 5; 97(25): 13720-13725.  Abstract
 * Weiss, V. H., McBride, A. E., Kim, H. K., Hogle, J. M., and Silver, P. A. The structure and oligomerization of the yeast  arginine methyltransferase, Hmt1. <B>Nat. Struct. Biol.</B> 2000;  7: 1165-1171. Abstract
 * Stage-Zimmermann, T., Schmidt, U. and Silver, P.A. Factors Affecting Nuclear Export of the 60S Ribosomal Subunit In Vivo.  <B>Mol Biol Cell</B> 2000 Nov;11(11):3777-3789. Abstract
 * Krebber, H. and Silver, P.A. Directing proteins to nucleus by fusion to nuclear localization signal tags. <B>Methods Enzymol</B>  2000;327:283-96. Abstract
 * Prinz, W.A., Grzyb, L., Veenhuis, M., Kahana, J.A., Silver, P.A. and Rapoport, T.A. Mutants affecting the structure of the  cortical endoplasmic reticulum in Saccharomyces cerevisiae. <B>J  Cell Biol</B> 2000 Aug 7;150(3):461-74. Abstract
 * Hood, J.K. and Silver, P.A. Diverse nuclear transport pathways regulate cell proliferation and oncogenesis.<B> Biochim Biophys  Acta</B> 2000 Jul 31;1471(1):M31-41. Abstract
 * Shen, E.C., Stage-Zimmermann, T., Chui, P., and Silver, P.A. The yeast mRNA binding protein Npl3p interacts with the Cap Binding  Complex. <B>J. Biol. Chem.</B> 2000 May 22. Abstract
 * Ferrigno, P. and Silver, P.A. Polyglutamine expansions: proteolysis, chaperones, and the dangers of promiscuity. <B>Neuron</B> 2000  Apr;26(1):9-12. Abstract
 * Hood, J.K., Casolari, J.M., and Silver, P.A. Nup2p is located on the nuclear side of the nuclear pore complex and coordinates  Srp1p/importin-alpha export. <B>J. Cell Sci.</B> 2000 Apr;113  (Pt 8):1471-80. Abstract
 * Jones, A.L., Quimby, B.B., Hood, J.K., Ferrigno, P., Keshava, P.H., Silver, P.A., and Corbett, A.H. SAC3 may link nuclear protein  export to cell cycle progression. <B>Proc. Natl. Acad. Sci. USA</B>  2000 Mar 28;97(7):3224-9. Abstract
 * McBride, A.E., Weiss, V.H., Kim, H.K., Hogle, J.M., and Silver, P.A. Analysis of the yeast arginine methyltransferase Hmt1p/Rmt1p  and its in vivo function. Cofactor binding and substrate interactions.  <B>J. Biol. Chem.</B> 2000 Feb 4;275(5):3128-36. Abstract
 * Damelin, M. and Silver, P.A. Mapping interactions between nuclear transport factors in living cells reveals pathways through  the nuclear pore complex. <B>Mol. Cell</B> 2000; 5: 133-140.  Abstract