Proteomics & Microchemistry: Publications

Chang, J., Schwer, B., Shuman, S. Structure-function analysis and genetic interactions of the yeast branchpoint binding protein Msl5. Nucleic Acids Res. 2012 Jan 28 [Epub ahead of print]

Beverly, L.J., Lockwood, W.W., Shah, P.P., Erdjument-Bromage, H., Varmus, H. Ubiquitination, localization, and stability of an anti-apoptotic BCL2-like protein, BCL2L10/BCLb, are regulated by Ubiquilin1. Proc. Natl. Acad. Sci. U.S.A. 2012 doi:10.1073 EPub January 10, 2012.

Quann, E.J., Lu, X., Altan-Bonnet, G., Huse, M. A cascade of protein kinase C isozymes promotes cytoskeletal polarization in T cells. Nat. Immunol. 2011 12:647-654.

Moulick,K., Ahn, J.H., Zong, H., Rodina, A., Cerchietti, L, Erica M. Gomes DaGama, E.M.G., Caldas-Lopes, E., Beebe, K., Perna, F., Hatzi, K., Ly P. Vu, L.P, Zhao, X., Zatorska, D., Taldone, T., Smith-Jones, P., Alpaugh, M.,, Gross, S.S., Pillarsetty, N., Ku, T., Lewis, J.S., Larson, S.M., Levine, R., Erdjument- Bromage, H., Guzman, M.L., Nimer, S.D., Melnick, A., Neckers, L., Chiosis, G. Affinity-based proteomics reveal cancer-specific networks coordinated by Hsp90. Nat. Chem Biol 2011 doi:10.1038/nchembio.670 Epub 2011 September 25.

Somwar, R., Erdjument-Bromage, H., Larsson, E. , Shum, D., Lockwood, W., Yang, G., Sander, C., Ouerfelli, O., Djaballah, H., Tempst, P., Varmus, H. Superoxide dismutase 1 (SOD1) is a target for a small molecule identified in a screen for inhibitors of the growth of lung adenocarcinoma cell Proc Natl Acad Sci U S A. 2011 Sep 27;108(39):16375-80. Epub 2011 Sep 19.

Cooper J, Li W, You L, Schiavon G, Pepe-Caprio A, Zhou L, Ishii R, Giovannini M, Hanemann CO, Long SB, Erdjument-Bromage H, Zhou P, Tempst P, Giancotti FG. Merlin/NF2 functions upstream of the nuclear E3 ubiquitin ligase CRL4DCAF1 to suppress oncogenic gene expression. Sci. Signal. 2011 August 30;4 (188) pt6. Epub 2011 Aug 23.

Schvartzman, J.M., Duijf, P.H., Sotillo, R., Coker, C., Benezra, R. Mad2 is a critical mediator of the chromosome instability observed upon Rb and p53 pathway inhibition. Cancer Cell 2011 19:701-4.

Quann, E.J., Liu, X., Altan-Bonnet, G., Huse, M. A cascade of protein kinase C isoenzymes promotes cytoskeletal polarization in T cells. Nat Immunol. 2011 12:647-654.

Schwer, B. Erdjument-Bromage, H. Shuman, S. Composition of yeast snRNPs and snoRNPs in the absence of trimethylguanosine caps reveals nuclear cap binding protein as a gained U1 component implicated in the cold-sensitivity of tgs1{Delta} cells. Nucleic Acid Research, 2011 1-14 doi:10.1093/nar/gkr279.

Abeyweera, T.P., Merino, E., Huse, M. Inhibitory signaling blocks activating receptor clustering and induces cytoskeletal retraction in natural killer cells. J.Cell Biol. 2011, 192:675-90.

Singla, N, Erdjument-Bromage, H, Muir, TW, Nikolov, DB. A semisynthetic Eph receptor tyrosine kinase provides insight into ligand-induced kinase activation. Chem. Biol. 2011, 18:361-71.

Escobar-Alvarez, S. Gardner J, Sheth A, Manfredi G, Yang G, Ouerfelli O, Heaney ML, Scheinberg DA. Inhibition of Human Peptide Deformylase Disrupts Mitochondrial Function. Mol. Cell Biol. 2010, 30:5099-109.

Li W, You L, Cooper J, Schiavon G, Pepe-Caprio A, Zhou L, Ishii R, Giovannini M, Hanemann CO, Long SB, Erdjument-Bromage H, Zhou P, Tempst P, Giancotti FG. Merlin/NF2 suppresses tumorigenesis by inhibiting the E3 ubiquitin ligase CRL4(DCAF1) in the nucleus. Cell 2010, 140:477-90.

Gao Z, Gammoh N, Wong PM, Erdjument-Bromage H, Tempst P, Jiang X. Processing of autophagic protein LC3 by the 20S proteasome. Autophagy 2010, 6:126-37.

Lee, C., Goldberg, J. Structure of Coatomer Cage Proteins and the Relationship among COPI, COPII, and Clathrin Vesicle Coats. Cell 2010, 142:123-132.

O'Reilly RJ, Dao T, Koehne G, Scheinberg D, Doubrovina E. Adoptive transfer of unselected or leukemia-reactive T-cells in the treatment of relapse following allogeneic hematopoietic cell transplantation. Semin Immunol. 2010, 22:162-72.

Villanueva J, Nazarian A, Lawlor K, Tempst P. Monitoring peptidase activities in complex proteomes by MALDI-TOF mass spectrometry. Nat Protoc. 2009;4:1167-83.

Schwer B, Schneider S, Pei Y, Aronova A, Shuman S. Characterization of the Schizosaccharomyces pombe Spt5-Spt4 complex. RNA. 2009, 7:1241-50.

Gao S, Alarcón C, Sapkota G, Rahman S, Chen PY, Goerner N, Macias MJ, Erdjument-Bromage H, Tempst P, Massagué J. Ubiquitin ligase Nedd4L targets activated Smad2/3 to limit TGF-beta signaling. Mol. Cell 2009, 13:457-68.

Lin HK, Wang G, Chen Z, Teruya-Feldstein J, Liu Y, Chan CH, Yang WL, Erdjument-Bromage H, Nakayama KI, Nimer S, Tempst P, Pandolfi PP. Phosphorylation-dependent regulation of cytosolic localization and oncogenic function of Skp2 by Akt/PKB. Nature Cell Biol. 2009, 11:420-32.

Usui T, Foster SS, Petrini JH. Maintenance of the DNA-damage checkpoint requires DNA-damage-induced mediator protein oligomerization. Mol Cell. 2009, 33(2):147-59.

Xiao A, Li H, Shechter D, Ahn SH, Fabrizio LA, Erdjument-Bromage H, Ishibe-Murakami S, Wang B, Tempst P, Hofmann K, Patel DJ, Elledge SJ, Allis CD. WSTF regulates the H2A.X DNA damage response via a novel tyrosine kinase activity. Nature. 2009, 457:57-62.

Parmigiani RB, Xu WS, Venta-Perez G, Erdjument-Bromage H, Yaneva M, Tempst P, Marks PA. HDAC6 is a specific deacetylase of peroxiredoxins and is involved in redox regulation. Proc Natl Acad Sci U S A. 2008, 105:9633-8.

Zhao X, Jankovic V, Gural A, Huang G, Pardanani A, Menendez S, Zhang J, Dunne R, Xiao A, Erdjument-Bromage H, Allis CD, Tempst P, Nimer SD. Methylation of RUNX1 by PRMT1 abrogates SIN3A binding and potentiates its transcriptional activity. Genes Dev. 2008, 22:640-53.

Villanueva J, Nazarian A, Lawlor K, Yi SS, Robbins RJ, Tempst P. A sequence-specific exopeptidase activity test (SSEAT) for “functional” biomarker discovery. Mol Cell Proteomics. 2008, 7:509-18.

Trojer P, Li G, Sims RJ 3rd, Vaquero A, Kalakonda N, Boccuni P, Lee D, Erdjument-Bromage H, Tempst P, Nimer SD, Wang YH, Reinberg D. L3MBTL1, a histone-methylation-dependent chromatin lock. Cell. 2007, 129:915-28.

Tanny JC, Erdjument-Bromage H, Tempst P, Allis CD. Ubiquitylation of histone H2B controls RNA polymerase II transcription elongation independently of histone H3 methylation. Genes Dev. 2007, 21:835-47.

Trotman LC, Wang X, Alimonti A, Chen Z, Teruya-Feldstein J, Yang H, Pavletich NP, Carver BS, Cordon-Cardo C, Erdjument-Bromage H, Tempst P, Chi SG, Kim HJ, Misteli T, Jiang X, Pandolfi PP. Ubiquitination regulates PTEN nuclear import and tumor suppression. Cell. 2007, 128:141-56.

Ooi SK, Qiu C, Bernstein E, Li K, Jia D, Yang Z, Erdjument-Bromage H, Tempst P, Lin SP, Allis CD, Cheng X, Bestor TH. DNMT3L connects unmethylated lysine 4 of histone H3 to de novo methylation of DNA. Nature. 2007, 448:714-7.

Wang X, Trotman LC, Koppie T, Alimonti A, Chen Z, Gao Z, Wang J, Erdjument-Bromage H, Tempst P, Cordon-Cardo C, Pandolfi PP, Jiang X. NEDD4-1 is a proto-oncogenic ubiquitin ligase for PTEN. Cell. 2007, 128:129-39.

Patke A, Mecklenbräuker I, Erdjument-Bromage H, Tempst P, Tarakhovsky A. BAFF controls B cell metabolic fitness through a PKC beta- and Akt-dependent mechanism. J Exp Med. 2006, 30;203:2551-62.

Scaglioni PP, Yung TM, Cai LF, Erdjument-Bromage H, Kaufman AJ, Singh B, Teruya-Feldstein J, Tempst P, Pandolfi PP. A CK2-dependent mechanism for degradation of the PML tumor suppressor. Cell. 2006, 126:269-83.

Barton WA, Tzvetkova-Robev D, Erdjument-Bromage H, Tempst P, Nikolov DB. Highly efficient selenomethionine labeling of recombinant proteins produced in mammalian cells. Protein Sci. 2006, 15:2008-13.

Yaneva M, Tempst P. Isolation and mass spectrometry of specific DNA binding proteins. Methods Mol Biol. 2006, 338:291-303.

He W, Dorn DC, Erdjument-Bromage H, Tempst P, Moore MA, Massagué J. Hematopoiesis controlled by distinct TIF1gamma and Smad4 branches of the TGFbeta pathway. Cell. 2006, 125:929-41.

Yaneva M, Kippenberger S, Wang N, Su Q, McGarvey M, Nazarian A, Lacomis L, Erdjument-Bromage H, Tempst P. PU.1 and a TTTAAA element in the myeloid defensin-1 promoter create an operational TATA box that can impose cell specificity onto TFIID function. J Immunol. 2006, 176:6906-17.

Villanueva J, Shaffer DR, Philip J, Chaparro CA, Erdjument-Bromage H, Olshen AB, Fleisher M, Lilja H, Brogi E, Boyd J, Sanchez-Carbayo M, Holland EC, Cordon-Cardo C, Scher HI, Tempst P. Differential exoprotease activities confer tumor-specific serum peptidome patterns. J Clin Invest. 2006, 116:271-84.

Seitan VC, Banks P, Laval S, Majid NA, Dorsett D, Rana A, Smith J, Bateman A, Krpic S, Hostert A, Rollins RA, Erdjument-Bromage H, Tempst P, Benard CY, Hekimi S, Newbury SF, Strachan T. Metazoan Scc4 homologs link sister chromatid cohesion to cell and axon migration guidance. PLoS Biol. 2006, 4:e242.