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RECENT PUBLICATIONS OF NOTE

2014

Glover SD, Jorge C, Liang L, Valentine KG, Hammarström L, Tommos C (2014) Photochemical tyrosine oxidation in the structurally well-defined α3Y protein: Proton-coupled electron transfer and a long-lived tyrosine radical. J Am Chem Soc 136(40):13941-14320.
PMID: 25121576

Moorman VR, Valentine KG, Bédard S, Kasinath V, Dogan J, Love FM, Wand AJ (2014) Dynamic and thermodynamic response of the Ras protein Cdc42Hs upon association with the effector domain of PAK3. Journal of Molecular Biology 426:3520–3538.
PMID: 25109462

DeNizio, JE, Elsässer SJ, Black BE (2014) DAXX co-folds with H3.3/H4 using high local stability conferred by the H3.3 variant recognition residues. Nucleic Acids Research 42(7):4318-4331.
PMID: 24493739

Spencer JA, Ferraro F, Roussakis E, Klein A, Wu J, Runnels JM, Zaher W, Mortensen LJ, Alt C, Turcotte R, Yusuf R, Côté D, Vinogradov SA, David T. Scadden DT, Lin CP (2014) Direct measurement of local oxygen concentration in the bone marrow of live animals. Nature PubMed PMID: 24590072

Valentine KG, Mathies G, Bédard S, Nucci NV, Dodevski I, Stetz MA, Can TV, Griffin RG, Wand AJ (2014) Reverse micelles as a platform for dynamic nuclear polarization in solution NMR of proteins. J Am Chem Soc 136(7):2800-2807. PubMed PMID: 24456213

Jackrel ME, DeSantis ME, Martinez BA, Castellano LM, Stewart RM, Caldwell KA, Caldwell GA, Shorter J (2014) Potentiated Hsp104 variants antagonize diverse proteotoxic misfolding events. Cell 156(1&2):170-182. PubMed PMID: 24439375

2013

D'Arcy S, Martin KW, Panchenko T, Chen X, Bergeron S, Stargell LA, Black BE, Luger K. (2013) Chaperone Nap1 shields histone surfaces used in a nucleosome and can put H2A-H2B in an unconventional tetrameric form. Mol Cell 51(5):662-677. PubMed PMID: 23973327

Hasson D, Panchenko T, Salimian KJ, Salman MU, Sekulic N, Alonso A, Warburton PE, Black BE (2013) The octamer is the major form of CENP-A nucleosomes at human centromeres. Nat Struct Mol Biol. 20(6):687-695. PubMed PMID: 23644596

Farid TA, Kodali G, Solomon LA, Lichtenstein BR, Sheehan MM, Fry BA, Bialas C, Ennist NM, Siedlecki JA, Zhao Z, Stetz MA, Valentine KG, Anderson JL, Wand AJ, Discher BM, Moser CC, Dutton PL (2013) Elementary tetrahelical protein design for diverse oxidoreductase functions.
Nat Chem Biol. doi: 10.1038/nchembio.1362. PubMed PMID: 24121554

Younis I, Dittmar K, Wang W, Foley SW, Berg MG, Hu KY, Wei Z, Wan L, Dreyfuss G (2013) Minor introns are embedded molecular switches regulated by highly unstable U6atac snRNA.
Elife. 2:e00780. doi: 10.7554/eLife.00780. PubMed PMID: 23908766

Kan ZY, Walters BT, Mayne L, Englander SW (2013) Protein hydrogen exchange at residue resolution by proteolytic fragmentation mass spectrometry analysis. Proc Natl Acad Sci USA 110(41):16438-16443. PubMed PMID: 24019478

Hu W, Walters BT, Kan ZY, Mayne L, Rosen LE, Marqusee S, Englander SW (2013) Stepwise protein folding at near amino acid resolution by hydrogen exchange and mass spectrometry.
Proc Natl Acad Sci USA 110(19):7684-7689. PubMed PMID: 2360327

Cho I, Tsai PF, Lake RJ, Basheer A, Fan HY (2013) ATP-dependent chromatin remodeling by Cockayne syndrome protein B and NAP1-like histone chaperones is required for efficient transcription-coupled DNA repair. PLoS Genet 9(4):e1003407. doi: 10.1371/journal.pgen.1003407. PubMed PMID: 23637612

Sridharan R, Gonzales-Cope M, Chronis C, Bonora G, McKee R, Huang C, Patel S, Lopez D, Mishra N, Pellegrini M, Carey M, Garcia BA, Plath K (2013) Proteomic and genomic approaches reveal critical functions of H3K9 methylation and heterochromatin protein-1γ in reprogramming to pluripotency. Nat Cell Biol 15(7):872-882. PubMed PMID: 23748610

Lewis PW, Müller MM, Koletsky MS, Cordero F, Lin S, Banaszynski LA, Garcia BA, Muir TW, Becher OJ, Allis CD (2013) Inhibition of PRC2 activity by a gain-of-function H3 mutation found in pediatric glioblastoma. Science 340(6134):857-861. PubMed PMID: 23539183

Wang CI, Alekseyenko AA, LeRoy G, Elia AE, Gorchakov AA, Britton LM, Elledge SJ, Kharchenko PV, Garcia BA, Kuroda MI (2013) Chromatin proteins captured by ChIP-mass spectrometry are linked to dosage compensation in Drosophila. Nat Struct Mol Biol. 20(2):202-209. PubMed PMID: 23295261

Leroy G, Dimaggio PA, Chan EY, Zee BM, Blanco MA, Bryant B, Flaniken IZ, Liu S, Kang Y, Trojer P, Garcia BA (2013) A quantitative atlas of histone modification signatures from human cancer cells. Epigenetics & Chromatin 6(1):20. PubMed PMID: 23826629

Ray D, Kazan H, Cook KB, Weirauch MT, Najafabadi HS, Li X, Gueroussov S, Albu M, Zheng H, Yang A, Na H, Irimia M, Matzat LH, Dale RK, Smith SA, Yarosh CA, Kelly SM, Nabet B, Mecenas D, Li W, Laishram RS, Qiao M, Lipshitz HD, Piano F, Corbett AH, Carstens RP, Frey BJ, Anderson RA, Lynch KW, Penalva LO, Lei EP, Fraser AG, Blencowe BJ, Morris QD, Hughes TR. (2013) A compendium of RNA-binding motifs for decoding gene regulation. Nature 499(7457):172-177. PubMed PMID: 23846655

Prentki M, Matschinsky FM, Madiraju SR (2013) Metabolic signaling in fuel-induced insulin secretion. Cell Metab 18(2):162-185. PubMed PMID: 23791483

Cushman-Nick M, Bonini NM, Shorter J (2013) Hsp104 suppresses polyglutamine-Induced degeneration post onset in a Drosophila MJD/SCA3 model. PLoS Genet 9(9):e1003781. PubMed PMID: 24039611

Nabel CS, Lee JW, Wang LC, Kohli RM (2013) Nucleic acid determinants for selective deamination of DNA over RNA by activation-induced deaminase. Proc Natl Acad Sci USA 110(35):14225-30. PubMed PMID: 23942124

Kim HJ, Kim NC, Wang, Y-D, Scarborough EA, Moore J, Diaz Z, MacLea KS, Freibaum B, Li S, Molliex A, Kanagaraj AP, Carter R, Boylan KB, Wojtas AM, Rademakers R, Pinkus JL, Greenberg SA, Trojanowski JQ, Traynor BJ, Smith BN, Topp S, Gkazi A-S, Miller J, Shaw CE, Kottlors M, Janbernd Kirschner J, Pestronk A, Li YR, Ford AF, Gitler AD, Benatar M, King OD, Kimonis VE, Ross ED, Weihl CC, Shorter J, & Taylor JP (2013) Mutations in prion-like domains in hnRNPA2B1 and hnRNPA1 cause multisystem proteinopathy and ALS. Nature Published online March 3, 2013. Link to article. Link to Penn Medicine News Release.

Chiou N-T, Shankarling G, Lynch KW (2013) HnRNP L and HnRNP A1 induce extended U1 snRNA interactions with an exon to repress spliceosome assembly. Molecular Cell 49(5)972-982. Link to article.

2012

Esipova TV, Ye X, Collins JE, Dakadzic S, Mandeville ET, Murray CB, Vinogradov SA (2012) Dendritic upconverting nanoparticles enable in vivo multiphoton microscopy with low-power continuous wave sources. PNAS 10.1073/pnas.1213291110. Link to article. PubMed:PMID: 23213211; Link to Penn Medicine News Release.

DeSantis ME, Leung EH, Sweeny EA, Jackrel ME, Cushman-Nick M, Neuhaus-Follini A, Vashist S, Sochor MA, Knight MN, Shorter J (2012) Operational plasticity enables Hsp104 to disaggregate diverse amyloid and nonamyloid clients. Cell 151(4):778-793. Link to article
[This article has an editorial comment: Murray AN, Kelly JW (2012) Hsp104 gives clients the individual attention they need. Cell 151(4):695-697. Link to article]

Voigt P, Leroy G, Drury WJ 3rd, Zee BM, Son J, Beck DB, Young NL, Garcia BA, Reinberg D. (2012) Asymmetrically modified nucleosomes. Cell 2012 Sep 28;151(1):181-193. doi: 10.1016/j.cell.2012.09.002. PubMed PMID: 23021224

Berg MG, Singh LN, Younis I, Liu Q, Pinto AM, Kaida D, Zhang Z, Cho S, Sherrill-Mix S, Wan L, Dreyfuss G (2012) U1 snRNP determines mRNA length and regulates isoform expression. Cell 2012 Jul 6;150(1):53-64. PubMed PMID: 22770214; PubMed Central PMCID: PMC3412174

Barber MF, Michishita-Kioi E, Xi Y, Tasselli L, Kioi M, Moqtaderi Z, Tennen RI, Paredes S, Young NL, Chen K, Struhl K, Garcia BA, Gozani O, Li W, Chua KF (2012) SIRT7 links H3K18 deacetylation to maintenance of oncogenic transformation. Nature 2012 Jul 5;487(7405):114-118. PubMed PMID: 22722849; PubMed Central PMCID: PMC3412143

Duennwald ML, Echeverria A, Shorter J (2012) Small heat shock proteins potentiate amyloid dissolution by protein disaggregases from yeast and humans. PLoS Biol. 2012;10(6):e1001346. doi: 10.1371/journal.pbio.1001346. Epub 2012 Jun 19. PubMed PMID: 22723742; PubMed Central PMCID: PMC3378601

Bassett EA, DeNizio J, Barnhart-Dailey MC, Panchenko T, Sekulic N, Rogers DJ, Foltz DR, Black BE (2012) HJURP uses distinct CENP-A surfaces to recognize and to stabilize CENP-A/histone H4 for centromere assembly. Dev Cell 2012 Apr 17;22(4):749-762. Epub 2012 Mar 8. PubMed PMID: 22406139; PubMed Central PMCID: PMC3353549

2011

Bresler SC, Wood AC, Haglund EA, Courtright J, Belcastro LT, Plegaria JS, Cole K, Toporovskaya Y, Zhao H, Carpenter EL, Christensen JG, Maris JM, Lemmon MA, Mossé YP (2011) Differential inhibitor sensitivity of anaplastic lymphoma kinase variants found in neuroblastoma. Sci Transl Med 2011 Nov 9;3(108):108ra114. PubMed PMID: 22072639; PubMed Central PMCID: PMC3319004

Panchenko T, Sorensen TC, Woodcock CL, Kan ZY, Wood S, Resch MG, Luger K, Englander SW, Hansen JC, Black BE (2011) Replacement of histone H3 with CENP-A directs global nucleosome array condensation and loosening of nucleosome superhelical termini. Proc Natl Acad Sci USA 2011 Oct 4;108(40):16588-16593. Epub 2011 Sep 26. PubMed PMID: 21949362; PubMed Central PMCID: PMC3189058

Zhang R, So BR, Li P, Yong J, Glisovic T, Wan L, Dreyfuss G (2011) Structure of a key intermediate of the SMN complex reveals Gemin2's crucial function in snRNP assembly. Cell 2011 Aug 5;146(3):384-395. PubMed PMID: 21816274; PubMed Central PMCID: PMC3160754

Lecoq J, Parpaleix A, Roussakis E, Ducros M, Houssen YG, Vinogradov SA, Charpak S (2011) Simultaneous two-photon imaging of oxygen and blood flow in deep cerebral vessels. Nat Med 2011 Jun 5;17(7):893-898. doi: 10.1038/nm.2394. PubMed PMID: 21642977; PubMed Central PMCID: PMC3291110

Grigoryan G, Kim YH, Acharya R, Axelrod K, Jain RM, Willis L, Drndic M, Kikkawa JM, DeGrado WF (2011) Computational design of virus-like protein assemblies on carbon nanotube surfaces. Science 2011 May 27;332(6033):1071-1076. PubMed PMID: 21617073; PubMed Central PMCID: PMC3264056

Lewis M (2011) A tale of two repressors. J Mol Biol 2011 May 27 409(1):14-27. PubMed PMID: 21392509; PubMed Central PMCID: PMC3104267; Link to article

Kathan-Galipeau K, Nanayakkara S, O’Brian PA, Nikiforov M, Discher BM, Bonnell DA (2011) Direct probe of molecular polarization in de novo protein–electrode interfaces. ACS Nano 2011 May 25 5(6):4835-4842. doi: 10.1021/nn200887n; PubMed PMID: 21612231

Sun Z, Diaz Z, Fang X, Hart MP, Chesi A, Shorter J, Gitler AD (2011) Molecular determinants and genetic modifiers of aggregation and toxicity for the ALS disease protein FUS/TLS. PLoS Biol 2011 Apr;9(4):e1000614. Epub 2011 Apr 26. PubMed PMID: 21541367; PubMed Central PMCID: PMC3082519

Nucci NV, Pometun MS, Wand AJ (2011) Site-resolved measurement of water-protein interactions by solution NMR. Nat Struct Mol Biol 2011 Feb;18(2):245-249. Epub 2011 Jan 2. PubMed PMID: 21196937; PubMed Central PMCID: PMC3058360

2010

Moravcevic K, Mendrola JM, Schmitz KR, Wang YH, Slochower D, Janmey PA, Lemmon MA (2011) Kinase associated-1 domains drive MARK/PAR1 kinases to membrane targets by binding acidic phospholipids. Cell 2010 Dec 10;143(6):966-977. PubMed PMID: 21145462; PubMed Central PMCID: PMC3031122

Heyd F, Lynch KW (2010) Phosphorylation-dependent regulation of PSF by GSK3 controls CD45 alternative splicing. Mol Cell 2010 Oct 8;40(1):126-137. PubMed PMID: 20932480; PubMed Central PMCID: PMC2954053

Kaida D, Berg MG, Younis I, Kasim M, Singh LN, Wan L, Dreyfuss G (2010) U1 snRNP protects pre-mRNAs from premature cleavage and polyadenylation. Nature 2010 Dec 2;468(7324):664-668. Epub 2010 Sep 29. PubMed PMID: 20881964; PubMed Central PMCID: PMC2996489

Sekulic N, Bassett EA, Rogers DJ, Black BE (2010) The structure of (CENP-A-H4)(2) reveals physical features that mark centromeres. Nature 2010 Sep 16;467(7313):347-351. Epub 2010 Aug 25. PubMed PMID: 20739937; PubMed Central PMCID: PMC2946842

Sakadzić S, Roussakis E, Yaseen MA, Mandeville ET, Srinivasan VJ, Arai K, Ruvinskaya S, Devor A, Lo EH, Vinogradov SA, Boas DA (2010) Two-photon high-resolution measurement of partial pressure of oxygen in cerebral vasculature and tissue. Nat Methods 2010 Sep;7(9):755-759. doi: 10.1038/nmeth.1490. Epub 2010 Aug 8. PubMed PMID: 20693997; PubMed Central PMCID: PMC2932799

Alvarado D, Klein DE, Lemmon MA (2010) Structural basis for negative cooperativity in growth factor binding to an EGF receptor. Cell 2010 Aug 20;142(4):568-579. PubMed PMID: 20723758; PubMed Central PMCID: PMC2925043

Swierczek M, Cieluch E, Sarewicz M, Borek A, Moser CC, Dutton PL, Osyczka A (2010) An electronic bus bar lies in the core of cytochrome bc1. Science 2010 Jul 23;329(5990):451-454. PubMed PMID: 20651150

Yong J, Kasim M, Bachorik JL, Wan L, Dreyfuss G (2010) Gemin5 delivers snRNA precursors to the SMN complex for snRNP biogenesis. Mol Cell 2010 May 28;38(4):551-562. PubMed PMID: 20513430; PubMed Central PMCID: PMC2901871

Marlow MS, Dogan J, Frederick KK, Valentine KG, Wand AJ (2010) The role of conformational entropy in molecular recognition by calmodulin. Nat Chem Biol 2010 May;6(5):352-358. Epub 2010 Apr 11. PubMed PMID: 20383153; PubMed Central PMCID: PMC3050676

Lake RJ, Geyko A, Hemashettar G, Zhao Y, Fan HY (2010) UV-induced association of the CSB remodeling protein with chromatin requires ATP-dependent relief of N-terminal autorepression. Mol Cell 2010 Jan 29;37(2):235-246. PubMed PMID: 20122405; PubMed Central PMCID: PMC2818792

Motta-Mena LB, Heyd F, Lynch KW (2010) Context-dependent regulatory mechanism of the splicing factor hnRNP L. Mol Cell 2010 Jan 29;37(2):223-234. PubMed PMID: 20122404; PubMed Central PMCID: PMC2818868

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2014_TommosCover_JACS
October 8, 2014 issue of Journal of the American Chemical Society with cover story by Tommos lab

2014 Wand Lab cover JMB
October 23, 2014 issue of Journal of Molecular Biology with cover story by the Wand lab

Black_2014_NARVolume 42 (2014) of Nucleic Acids Research with cover story by the Black Lab

Cell July 6, 2012July 6, 2012 issue of Cell with cover story by Dreyfuss lab

Cell July 6, 2012June 2012 issue of Trends in Biochemical Sciences with cover story by the Black lab.

Nature Structural Biology Cover Feb 2011February 2012 issue of Nature Structural & Molecular Biology with cover story by Wand lab

Molecular Cell 2010January 29, 2010 issue of Molecular Cell with cover story by Lynch lab

Nature Chemical BiologyMay 2010 issue of Nature Chemical Biology with cover story by Wand lab

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