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2014

Thermodynamic and structural basis for relaxation of specificity in protein-DNA recognition

Sapienza, P. J., Niu, T., Kurpiewski, M. R., Grigorescu, A. & Jen-Jacobson, L., Jan 9 2014, In : Journal of Molecular Biology. 426, 1, p. 84-104 21 p.

Research output: Contribution to journalArticle

4 Scopus citations

Time-lapse X-ray phase-contrast microtomography for in vivo imaging and analysis of morphogenesis

Moosmann, J., Ershov, A., Weinhardt, V., Baumbach, T., Prasad, M. S., Labonne, C., Xiao, X., Kashef, J. & Hofmann, R., Feb 1 2014, In : Nature Protocols. 9, 2, p. 294-304 11 p.

Research output: Contribution to journalArticle

22 Scopus citations

Top-down proteomics with mass spectrometry imaging: A pilot study towards discovery of biomarkers for neurodevelopmental disorders

Ye, H., Mandal, R., Catherman, A., Thomas, P. M., Kelleher, N. L., Ikonomidou, C. & Li, L., Apr 7 2014, In : PloS one. 9, 4, e92831.

Research output: Contribution to journalArticle

30 Scopus citations

Torque correlation length and stochastic twist dynamics of DNA

Banigan, E. J. & Marko, J. F., Jun 13 2014, In : Physical Review E - Statistical, Nonlinear, and Soft Matter Physics. 89, 6, 062706.

Research output: Contribution to journalArticle

4 Scopus citations

Ultraviolet photodissociation for characterization of whole proteins on a chromatographic time scale

Cannon, J. R., Cammarata, M. B., Robotham, S. A., Cotham, V. C., Shaw, J. B., Fellers, R. T., Early, B. P., Thomas, P. M., Kelleher, N. L. & Brodbelt, J. S., Feb 18 2014, In : Analytical Chemistry. 86, 4, p. 2185-2192 8 p.

Research output: Contribution to journalArticle

59 Scopus citations

Versatile design of biohybrid light-harvesting architectures to tune location, density, and spectral coverage of attached synthetic chromophores for enhanced energy capture

Harris, M. A., Jiang, J., Niedzwiedzki, D. M., Jiao, J., Taniguchi, M., Kirmaier, C., Loach, P. A., Bocian, D. F., Lindsey, J. S., Holten, D. & Parkes-Loach, P. S., Jul 2014, In : Photosynthesis Research. 121, 1, p. 35-48 14 p.

Research output: Contribution to journalArticle

20 Scopus citations

zic-1 Expression in Planarian Neoblasts after Injury Controls Anterior Pole Regeneration

Vásquez-Doorman, C. & Petersen, C. P., Jan 1 2014, In : PLoS Genetics. 10, 7, e1004452.

Research output: Contribution to journalArticle

40 Scopus citations
2013

25th ASMS Sanibel conference on top down mass spectrometry

Kelleher, N. L. & Paša-Tolić, L., Jul 1 2013, In : Journal of the American Society for Mass Spectrometry. 24, 7, p. 983-985 3 p.

Research output: Contribution to journalArticle

2 Scopus citations

3-azatetracyclo[5.2.1.15,8.01,5]undecane Derivatives: From wild-type inhibitors of the M2 ion channel of influenza A virus to derivatives with potent activity against the V27A mutant

Rey-Carrizo, M., Torres, E., Ma, C., Barniol-Xicota, M., Wang, J., Wu, Y., Naesens, L., Degrado, W. F., Lamb, R. A., Pinto, L. H. & Vázquez, S., Nov 27 2013, In : Journal of Medicinal Chemistry. 56, 22, p. 9265-9274 10 p.

Research output: Contribution to journalArticle

36 Scopus citations

A Conserved Role for Human Nup98 in Altering Chromatin Structure and Promoting Epigenetic Transcriptional Memory

Light, W. H., Freaney, J., Sood, V., Thompson, A., D'Urso, A., Horvath, C. M. & Brickner, J. H., Mar 2013, In : PLoS biology. 11, 3, e1001524.

Research output: Contribution to journalArticle

93 Scopus citations

ACTL6a enforces the epidermal progenitor state by suppressing SWI/SNF-dependent induction of KLF4

Bao, X., Tang, J., Lopez-Pajares, V., Tao, S., Qu, K., Crabtree, G. R. & Khavari, P. A., Feb 7 2013, In : Cell Stem Cell. 12, 2, p. 193-203 11 p.

Research output: Contribution to journalArticle

52 Scopus citations

Amino acid requirements for MDA5 and LGP2 recognition by paramyxovirus V proteins: A single arginine distinguishes MDA5 from RIG-I

Rodriguez, K. R. & Horvath, C. M., Mar 1 2013, In : Journal of virology. 87, 5, p. 2974-2978 5 p.

Research output: Contribution to journalArticle

22 Scopus citations

Analysis of substrate specificity in CobT homologs reveals widespread preference for DMB, the lower axial ligand of vitamin B12

Hazra, A. B., Tran, J. L. A., Crofts, T. S. & Taga, M. E., Oct 24 2013, In : Chemistry and Biology. 20, 10, p. 1275-1285 11 p.

Research output: Contribution to journalArticle

22 Scopus citations

A physical sciences network characterization of non-tumorigenic and metastatic cells

Agus, D. B., Alexander, J. F., Arap, W., Ashili, S., Aslan, J. E., Austin, R. H., Backman, V., Bethel, K. J., Bonneau, R., Chen, W. C., Chen-Tanyolac, C., Choi, N. C., Curley, S. A., Dallas, M., Damania, D., Davies, P. C. W., Decuzzi, P., Dickinson, L., Estevez-Salmeron, L., Estrella, V. & 75 others, Ferrari, M., Fischbach, C., Foo, J., Fraley, S. I., Frantz, C., Fuhrmann, A., Gascard, P., Gatenby, R. A., Geng, Y., Gerecht, S., Gillies, R. J., Godin, B., Grady, W. M., Greenfield, A., Hemphill, C., Hempstead, B. L., Hielscher, A., Hillis, W. D., Holland, E. C., Ibrahim-Hashim, A., Jacks, T., Johnson, R. H., Joo, A., Katz, J. E., Kelbauskas, L., Kesselman, C., King, M. R., Konstantopoulos, K., Kraning-Rush, C. M., Kuhn, P., Kung, K., Kwee, B., Lakins, J. N., Lambert, G., Liao, D., Licht, J. D., Liphardt, J. T., Liu, L., Lloyd, M. C., Lyubimova, A., Mallick, P., Marko, J., McCarty, O. J. T., Meldrum, D. R., Michor, F., Mumenthaler, S. M., Nandakumar, V., O'Halloran, T. V., Oh, S., Pasqualini, R., Paszek, M. J., Philips, K. G., Poultney, C. S., Rana, K., Reinhart-King, C. A., Ros, R., Semenza, G. L., Senechal, P., Shuler, M. L., Srinivasan, S., Staunton, J. R., Stypula, Y., Subramanian, H., Tlsty, T. D., Tormoen, G. W., Tseng, Y., Van Oudenaarden, A., Verbridge, S. S., Wan, J. C., Weaver, V. M., Widom, J., Will, C., Wirtz, D., Wojtkowiak, J. & Wu, P. H., 2013, In : Scientific reports. 3, 1449.

Research output: Contribution to journalArticle

93 Scopus citations

Arylazanylpyrazolone derivatives as inhibitors of mutant superoxide dismutase 1 dependent protein aggregation for the treatment of amyotrophic lateral sclerosis

Zhang, Y., Benmohamed, R., Huang, H., Chen, T., Voisine, C., Morimoto, R. I., Kirsch, D. R. & Silverman, R. B., Mar 28 2013, In : Journal of Medicinal Chemistry. 56, 6, p. 2665-2675 11 p.

Research output: Contribution to journalArticle

11 Scopus citations

Asp44 stabilizes the Trp41 gate of the M2 proton channel of influenza a virus

Ma, C., Fiorin, G., Carnevale, V., Wang, J., Lamb, R. A., Klein, M. L., Wu, Y., Pinto, L. H. & Degrado, W. F., Nov 5 2013, In : Structure. 21, 11, p. 2033-2041 9 p.

Research output: Contribution to journalArticle

22 Scopus citations

Atox1 contains positive residues that mediate membrane association and aid subsequent copper loading

Flores, A. G. & Unger, V. M., Sep 16 2013, In : Journal of Membrane Biology. 246, 12, p. 903-913 11 p.

Research output: Contribution to journalArticle

19 Scopus citations

ATP hydrolysis enhances RNA recognition and antiviral signal transduction by the innate immune sensor, laboratory of genetics and physiology 2 (LGP2)

Bruns, A. M., Pollpeter, D., Hadizadeh, N., Myong, S., Marko, J. F. & Horvath, C. M., Jan 11 2013, In : Journal of Biological Chemistry. 288, 2, p. 938-946 9 p.

Research output: Contribution to journalArticle

54 Scopus citations

Autoinhibition of endophilin in solution via interdomain interactions

Vázquez, F. X., Unger, V. M. & Voth, G. A., Jan 22 2013, In : Biophysical Journal. 104, 2, p. 396-403 8 p.

Research output: Contribution to journalArticle

14 Scopus citations
9 Scopus citations

Cell Cycle Regulated Interaction of a Yeast Hippo Kinase and Its Activator MO25/Hym1

Hsu, J. & Weiss, E. L., Oct 21 2013, In : PloS one. 8, 10, e78334.

Research output: Contribution to journalArticle

5 Scopus citations

Cellular distribution of copper to superoxide dismutase involves scaffolding by membranes

Pope, C. R., De Feo, C. J. & Unger, V. M., Dec 17 2013, In : Proceedings of the National Academy of Sciences of the United States of America. 110, 51, p. 20491-20496 6 p.

Research output: Contribution to journalArticle

34 Scopus citations

Characterization of a nitrite reductase involved in nitrifier denitrification

Lawton, T. J., Bowen, K. E., Sayavedra-Soto, L. A., Arp, D. J. & Rosenzweig, A. C., Aug 30 2013, In : Journal of Biological Chemistry. 288, 35, p. 25575-25583 9 p.

Research output: Contribution to journalArticle

26 Scopus citations

Chemical map of Schizosaccharomyces pombe reveals species-specific features in nucleosome positioning

Moyle-Heyrman, G., Zaichuk, T., Xi, L., Zhang, Q., Uhlenbeck, O. C., Holmgren, R., Widom, J. & Wang, J. P., Dec 10 2013, In : Proceedings of the National Academy of Sciences of the United States of America. 110, 50, p. 20158-20163 6 p.

Research output: Contribution to journalArticle

55 Scopus citations

Cobamide structure depends on both lower ligand availability and CobT substrate specificity

Crofts, T. S., Seth, E. C., Hazra, A. B. & Taga, M. E., Oct 24 2013, In : Chemistry and Biology. 20, 10, p. 1265-1274 10 p.

Research output: Contribution to journalArticle

34 Scopus citations

Complete protein characterization using top-down mass spectrometry and ultraviolet photodissociation

Shaw, J. B., Li, W., Holden, D. D., Zhang, Y., Griep-Raming, J., Fellers, R. T., Early, B. P., Thomas, P. M., Kelleher, N. L. & Brodbelt, J. S., Aug 28 2013, In : Journal of the American Chemical Society. 135, 34, p. 12646-12651 6 p.

Research output: Contribution to journalArticle

192 Scopus citations

Detection of activated STAT proteins.

Parisien, J. P. & Horvath, C. M., Jun 13 2013, In : Methods in molecular biology (Clifton, N.J.). 967, p. 135-145 11 p.

Research output: Contribution to journalArticle

1 Scopus citations

Differential lysine acetylation profiles of Erwinia amylovora strains revealed by proteomics

Wu, X., Vellaichamy, A., Wang, D., Zamdborg, L., Kelleher, N. L., Huber, S. C. & Zhao, Y., Feb 1 2013, In : Journal of Proteomics. 79, p. 60-71 12 p.

Research output: Contribution to journalArticle

67 Scopus citations

Discovery of novel dual inhibitors of the wild-type and the most prevalent drug-resistant mutant, S31N, of the M2 proton channel from influenza A virus

Wang, J., Ma, C., Wang, J., Jo, H., Canturk, B., Fiorin, G., Pinto, L. H., Lamb, R. A., Klein, M. L. & DeGrado, W. F., Apr 11 2013, In : Journal of Medicinal Chemistry. 56, 7, p. 2804-2812 9 p.

Research output: Contribution to journalArticle

72 Scopus citations

Discovery of the antibiotic phosacetamycin via a new mass spectrometry-based method for phosphonic acid detection

Evans, B. S., Zhao, C., Gao, J., Evans, C. M., Ju, K. S., Doroghazi, J. R., Van Der Donk, W. A., Kelleher, N. L. & Metcalf, W. W., May 17 2013, In : ACS chemical biology. 8, 5, p. 908-913 6 p.

Research output: Contribution to journalArticle

18 Scopus citations

Divalent metal activation of a GH43 β-xylosidase

Lee, C. C., Braker, J. D., Grigorescu, A. A., Wagschal, K. & Jordan, D. B., Feb 5 2013, In : Enzyme and Microbial Technology. 52, 2, p. 84-90 7 p.

Research output: Contribution to journalArticle

21 Scopus citations

Domain requirements of the JIL-1 tandem kinase for histone H3 serine 10 phosphorylation and chromatin remodeling in vivo

Li, Y., Cai, W., Wang, C., Yao, C., Bao, X., Deng, H., Girton, J., Johansen, J. & Johansen, K. M., Jul 5 2013, In : Journal of Biological Chemistry. 288, 27, p. 19441-19449 9 p.

Research output: Contribution to journalArticle

7 Scopus citations
97 Scopus citations

EPR spectroscopy of MolB2C2-A reveals mechanism of transport for a bacterial type II molybdate importer

Rice, A. J., Alvarez, F. J. D., Schultz, K. M., Klug, C. S., Davidson, A. L. & Pinkett, H. W., Jul 19 2013, In : Journal of Biological Chemistry. 288, 29, p. 21228-21235 8 p.

Research output: Contribution to journalArticle

19 Scopus citations

ER-associated mitochondrial division links the distribution of mitochondria and mitochondrial DNA in yeast

Murley, A., Lackner, L. L., Osman, C., West, M., Voeltz, G. K., Walter, P. & Nunnari, J., May 14 2013, In : eLife. 2013, 2, e00422.

Research output: Contribution to journalArticle

173 Scopus citations

Evidence against a Role for the JIL-1 Kinase in H3S28 Phosphorylation and 14-3-3 Recruitment to Active Genes in Drosophila

Wang, C., Yao, C., Li, Y., Cai, W., Bao, X., Girton, J., Johansen, J. & Johansen, K. M., Apr 30 2013, In : PloS one. 8, 4, e62484.

Research output: Contribution to journalArticle

7 Scopus citations

Extensive cooperation of immune master regulators IRF3 and NFκB in RNA Pol II recruitment and pause release in human innate antiviral transcription

Freaney, J. E., Kim, R., Mandhana, R. & Horvath, C. M., May 12 2013, In : Cell reports. 4, 5, p. 959-973 15 p.

Research output: Contribution to journalArticle

39 Scopus citations

EZH2 Is Required for Germinal Center Formation and Somatic EZH2 Mutations Promote Lymphoid Transformation

Béguelin, W., Popovic, R., Teater, M., Jiang, Y., Bunting, K. L., Rosen, M., Shen, H., Yang, S. N., Wang, L., Ezponda, T., Martinez-Garcia, E., Zhang, H., Zheng, Y., Verma, S. K., McCabe, M. T., Ott, H. M., VanAller, G. S., Kruger, R. G., Liu, Y., McHugh, C. F. & 13 others, Scott, D. W., Chung, Y. R., Kelleher, N., Shaknovich, R., Creasy, C. L., Gascoyne, R. D., Wong, K. K., Cerchietti, L., Levine, R. L., Abdel-Wahab, O., Licht, J. D., Elemento, O. & Melnick, A. M., May 13 2013, In : Cancer Cell. 23, 5, p. 677-692 16 p.

Research output: Contribution to journalArticle

402 Scopus citations

From protein complexes to subunit backbone fragments: A multi-stage approach to native mass spectrometry

Belov, M. E., Damoc, E., Denisov, E., Compton, P. D., Horning, S., Makarov, A. A. & Kelleher, N. L., Dec 3 2013, In : Analytical Chemistry. 85, 23, p. 11163-11173 11 p.

Research output: Contribution to journalArticle

88 Scopus citations

Functionally diverse MicroRNA effector complexes are regulated by extracellular signaling

Wu, P. H., Isaji, M. & Carthew, R. W., Oct 10 2013, In : Molecular cell. 52, 1, p. 113-123 11 p.

Research output: Contribution to journalArticle

35 Scopus citations

Functional Specialization of the Small Interfering RNA Pathway in Response to Virus Infection

Marques, J. T., Wang, J. P., Wang, X., de Oliveira, K. P. V., Gao, C., Aguiar, E. R. G. R., Jafari, N. & Carthew, R. W., Aug 1 2013, In : PLoS pathogens. 9, 8, e1003579.

Research output: Contribution to journalArticle

48 Scopus citations

Genome mining for methanobactins

Kenney, G. E. & Rosenzweig, A. C., Feb 26 2013, In : BMC Biology. 11, 17.

Research output: Contribution to journalArticle

35 Scopus citations
27 Scopus citations

Glycolysis and mitochondrial respiration in mouse LDHC-Null sperm

Odet, F., Gabel, S., London, R. E., Goldberg, E. & Eddy, E. M., Apr 1 2013, In : Biology of reproduction. 88, 4, 95.

Research output: Contribution to journalArticle

34 Scopus citations

Gobichelin A and B: Mixed-ligand siderophores discovered using proteomics

Chen, Y., Unger, M., Ntai, I., McClure, R. A., Albright, J. C., Thomson, R. J. & Kelleher, N. L., Jan 2013, In : MedChemComm. 4, 1, p. 233-238 6 p.

Research output: Contribution to journalArticle

16 Scopus citations

Heat shock response activation exacerbates inclusion body formation in a cellular model of huntington disease

Bersuker, K., Hipp, M. S., Calamini, B., Morimoto, R. I. & Kopito, R. R., Aug 16 2013, In : Journal of Biological Chemistry. 288, 33, p. 23633-23638 6 p.

Research output: Contribution to journalArticle

34 Scopus citations

Highly active β-xylosidases of glycoside hydrolase family 43 operating on natural and artificial substrates

Jordan, D. B., Wagschal, K., Grigorescu, A. A. & Braker, J. D., May 1 2013, In : Applied Microbiology and Biotechnology. 97, 10, p. 4415-4428 14 p.

Research output: Contribution to journalArticle

30 Scopus citations

Human lactate dehydrogenase a (LDHA) rescues mouse LDHC-Null sperm function

Tang, H., Duan, C., Bleher, R. & Goldberg, E., Apr 2013, In : Biology of reproduction. 88, 4, 96.

Research output: Contribution to journalArticle

14 Scopus citations

Hypercapnia impairs lung neutrophil function and increases mortality in murine Pseudomonas pneumonia

Gates, K. L., Howell, H. A., Nair, A., Vohwinkel, C. U., Welch, L. C., Beitel, G. J., Hauser, A. R., Sznajder, J. I. & Sporn, P. H. S., Nov 1 2013, In : American journal of respiratory cell and molecular biology. 49, 5, p. 821-828 8 p.

Research output: Contribution to journalArticle

47 Scopus citations

Identification of a Tissue-Selective Heat Shock Response Regulatory Network

Guisbert, E., Czyz, D. M., Richter, K., McMullen, P. D. & Morimoto, R. I., Apr 2013, In : PLoS genetics. 9, 4, e1003466.

Research output: Contribution to journalArticle

60 Scopus citations