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2019

RNA Helicase LGP2 Negatively Regulates RIG-I Signaling by Preventing TRIM25-Mediated Caspase Activation and Recruitment Domain Ubiquitination

Quicke, K. M., Kim, K. Y., Horvath, C. M. & Suthar, M. S., Nov 2019, In : Journal of Interferon and Cytokine Research. 39, 11, p. 669-683 15 p.

Research output: Contribution to journalArticle

1 Scopus citations

Safety, toxicity and immunogenicity of a malaria vaccine based on the circumsporozoite protein (FMP013) with the adjuvant army liposome formulation containing QS21 (ALFQ)

Cawlfield, A., Genito, C. J., Beck, Z., Bergmann-Leitner, E. S., Bitzer, A. A., Soto, K., Zou, X., Hadiwidjojo, S. H., Gerbasi, R. V., Mullins, A. B., Noe, A., Waters, N. C., Alving, C. R., Matyas, G. R. & Dutta, S., Jun 27 2019, In : Vaccine. 37, 29, p. 3793-3803 11 p.

Research output: Contribution to journalArticle

Open Access
5 Scopus citations

Selection and gene flow shape niche-associated variation in pheromone response

Lee, D., Zdraljevic, S., Cook, D. E., Frézal, L., Hsu, J. C., Sterken, M. G., Riksen, J. A. G., Wang, J., Kammenga, J. E., Braendle, C., Félix, M. A., Schroeder, F. C. & Andersen, E. C., Oct 1 2019, In : Nature Ecology and Evolution. 3, 10, p. 1455-1463 9 p.

Research output: Contribution to journalArticle

2 Scopus citations

Small molecules target the interaction between tissue transglutaminase and fibronectin

Sima, L. E., Yakubov, B., Zhang, S., Condello, S., Grigorescu, A. A., Nwani, N. G., Chen, L., Schiltz, G. E., Arvanitis, C., Zhang, Z. Y. & Matei, D., Jan 1 2019, In : Molecular cancer therapeutics. 18, 6, p. 1057-1068 12 p.

Research output: Contribution to journalArticle

Standard Proteoforms and Their Complexes for Native Mass Spectrometry

Schachner, L. F., Ives, A. N., McGee, J. P., Melani, R. D., Kafader, J. O., Compton, P. D., Patrie, S. M. & Kelleher, N. L., Jul 15 2019, In : Journal of the American Society for Mass Spectrometry. 30, 7, p. 1190-1198 9 p.

Research output: Contribution to journalArticle

8 Scopus citations

STORI Plots Enable Accurate Tracking of Individual Ion Signals

Kafader, J. O., Beu, S. C., Early, B. P., Melani, R. D., Durbin, K. R., Zabrouskov, V., Makarov, A. A., Maze, J. T., Shinholt, D. L., Yip, P. F., Kelleher, N. L., Compton, P. D. & Senko, M. W., Nov 1 2019, In : Journal of the American Society for Mass Spectrometry. 30, 11, p. 2200-2203 4 p.

Research output: Contribution to journalArticle

3 Scopus citations

Structural organization of a Type III-A CRISPR effector subcomplex determined by X-ray crystallography and cryo-EM

Dorsey, B. W., Huang, L. & Mondragón, A., Jan 1 2019, In : Nucleic acids research. 47, 7, p. 3765-3783 19 p.

Research output: Contribution to journalArticle

Open Access

Tau protein aggregates inhibit the protein-folding and vesicular trafficking arms of the cellular proteostasis network

Yu, A., Fox, S. G., Cavallini, A., Kerridge, C., O'Neill, M. J., Wolak, J., Bose, S. & Morimoto, R. I., May 10 2019, In : Journal of Biological Chemistry. 294, 19, p. 7917-7930 14 p.

Research output: Contribution to journalArticle

4 Scopus citations

Taxonomy of the order Mononegavirales: second update 2018

Maes, P., Amarasinghe, G. K., Ayllón, M. A., Basler, C. F., Bavari, S., Blasdell, K. R., Briese, T., Brown, P. A., Bukreyev, A., Balkema-Buschmann, A., Buchholz, U. J., Chandran, K., Crozier, I., de Swart, R. L., Dietzgen, R. G., Dolnik, O., Domier, L. L., Drexler, J. F., Dürrwald, R., Dundon, W. G. & 57 others, Duprex, W. P., Dye, J. M., Easton, A. J., Fooks, A. R., Formenty, P. B. H., Fouchier, R. A. M., Freitas-Astúa, J., Ghedin, E., Griffiths, A., Hewson, R., Horie, M., Hurwitz, J. L., Hyndman, T. H., Jiāng, D., Kobinger, G. P., Kondō, H., Kurath, G., Kuzmin, I. V., Lamb, R. A., Lee, B., Leroy, E. M., Lǐ, J., Marzano, S. Y. L., Mühlberger, E., Netesov, S. V., Nowotny, N., Palacios, G., Pályi, B., Pawęska, J. T., Payne, S. L., Rima, B. K., Rota, P., Rubbenstroth, D., Simmonds, P., Smither, S. J., Song, Q., Song, T., Spann, K., Stenglein, M. D., Stone, D. M., Takada, A., Tesh, R. B., Tomonaga, K., Tordo, N., Towner, J. S., van den Hoogen, B., Vasilakis, N., Wahl, V., Walker, P. J., Wang, D., Wang, L. F., Whitfield, A. E., Williams, J. V., Yè, G., Zerbini, F. M., Zhang, Y. Z. & Kuhn, J. H., Apr 3 2019, In : Archives of Virology. 164, 4, p. 1233-1244 12 p.

Research output: Contribution to journalArticle

27 Scopus citations

Taxonomy of the order Mononegavirales: update 2019

Amarasinghe, G. K., Ayllón, M. A., Bào, Y., Basler, C. F., Bavari, S., Blasdell, K. R., Briese, T., Brown, P. A., Bukreyev, A., Balkema-Buschmann, A., Buchholz, U. J., Chabi-Jesus, C., Chandran, K., Chiapponi, C., Crozier, I., de Swart, R. L., Dietzgen, R. G., Dolnik, O., Drexler, J. F., Dürrwald, R. & 64 others, Dundon, W. G., Duprex, W. P., Dye, J. M., Easton, A. J., Fooks, A. R., Formenty, P. B. H., Fouchier, R. A. M., Freitas-Astúa, J., Griffiths, A., Hewson, R., Horie, M., Hyndman, T. H., Jiāng, D., Kitajima, E. W., Kobinger, G. P., Kondō, H., Kurath, G., Kuzmin, I. V., Lamb, R. A., Lavazza, A., Lee, B., Lelli, D., Leroy, E. M., Lǐ, J., Maes, P., Marzano, S. Y. L., Moreno, A., Mühlberger, E., Netesov, S. V., Nowotny, N., Nylund, A., Økland, A. L., Palacios, G., Pályi, B., Pawęska, J. T., Payne, S. L., Prosperi, A., Ramos-González, P. L., Rima, B. K., Rota, P., Rubbenstroth, D., Shī, M., Simmonds, P., Smither, S. J., Sozzi, E., Spann, K., Stenglein, M. D., Stone, D. M., Takada, A., Tesh, R. B., Tomonaga, K., Tordo, N., Towner, J. S., van den Hoogen, B., Vasilakis, N., Wahl, V., Walker, P. J., Wang, L. F., Whitfield, A. E., Williams, J. V., Zerbini, F. M., Zhāng, T., Zhang, Y. Z. & Kuhn, J. H., Jul 1 2019, In : Archives of Virology. 164, 7, p. 1967-1980 14 p.

Research output: Contribution to journalArticle

Open Access
41 Scopus citations

The Caspase-3 homolog DrICE regulates endocytic trafficking during Drosophila tracheal morphogenesis

McSharry, S. S. & Beitel, G. J., Dec 1 2019, In : Nature communications. 10, 1, 1031.

Research output: Contribution to journalArticle

2 Scopus citations

The Role of Transcription Factors and Nuclear Pore Proteins in Controlling the Spatial Organization of the Yeast Genome

Brickner, D. G., Randise-Hinchliff, C., Corbin, M. L., Liang, J. M., Kim, S., Sump, B., D'Urso, A., Kim, S. H., Satomura, A., Schmit, H., Coukos, R., Hwang, S., Watson, R. & Brickner, J. H., Jun 17 2019, In : Developmental Cell. 49, 6, p. 936-947.e4

Research output: Contribution to journalArticle

5 Scopus citations

Thomas A. Steitz (1940-2018)

Uhlenbeck, O. C., Feb 1 2019, In : RNA (New York, N.Y.). 25, 2, p. 169-172 4 p.

Research output: Contribution to journalArticle

1 Scopus citations

Transcriptional Basis for Rhythmic Control of Hunger and Metabolism within the AgRP Neuron

Cedernaes, J., Huang, W., Ramsey, K. M., Waldeck, N., Cheng, L., Marcheva, B., Omura, C., Kobayashi, Y., Peek, C. B., Levine, D. C., Dhir, R., Awatramani, R., Bradfield, C. A., Wang, X. A., Takahashi, J. S., Mokadem, M., Ahima, R. S. & Bass, J., May 7 2019, In : Cell Metabolism. 29, 5, p. 1078-1091.e5

Research output: Contribution to journalArticle

17 Scopus citations

Transcription preinitiation complex structure and dynamics provide insight into genetic diseases

Yan, C., Dodd, T., He, Y., Tainer, J. A., Tsutakawa, S. E. & Ivanov, I., Jun 1 2019, In : Nature Structural and Molecular Biology. 26, 6, p. 397-406 10 p.

Research output: Contribution to journalArticle

9 Scopus citations

Twist-bend coupling and the statistical mechanics of the twistable wormlike-chain model of DNA: Perturbation theory and beyond

Nomidis, S. K., Skoruppa, E., Carlon, E. & Marko, J. F., Mar 18 2019, In : Physical Review E. 99, 3, 032414.

Research output: Contribution to journalArticle

3 Scopus citations

USP7 cooperates with NOTch1 to drive the oncogenic transcriptional program in T-cell leukemia

Jin, Q., Martinez, C. A., Arcipowski, K. M., Zhu, Y., Gutierrez-Diaz, B. T., Wang, K. K., Johnson, M. R., Volk, A. G., Wang, F., Wu, J., Grove, C., Wang, H., Sokirniy, I., Thomas, P. M., Goo, Y. A., Abshiru, N. A., Hijiya, N., Peirs, S., Vandamme, N., Berx, G. & 27 others, Goosens, S., Marshall, S. A., Rendleman, E. J., Takahashi, Y. H., Wang, L., Rawat, R., Bartom, E. T., Collings, C. K., Van Vlierberghe, P., Strikoudis, A., Kelly, S., Ueberheide, B., Mantis, C., Kandela, I., Bourquin, J. P., Bornhauser, B., Serafin, V., Bresolin, S., Paganin, M., Accordi, B., Basso, G., Kelleher, N. L., Weinstock, J., Kumar, S., Crispino, J. D., Shilatifard, A. & Ntziachristos, P., Jan 1 2019, In : Clinical Cancer Research. 25, 1, p. 222-239 18 p.

Research output: Contribution to journalArticle

Open Access
14 Scopus citations
2018

Aberrant Drp1-mediated mitochondrial division presents in humans with variable outcomes

Whitley, B. N., Lam, C., Cui, H., Haude, K., Bai, R., Escobar, L., Hamilton, A., Brady, L., Tarnopolsky, M. A., Dengle, L., Picker, J., Lincoln, S., Lackner, L. L., Glass, I. A. & Hoppins, S., Jan 1 2018, In : Human molecular genetics. 27, 21, p. 3710-3719 10 p.

Research output: Contribution to journalArticle

8 Scopus citations

Accurate Sequence Analysis of a Monoclonal Antibody by Top-Down and Middle-Down Orbitrap Mass Spectrometry Applying Multiple Ion Activation Techniques

Fornelli, L., Srzentić, K., Huguet, R., Mullen, C., Sharma, S., Zabrouskov, V., Fellers, R. T., Durbin, K. R., Compton, P. D. & Kelleher, N. L., Jul 17 2018, In : Analytical Chemistry. 90, 14, p. 8421-8429 9 p.

Research output: Contribution to journalArticle

26 Scopus citations

A Targeted, Differential Top-Down Proteomic Methodology for Comparison of ApoA-I Proteoforms in Individuals with High and Low HDL Efflux Capacity

Seckler, H. D. S., Fornelli, L., Mutharasan, R. K., Thaxton, C. S., Fellers, R., Daviglus, M., Sniderman, A., Rader, D., Kelleher, N. L., Lloyd-Jones, D. M., Compton, P. D. & Wilkins, J. T., Jun 1 2018, In : Journal of Proteome Research. 17, 6, p. 2156-2164 9 p.

Research output: Contribution to journalArticle

12 Scopus citations

A transition from SoxB1 to SoxE transcription factors is essential for progression from pluripotent blastula cells to neural crest cells

Buitrago-Delgado, E., Schock, E. N., Nordin, K. & LaBonne, C., Dec 15 2018, In : Developmental Biology. 444, 2, p. 50-61 12 p.

Research output: Contribution to journalArticle

3 Scopus citations

Bend-Induced Twist Waves and the Structure of Nucleosomal DNA

Skoruppa, E., Nomidis, S. K., Marko, J. F. & Carlon, E., Aug 21 2018, In : Physical review letters. 121, 8, 088101.

Research output: Contribution to journalArticle

5 Scopus citations

Cell-free protein synthesis from genomically recoded bacteria enables multisite incorporation of noncanonical amino acids

Martin, R. W., Des Soye, B. J., Kwon, Y. C., Kay, J., Davis, R. G., Thomas, P. M., Majewska, N. I., Chen, C. X., Marcum, R. D., Weiss, M. G., Stoddart, A. E., Amiram, M., Ranji Charna, A. K., Patel, J. R., Isaacs, F. J., Kelleher, N. L., Hong, S. H. & Jewett, M. C., Dec 1 2018, In : Nature communications. 9, 1, 1203.

Research output: Contribution to journalArticle

45 Scopus citations

Characterization of a long overlooked copper protein from methane- and ammonia-oxidizing bacteria

Fisher, O. S., Kenney, G. E., Ross, M. O., Ro, S. Y., Lemma, B. E., Batelu, S., Thomas, P. M., Sosnowski, V. C., DeHart, C. J., Kelleher, N. L., Stemmler, T. L., Hoffman, B. M. & Rosenzweig, A. C., Dec 1 2018, In : Nature communications. 9, 1, 4276.

Research output: Contribution to journalArticle

12 Scopus citations

Chromatin histone modifications and rigidity affect nuclear morphology independent of lamins

Stephens, A. D., Liu, P. Z., Banigan, E. J., Almassalha, L. M., Backman, V., Adam, S. A., Goldman, R. D. & Marko, J. F., Jan 15 2018, In : Molecular biology of the cell. 29, 2, p. 220-233 14 p.

Research output: Contribution to journalArticle

36 Scopus citations

Condensin controls mitotic chromosome stiffness and stability without forming a structurally contiguous scaffold

Sun, M., Biggs, R., Hornick, J. & Marko, J. F., Dec 1 2018, In : Chromosome Research. 26, 4, p. 277-295 19 p.

Research output: Contribution to journalArticle

11 Scopus citations

Constitutively Active MDA5 Proteins Are Inhibited by Paramyxovirus v Proteins

Mandhana, R., Qian, L. K. & Horvath, C. M., Aug 1 2018, In : Journal of Interferon and Cytokine Research. 38, 8, p. 319-332 14 p.

Research output: Contribution to journalArticle

Critical Role for Saccharomyces cerevisiae Asc1p in Translational Initiation at Elevated Temperatures

Gerbasi, R. V., Browne, C. M., Samir, P., Shen, B., Sun, M., Hazelbaker, D. Z., Galassie, A. C., Frank, J. & Link, A. J., Dec 1 2018, In : Proteomics. 18, 23, 1800208.

Research output: Contribution to journalArticle

1 Scopus citations

CryoEM structures of open dimers of gyrase A in complex with DNA illuminate mechanism of strand passage

Soczek, K. M., Grant, T., Rosenthal, P. B. & Mondragón, A., Nov 1 2018, In : eLife. 7, e41215.

Research output: Contribution to journalArticle

4 Scopus citations

Crystal Structure of Human Rpp20/Rpp25 Reveals Quaternary Level Adaptation of the Alba Scaffold as Structural Basis for Single-stranded RNA Binding

Chan, C. W., Kiesel, B. R. & Mondragón, A., May 11 2018, In : Journal of Molecular Biology. 430, 10, p. 1403-1416 14 p.

Research output: Contribution to journalArticle

2 Scopus citations

Cu+-specific CopB transporter: Revising p1B-type ATPase classification

Purohit, R., Ross, M. O., Batelu, S., Kusowski, A., Stemmler, T. L., Hoffman, B. M. & Rosenzweig, A. C., Feb 27 2018, In : Proceedings of the National Academy of Sciences of the United States of America. 115, 9, p. 2108-2113 6 p.

Research output: Contribution to journalArticle

7 Scopus citations

Deep sequencing of HIV-1 reverse transcripts reveals the multifaceted antiviral functions of APOBEC3G

Pollpeter, D., Parsons, M., Sobala, A. E., Coxhead, S., Lang, R. D., Bruns, A. M., Papaioannou, S., McDonnell, J. M., Apolonia, L., Chowdhury, J. A., Horvath, C. M. & Malim, M. H., Feb 1 2018, In : Nature Microbiology. 3, 2, p. 220-233 14 p.

Research output: Contribution to journalArticle

28 Scopus citations

Defect-facilitated buckling in supercoiled double-helix DNA

Brahmachari, S., Dittmore, A., Takagi, Y., Neuman, K. C. & Marko, J. F., Feb 28 2018, In : Physical Review E. 97, 2, 022416.

Research output: Contribution to journalArticle

3 Scopus citations

Design, implementation, and evaluation of a multi-disciplinary professional development program for research mentors

Brace, J. L., Baiduc, R. R., Drane, D. L., Flores, L. C., Beitel, G. J. & Lo, S. M., Aug 8 2018, In : Mentoring and Tutoring: Partnership in Learning. 26, 4, p. 377-399 23 p.

Research output: Contribution to journalArticle

1 Scopus citations

Direct membrane binding and self-interaction contribute to Mmr1 function in mitochondrial inheritance

Chen, W. T., Ping, H. A. & Lackner, L. L., Sep 15 2018, In : Molecular biology of the cell. 29, 19, p. 2346-2357 12 p.

Research output: Contribution to journalArticle

3 Scopus citations

Discovery of genomic intervals that underlie nematode responses to benzimidazoles

Zamanian, M., Cook, D. E., Zdraljevic, S., Brady, S. C., Lee, D., Lee, J. & Andersen, E. C., Mar 30 2018, In : PLoS Neglected Tropical Diseases. 12, 3, e0006368.

Research output: Contribution to journalArticle

9 Scopus citations

Discovery of the Tyrobetaine Natural Products and Their Biosynthetic Gene Cluster via Metabologenomics

Parkinson, E. I., Tryon, J. H., Goering, A. W., Ju, K. S., McClure, R. A., Kemball, J. D., Zhukovsky, S., Labeda, D. P., Thomson, R. J., Kelleher, N. L. & Metcalf, W. W., Apr 20 2018, In : ACS chemical biology. 13, 4, p. 1029-1037 9 p.

Research output: Contribution to journalArticle

10 Scopus citations

Dynamic SUMO remodeling drives a series of critical events during the meiotic divisions in Caenorhabditis elegans

Davis-Roca, A. C., Divekar, N. S., Ng, R. K. & Wignall, S. M., Sep 2018, In : PLoS genetics. 14, 9, e1007626.

Research output: Contribution to journalArticle

4 Scopus citations

Effects of electrostatic interactions on ligand dissociation kinetics

Erbaş, A., De La Cruz, M. O. & Marko, J. F., Feb 16 2018, In : Physical Review E. 97, 2, 022405.

Research output: Contribution to journalArticle

5 Scopus citations

Erratum to: Shared strategies for β-lactam catabolism in the soil microbiome (Nature Chemical Biology, (2018), 14, 6, (556-564), 10.1038/s41589-018-0052-1)

Crofts, T. S., Wang, B., Spivak, A., Gianoulis, T. A., Forsberg, K. J., Gibson, M. K., Johnsky, L. A., Broomall, S. M., Rosenzweig, C. N., Skowronski, E. W., Gibbons, H. S., Sommer, M. O. A. & Dantas, G., Jan 1 2018, (Accepted/In press) In : Nature Chemical Biology.

Research output: Contribution to journalArticle

Estimating the Distribution of Protein Post-Translational Modification States by Mass Spectrometry

Compton, P. D., Kelleher, N. L. & Gunawardena, J., Aug 3 2018, In : Journal of Proteome Research. 17, 8, p. 2727-2734 8 p.

Research output: Contribution to journalArticle

5 Scopus citations

Extreme allelic heterogeneity at a Caenorhabditis elegans beta-tubulin locus explains natural resistance to benzimidazoles

Hahnel, S. R., Zdraljevic, S., Rodriguez, B. C., Zhao, Y., McGrath, P. T. & Andersen, E. C., Oct 2018, In : PLoS pathogens. 14, 10, e1007226.

Research output: Contribution to journalArticle

9 Scopus citations

FGF mediated mapk and pi3k/akt signals make distinct contributions to pluripotency and the establishment of neural crest

Geary, L. & Labonne, C., Jan 19 2018, In : eLife. 7, e33845.

Research output: Contribution to journalArticle

9 Scopus citations

From micelles to bicelles: Effect of the membrane on particulate methane monooxygenase activity

Ro, S. Y., Ross, M. O., Deng, Y. W., Batelu, S., Lawton, T. J., Hurley, J. D., Stemmler, T. L., Hoffman, B. M. & Rosenzweig, A. C., Jan 1 2018, In : Journal of Biological Chemistry. 293, 27, p. 10457-10465 9 p.

Research output: Contribution to journalArticle

11 Scopus citations

Histone deacetylase activity has an essential role in establishing and maintaining the vertebrate neural crest

Rao, A. & LaBonne, C., Aug 2018, In : Development (Cambridge). 145, 15, dev163386.

Research output: Contribution to journalArticle

7 Scopus citations

Histone H2A.Z Suppression of Interferon-Stimulated Transcription and Antiviral Immunity Is Modulated by GCN5 and BRD2

Au-Yeung, N. & Horvath, C. M., Aug 31 2018, In : iScience. 6, p. 68-82 15 p.

Research output: Contribution to journalArticle

Open Access
8 Scopus citations
6 Scopus citations

Identification of the First Diketomorpholine Biosynthetic Pathway Using FAC-MS Technology

Robey, M. T., Ye, R., Bok, J. W., Clevenger, K. D., Islam, M. N., Chen, C., Gupta, R., Swyers, M., Wu, E., Gao, P., Thomas, P. M., Wu, C. C., Keller, N. P. & Kelleher, N. L., May 18 2018, In : ACS chemical biology. 13, 5, p. 1142-1147 6 p.

Research output: Contribution to journalArticle

9 Scopus citations

IFN--inducible antiviral responses require ULK1-mediated activation of MLK3 and ERK5

Saleiro, D., Blyth, G. T., Kosciuczuk, E. M., Ozark, P. A., Majchrzak-Kita, B., Arslan, A. D., Fischietti, M., Reddy, N. K., Horvath, C. M., Davis, R. J., Fish, E. N. & Platanias, L. C., Nov 20 2018, In : Science Signaling. 11, 557, aap9921.

Research output: Contribution to journalArticle

1 Scopus citations

Interrogation of Benzomalvin Biosynthesis Using Fungal Artificial Chromosomes with Metabolomic Scoring (FAC-MS): Discovery of a Benzodiazepine Synthase Activity

Clevenger, K. D., Ye, R., Bok, J. W., Thomas, P. M., Islam, M. N., Miley, G. P., Robey, M. T., Chen, C., Yang, K., Swyers, M., Wu, E., Gao, P., Wu, C. C., Keller, N. P. & Kelleher, N. L., Jun 12 2018, In : Biochemistry. 57, 23, p. 3237-3243 7 p.

Research output: Contribution to journalArticle

9 Scopus citations