Research Output

2019

Receptor-Ligand Rebinding Kinetics in Confinement

Erbaş, A., Olvera de la Cruz, M. & Marko, J. F., May 7 2019, In : Biophysical Journal. 116, 9, p. 1609-1624 16 p.

Research output: Contribution to journalArticle

Repressive Gene Regulation Synchronizes Development with Cellular Metabolism

Cassidy, J. J., Bernasek, S. M., Bakker, R., Giri, R., Peláez, N., Eder, B., Bobrowska, A., Bagheri, N., Nunes Amaral, L. A. & Carthew, R. W., Aug 8 2019, In : Cell. 178, 4, p. 980-992.e17

Research output: Contribution to journalArticle

5 Scopus citations
6 Scopus citations

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

3 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
8 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

6 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

Spindle assembly and chromosome dynamics during oocyte meiosis

Mullen, T. J., Davis-Roca, A. C. & Wignall, S. M., Oct 2019, In : Current Opinion in Cell Biology. 60, p. 53-59 7 p.

Research output: Contribution to journalReview article

2 Scopus citations

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

9 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

4 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., 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

6 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

32 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
50 Scopus citations

Teaching endocrinology - The highest calling

Woodruff, T. K., Feb 14 2019, In : Endocrinology. 160, 3, p. 534-535 2 p.

Research output: Contribution to journalEditorial

The caenorhabditis genetics center (CGC) and the caenorhabditis elegans natural diversity resource

Daul, A. L., Andersen, E. C. & Rougvie, A. E., Jan 1 2019, The Biological Resources of Model Organisms. CRC Press, p. 69-94 26 p.

Research output: Chapter in Book/Report/Conference proceedingChapter

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

3 Scopus citations

The Development of an International Oncofertility Competency Framework: A Model to Increase Oncofertility Implementation

Anazodo, A., Laws, P., Logan, S., Saunders, C., Travaglia, J., Gerstl, B., Bradford, N., Cohn, R., Birdsall, M., Barr, R., Suzuki, N., Takae, S., Marinho, R., Xiao, S., Chen, Q. H., Mahajan, N., Patil, M., Gunasheela, D., Smith, K., Sender, L. & 12 others, Melo, C., Almeida-Santos, T., Salama, M., Appiah, L., Su, I., Lane, S., Woodruff, T. K., Pacey, A., Anderson, R. A., Shenfield, F., Sullivan, E. & Ledger, W., Dec 1 2019, In : Oncologist. 24, 12, p. e1450-e1459

Research output: Contribution to journalArticle

4 Scopus citations

The Expanding and Unexpected Functions of Mitochondria Contact Sites

Lackner, L. L., Jul 2019, In : Trends in Cell Biology. 29, 7, p. 580-590 11 p.

Research output: Contribution to journalReview article

21 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

22 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

11 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

4 Scopus citations

Type II secretion promotes bacterial growth within the Legionella-containing vacuole in infected amoebae

White, R. C., Truchan, H. K., Zheng, H., Tyson, J. Y. & Cianciotto, N. P., 2019, In : Infection and immunity. 87, 11, e00374-19.

Research output: Contribution to journalArticle

2 Scopus citations

Unwinding chromatin at the right places: How BAF is targeted to specific genomic locations during development

Ho, P. J., Lloyd, S. M. & Bao, X., 2019, In : Development (Cambridge). 146, 19, dev178780.

Research output: Contribution to journalReview article

Open Access
2 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
15 Scopus citations

Women in reproductive science: Lessons from bioengineering the ovarian follicle: A personal perspective

Woodruff, T. K., 2019, In : Reproduction. 158, 6, p. F113-F126

Research output: Contribution to journalReview article

Open Access
1 Scopus citations

Women who win prizes get less money and prestige

Ma, Y., Oliveira, D. F. M., Woodruff, T. K. & Uzzi, B., Jan 17 2019, In : Nature. 565, 7739, p. 287-288 2 p.

Research output: Contribution to journalComment/debate

8 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., 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

29 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

Barriers and opportunities of oncofertility practice in nine developing countries and the emerging oncofertility professional engagement network

Salama, M., Ataman-Millhouse, L., Sobral, F., Terrado, G., Scarella, A., Bourlon, M. T., Adiga, S. K., Udupa, K. S., Mahajan, N., Patil, M., Venter, C., Demetriou, G., Quintana, R., Rodriguez, G., Quintana, T., Viale, L., Bonilla, Y. A. R., Noguera, J. A. R., Velásquez, J. C. V., Pineda, J. I. D. & 6 others, Aldecoa, M. D. C., Javed, M., Al Sufyan, H., Daniels, N., Ogunmokun, A. A. & Woodruff, T. K., 2018, In : Journal of Global Oncology. 2018, 4, 00180.

Research output: Contribution to journalArticle

Open Access
6 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

6 Scopus citations

Breaking the mold: structures of the RNA polymerase I transcription complex reveal a new path for initiation

Jackobel, A. J., Han, Y., He, Y. & Knutson, B. A., Aug 8 2018, In : Transcription. 9, 4, p. 255-261 7 p.

Research output: Contribution to journalComment/debate

2 Scopus citations

Building oncofertility core competency in developing countries: Experience from Egypt, Tunisia, Brazil, Peru, and Panama

Salama, M., Ataman, L., Taha, T., Azmy, O., Braham, M., Douik, F., Khrouf, M., Rodrigues, J. K., Reis, F. M., Sánchez, F., Romero, S., Vega, M. & Woodruff, T. K., Mar 1 2018, In : Journal of Global Oncology. 2018, 4

Research output: Contribution to journalArticle

10 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

59 Scopus citations

Chalkophores

Kenney, G. E. & Rosenzweig, A. C., Jun 20 2018, In : Annual review of biochemistry. 87, p. 645-676 32 p.

Research output: Contribution to journalReview article

9 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

15 Scopus citations

Checkpoint checkmate: Microbiota modulation of cancer immunotherapy

Keen, E. C., Crofts, T. S. & Dantas, G., Sep 2018, In : Clinical chemistry. 64, 9, p. 1280-1283 4 p.

Research output: Contribution to journalReview article

1 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

45 Scopus citations

Communicating Endocrine Science: Part II

Editor-in-Chief, Endocrinology, Sep 1 2018, In : Endocrinology. 159, 9, p. 3257-3258 2 p.

Research output: Contribution to journalEditorial

Open Access

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

14 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

1 Scopus citations

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

10 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

31 Scopus citations