Research output per year
Research output per year
- 1 - 50 out of 239 results
Search results
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2024
Chemotherapy activates inflammasomes to cause inflammation-associated bone loss
Wang, C., Kaur, K., Xu, C., Abu-Amer, Y. & Mbalaviele, G., Apr 11 2024, In: eLife. 13Research output: Contribution to journal › Article › peer-review
Open Access2 Scopus citations -
Direct prediction of intrinsically disordered protein conformational properties from sequence
Lotthammer, J. M., Ginell, G. M., Griffith, D., Emenecker, R. J. & Holehouse, A. S., Mar 2024, In: Nature Methods. 21, 3, p. 465-476 12 p.Research output: Contribution to journal › Article › peer-review
Open Access26 Scopus citations -
Disordered clock protein interactions and charge blocks turn an hourglass into a persistent circadian oscillator
Jankowski, M. S., Griffith, D., Shastry, D. G., Pelham, J. F., Ginell, G. M., Thomas, J., Karande, P., Holehouse, A. S. & Hurley, J. M., Dec 2024, In: Nature communications. 15, 1, 3523.Research output: Contribution to journal › Article › peer-review
Open Access1 Scopus citations -
Dissecting the biophysics and biology of intrinsically disordered proteins
Banerjee, P. R., Holehouse, A. S., Kriwacki, R., Robustelli, P., Jiang, H., Sobolevsky, A. I., Hurley, J. M. & Mendell, J. T., Feb 2024, In: Trends in biochemical sciences. 49, 2, p. 101-104 4 p.Research output: Contribution to journal › Comment/debate
2 Scopus citations -
DNA hypomethylation ameliorates erosive inflammatory arthritis by modulating interferon regulatory factor-8
Swarnkar, G., Semenkovich, N. P., Arra, M., Mims, D. K., Naqvi, S. K., Peterson, T., Mbalaviele, G., Wu, C. L. & Abu-Amer, Y., Feb 13 2024, In: Proceedings of the National Academy of Sciences of the United States of America. 121, 7, e2310264121.Research output: Contribution to journal › Article › peer-review
Open Access1 Scopus citations -
Editorial: Inflammasomes in human diseases and metabolism
Mbalaviele, G. & Ryffel, B., 2024, In: Frontiers in immunology. 15, 1420303.Research output: Contribution to journal › Editorial
Open Access -
Helicity of a tardigrade disordered protein contributes to its protective function during desiccation
Biswas, S., Gollub, E., Yu, F., Ginell, G., Holehouse, A., Sukenik, S. & Boothby, T. C., Feb 2024, In: Protein Science. 33, 2, e4872.Research output: Contribution to journal › Article › peer-review
Open Access4 Scopus citations -
Identification of plant transcriptional activation domains
Morffy, N., Van den Broeck, L., Miller, C., Emenecker, R. J., Bryant, J. A., Lee, T. M., Sageman-Furnas, K., Wilkinson, E. G., Pathak, S., Kotha, S. R., Lam, A., Mahatma, S., Pande, V., Waoo, A., Wright, R. C., Holehouse, A. S., Staller, M. V., Sozzani, R. & Strader, L. C., Aug 1 2024, In: Nature. 632, 8023, p. 166-173 8 p.Research output: Contribution to journal › Article › peer-review
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Labile assembly of a tardigrade protein induces biostasis
Sanchez-Martinez, S., Nguyen, K., Biswas, S., Nicholson, V., Romanyuk, A. V., Ramirez, J., Kc, S., Akter, A., Childs, C., Meese, E. K., Usher, E. T., Ginell, G. M., Yu, F., Gollub, E., Malferrari, M., Francia, F., Venturoli, G., Martin, E. W., Caporaletti, F. & Giubertoni, G. & 5 others, , Apr 2024, In: Protein Science. 33, 4, e4941.Research output: Contribution to journal › Article › peer-review
Open Access3 Scopus citations -
NLRP1 inflammasome promotes senescence and senescence-associated secretory phenotype
Muela-Zarzuela, I., Suarez-Rivero, J. M., Gallardo-Orihuela, A., Wang, C., Izawa, K., de Gregorio-Procopio, M., Couillin, I., Ryffel, B., Kitaura, J., Sanz, A., von Zglinicki, T., Mbalaviele, G. & Cordero, M. D., Aug 2024, In: Inflammation Research. 73, 8, p. 1253-1266 14 p.Research output: Contribution to journal › Article › peer-review
Open Access2 Scopus citations -
Phase transition of GvpU regulates gas vesicle clustering in bacteria
Li, Z., Shen, Q., Usher, E. T., Anderson, A. P., Iburg, M., Lin, R., Zimmer, B., Meyer, M. D., Holehouse, A. S., You, L., Chilkoti, A., Dai, Y. & Lu, G. J., Apr 2024, In: Nature microbiology. 9, 4, p. 1021-1035 15 p.Research output: Contribution to journal › Article › peer-review
2 Scopus citations -
PML::RARA and GATA2 proteins interact via DNA templates to induce aberrant self-renewal in mouse and human hematopoietic cells
Katerndahl, C. D. S., Rogers, O. R. S., Day, R. B., Xu, Z., Helton, N. M., Ramakrishnan, S. M., Miller, C. A. & Ley, T. J., Apr 30 2024, In: Proceedings of the National Academy of Sciences of the United States of America. 121, 18, e2317690121.Research output: Contribution to journal › Article › peer-review
Open Access -
Proteogenomic analysis reveals cytoplasmic sequestration of RUNX1 by the acute myeloid leukemia–initiating CBFB::MYH11 oncofusion protein
Day, R. B., Hickman, J. A., Xu, Z., Katerndahl, C. D. S., Ferraro, F., Ramakrishnan, S. M., Erdmann-Gilmore, P., Sprung, R. W., Mi, Y., Townsend, R. R., Miller, C. A. & Ley, T. J., Feb 15 2024, In: Journal of Clinical Investigation. 134, 4, 1e176311.Research output: Contribution to journal › Article › peer-review
Open Access1 Scopus citations -
SARS-CoV-2 Omicron BA.1 Variant Infection of Human Colon Epithelial Cells
Antia, A., Alvarado, D. M., Zeng, Q., Casorla-Perez, L. A., Davis, D. L., Sonnek, N. M., Ciorba, M. A. & Ding, S., Apr 2024, In: Viruses. 16, 4, 634.Research output: Contribution to journal › Article › peer-review
Open Access1 Scopus citations -
Structural biases in disordered proteins are prevalent in the cell
Moses, D., Guadalupe, K., Yu, F., Flores, E., Perez, A. R., McAnelly, R., Shamoon, N. M., Kaur, G., Cuevas-Zepeda, E., Merg, A. D., Martin, E. W., Holehouse, A. S. & Sukenik, S., Feb 2024, In: Nature Structural and Molecular Biology. 31, 2, p. 283-292 10 p.Research output: Contribution to journal › Article › peer-review
Open Access12 Scopus citations -
The disordered N-terminal tail of SARS-CoV-2 Nucleocapsid protein forms a dynamic complex with RNA
Cubuk, J., Alston, J. J., Incicco, J. J., Holehouse, A. S., Hall, K., Stuchell-Brereton, M. D. & Soranno, A., Mar 21 2024, In: Nucleic acids research. 52, 5, p. 2609-2624 16 p.Research output: Contribution to journal › Article › peer-review
Open Access5 Scopus citations -
The molecular basis for cellular function of intrinsically disordered protein regions
Holehouse, A. S. & Kragelund, B. B., Mar 2024, In: Nature Reviews Molecular Cell Biology. 25, 3, p. 187-211 25 p.Research output: Contribution to journal › Review article › peer-review
Open Access69 Scopus citations -
Tmem178 Negatively Regulates IL-1β Production Through Inhibition of the NLRP3 Inflammasome
Khanna, K., Yan, H., Mehra, M., Rohatgi, N., Mbalaviele, G., Mellins, E. D. & Faccio, R., Jan 2024, In: Arthritis and Rheumatology. 76, 1, p. 107-118 12 p.Research output: Contribution to journal › Article › peer-review
Open Access2 Scopus citations -
2023
A functional link between lariat debranching enzyme and the intron-binding complex is defective in non-photosensitive trichothiodystrophy
Townley, B. A., Buerer, L., Tsao, N., Bacolla, A., Mansoori, F., Rusanov, T., Clark, N., Goodarzi, N., Schmidt, N., Srivatsan, S. N., Sun, H., Sample, R. A., Brickner, J. R., McDonald, D., Tsai, M. S., Walter, M. J., Wozniak, D. F., Holehouse, A. S., Pena, V. & Tainer, J. A. & 2 others, , Jul 6 2023, In: Molecular cell. 83, 13, p. 2258-2275.e11Research output: Contribution to journal › Article › peer-review
Open Access2 Scopus citations -
An Introduction to the Stickers-and-Spacers Framework as Applied to Biomolecular Condensates
Ginell, G. M. & Holehouse, A. S., 2023, Methods in Molecular Biology. Humana Press Inc., p. 95-116 22 p. (Methods in Molecular Biology; vol. 2563).Research output: Chapter in Book/Report/Conference proceeding › Chapter › peer-review
21 Scopus citations -
CAID prediction portal: A comprehensive service for predicting intrinsic disorder and binding regions in proteins
CAID predictors, Del Conte, A., Bouhraoua, A., Mehdiabadi, M., Clementel, D., Monzon, A. M., Tosatto, S. C. E., Piovesan, D., Holehouse, A. S., Griffith, D., Emenecker, R. J., Patil, A., Sharma, R., Tsunoda, T., Sharma, A., Tang, Y. J., Liu, B., Mirabello, C., Wallner, B. & Rost, B. & 44 others, , Jul 5 2023, In: Nucleic acids research. 51, W1, p. W62-W69Research output: Contribution to journal › Article › peer-review
Open Access17 Scopus citations -
Cellular states are coupled to genomic and viral heterogeneity in HPV-related oropharyngeal carcinoma
Puram, S. V., Mints, M., Pal, A., Qi, Z., Reeb, A., Gelev, K., Barrett, T. F., Gerndt, S., Liu, P., Parikh, A. S., Ramadan, S., Law, T., Mroz, E. A., Rocco, J. W., Adkins, D., Thorstad, W. L., Gay, H. A., Ding, L., Paniello, R. C. & Pipkorn, P. & 7 others, , Apr 2023, In: Nature Genetics. 55, 4, p. 640-650 11 p.Research output: Contribution to journal › Article › peer-review
21 Scopus citations -
FIREBALL: A tool to fit protein phase diagrams based on mean-field theories for polymer solutions
Farag, M., Holehouse, A. S., Zeng, X. & Pappu, R. V., Jun 20 2023, In: Biophysical Journal. 122, 12, p. 2396-2403 8 p.Research output: Contribution to journal › Article › peer-review
Open Access6 Scopus citations -
Inflammatory Bowel Disease Is Associated With an Increased Risk of Incident Acute Arterial Events: Analysis of the United Kingdom Biobank
Alayo, Q. A., Loftus, E. V., Yarur, A., Alvarado, D., Ciorba, M. A., de las Fuentes, L. & Deepak, P., Mar 2023, In: Clinical Gastroenterology and Hepatology. 21, 3, p. 761-770.e13Research output: Contribution to journal › Article › peer-review
18 Scopus citations -
Intrinsically disordered regions are poised to act as sensors of cellular chemistry
Moses, D., Ginell, G. M., Holehouse, A. S. & Sukenik, S., Dec 2023, In: Trends in biochemical sciences. 48, 12, p. 1019-1034 16 p.Research output: Contribution to journal › Review article › peer-review
Open Access24 Scopus citations -
Mutations associated with progression in follicular lymphoma predict inferior outcomes at diagnosis: Alliance A151303
Russler-Germain, D. A., Krysiak, K., Ramirez, C., Mosior, M., Watkins, M. P., Gomez, F., Skidmore, Z. L., Trani, L., Gao, F., Geyer, S., Cashen, A. F., Mehta-Shah, N., Kahl, B. S., Bartlett, N. L., Alderuccio, J. P., Lossos, I. S., Ondrejka, S. L., Hsi, E. D., Martin, P. & Leonard, J. P. & 3 others, , Sep 26 2023, In: Blood Advances. 7, 18, p. 5524-5539 16 p.Research output: Contribution to journal › Article › peer-review
Open Access7 Scopus citations -
Nitric oxide-mediated S-nitrosylation of IAA17 protein in intrinsically disordered region represses auxin signaling
Jing, H., Yang, X., Emenecker, R. J., Feng, J., Zhang, J., Figueiredo, M. R. A. D., Chaisupa, P., Wright, R. C., Holehouse, A. S., Strader, L. C. & Zuo, J., Jul 2023, In: Journal of Genetics and Genomics. 50, 7, p. 473-485 13 p.Research output: Contribution to journal › Article › peer-review
Open Access11 Scopus citations -
Poly(A)-binding protein is an ataxin-2 chaperone that regulates biomolecular condensates
Boeynaems, S., Dorone, Y., Zhuang, Y., Shabardina, V., Huang, G., Marian, A., Kim, G., Sanyal, A., Şen, N. E., Griffith, D., Docampo, R., Lasker, K., Ruiz-Trillo, I., Auburger, G., Holehouse, A. S., Kabashi, E., Lin, Y. & Gitler, A. D., Jun 15 2023, In: Molecular cell. 83, 12, p. 2020-2034.e6Research output: Contribution to journal › Article › peer-review
Open Access6 Scopus citations -
RBM47 regulates intestinal injury and tumorigenesis by modifying proliferation, oxidative response, and inflammatory pathways
Soleymanjahi, S., Blanc, V., Molitor, E. A., Alvarado, D. M., Xie, Y., Gazit, V., Brown, J. W., Byrnes, K., Liu, T. C., Mills, J. C., Ciorba, M. A., Rubin, D. C. & Davidson, N. O., 2023, In: JCI Insight. 8, 9, e161118.Research output: Contribution to journal › Article › peer-review
Open Access5 Scopus citations -
SHEPHARD: a modular and extensible software architecture for analyzing and annotating large protein datasets
Ginell, G. M., Flynn, A. J. & Holehouse, A. S., Aug 1 2023, In: Bioinformatics. 39, 8, btad488.Research output: Contribution to journal › Article › peer-review
Open Access3 Scopus citations -
SOURSOP: A Python Package for the Analysis of Simulations of Intrinsically Disordered Proteins
Lalmansingh, J. M., Keeley, A. T., Ruff, K. M., Pappu, R. V. & Holehouse, A. S., Aug 22 2023, In: Journal of Chemical Theory and Computation. 19, 16, p. 5609-5620 12 p.Research output: Contribution to journal › Article › peer-review
Open Access10 Scopus citations -
Stress granules offer first aid for leaky organelles
Plassmeyer, S. P. & Holehouse, A. S., Nov 30 2023, In: Nature. 623, 7989, p. 919-920 2 p.Research output: Contribution to journal › Comment/debate
1 Scopus citations -
The Analytical Flory Random Coil Is a Simple-to-Use Reference Model for Unfolded and Disordered Proteins
Alston, J. J., Ginell, G. M., Soranno, A. & Holehouse, A. S., Jun 1 2023, In: Journal of Physical Chemistry B. 127, 21, p. 4746-4760 15 p.Research output: Contribution to journal › Article › peer-review
Open Access11 Scopus citations -
Ultra-Deep Sequencing Reveals the Mutational Landscape of Classical Hodgkin Lymphoma
Gomez, F., Fisk, B., McMichael, J. F., Mosior, M., Foltz, J. A., Skidmore, Z. L., Duncavage, E. J., Miller, C. A., Abel, H., Li, Y. S., Russler-Germain, D. A., Krysiak, K., Watkins, M. P., Ramirez, C. A., Schmidt, A., Rodrigues, F. M., Trani, L., Khanna, A., Wagner, J. A. & Fulton, R. S. & 11 others, , Nov 2023, In: Cancer research communications. 3, 11, p. 2312-2330 19 p.Research output: Contribution to journal › Article › peer-review
Open Access6 Scopus citations -
Using graphs and charts in scientific figures
Buda, K., Cermakova, K., Hodges, H. C., Fornasiero, E. F., Sukenik, S. & Holehouse, A. S., Nov 2023, In: Trends in biochemical sciences. 48, 11, p. 913-916 4 p.Research output: Contribution to journal › Comment/debate
Open Access -
Virus Induced Membraneless Organelles and Biomolecular Condensates
Mouland, A. J., Parent, L., Weber, S. C. & Holehouse, A. S., Aug 15 2023, In: Journal of Molecular Biology. 435, 16, 168213.Research output: Contribution to journal › Editorial
Open Access3 Scopus citations -
2022
Adding Fuel to the Fire? A Role of Intraepithelial Lymphocytes in Enteric Immune Responses to SARS-CoV-2 Infection
Antia, A., Alvarado, D. M., Ding, S. & Ciorba, M. A., May 2022, In: Gastroenterology. 162, 6, p. 1766-1767 2 p.Research output: Contribution to journal › Comment/debate
Open Access1 Scopus citations -
Compound loss of GSDMD and GSDME function is necessary to achieve maximal therapeutic effect in colitis
Xiao, J., Sun, K., Wang, C., Abu-Amer, Y. & Mbalaviele, G., Jan 2022, In: Journal of Translational Autoimmunity. 5, 100162.Research output: Contribution to journal › Article › peer-review
Open Access7 Scopus citations -
Conformational buffering underlies functional selection in intrinsically disordered protein regions
González-Foutel, N. S., Glavina, J., Borcherds, W. M., Safranchik, M., Barrera-Vilarmau, S., Sagar, A., Estaña, A., Barozet, A., Garrone, N. A., Fernandez-Ballester, G., Blanes-Mira, C., Sánchez, I. E., de Prat-Gay, G., Cortés, J., Bernadó, P., Pappu, R. V., Holehouse, A. S., Daughdrill, G. W. & Chemes, L. B., Aug 2022, In: Nature Structural and Molecular Biology. 29, 8, p. 781-790 10 p.Research output: Contribution to journal › Article › peer-review
Open Access44 Scopus citations -
Directed mutational scanning reveals a balance between acidic and hydrophobic residues in strong human activation domains
Staller, M., Ramirez, E., Kotha, S. R., Holehouse, A. S., Pappu, R. V. & Cohen, B. A., Apr 20 2022, In: Cell Systems. 13, 4, p. 334-345.e5Research output: Contribution to journal › Article › peer-review
Open Access46 Scopus citations -
Fracture healing is delayed in the absence of gasdermin-interleukin-1 signaling
Sun, K., Wang, C., Xiao, J., Brodt, M. D., Yuan, L., Yang, T., Alippe, Y., Hu, H., Hao, D., Abu-Amer, Y., Silva, M. J., Shen, J. & Mbalaviele, G., Mar 2022, In: eLife. 11, e75753.Research output: Contribution to journal › Article › peer-review
Open Access8 Scopus citations -
Glutamine metabolism modulates chondrocyte inflammatory response
Arra, M., Swarnkar, G., Adapala, N. S., Naqvi, S. K., Cai, L., Rai, M. F., Singamaneni, S., Mbalaviele, G., Brophy, R. & Abu-Amer, Y., 2022, In: eLife. 11, e80725.Research output: Contribution to journal › Article › peer-review
Open Access14 Scopus citations -
Hyperphosphorylation tunes TDP-43 solubility
Ginell, G. M. & Holehouse, A. S., Apr 19 2022, In: EMBO Journal. 41, 8, e111062.Research output: Contribution to journal › Comment/debate
Open Access1 Scopus citations -
IL-1β expression in bone marrow dendritic cells is induced by TLR2 agonists and regulates HSC function
Li, S., Yao, J. C., Oetjen, K. A., Krambs, J. R., Xia, J., Zhang, J., Schmidt, A. P., Helton, N. M., Fulton, R. S., Heath, S. E., Turnbull, I. R., Mbalaviele, G., Ley, T. J., Walter, M. J. & Link, D. C., Oct 6 2022, In: Blood. 140, 14, p. 1607-1620 14 p.Research output: Contribution to journal › Article › peer-review
Open Access5 Scopus citations -
Intrinsically disordered CO2 sensors
Emenecker, R. J. & Holehouse, A. S., Jul 2022, In: Nature Cell Biology. 24, 7, p. 1013-1014 2 p.Research output: Contribution to journal › Comment/debate
1 Scopus citations -
IκB-ζ signaling promotes chondrocyte inflammatory phenotype, senescence, and erosive joint pathology
Arra, M., Swarnkar, G., Alippe, Y., Mbalaviele, G. & Abu-Amer, Y., Dec 2022, In: Bone Research. 10, 1, 12.Research output: Contribution to journal › Article › peer-review
Open Access28 Scopus citations -
LINC00355 regulates p27KIP expression by binding to MENIN to induce proliferation in late-stage relapse breast cancer
Eteleeb, A. M., Thunuguntla, P. K., Gelev, K. Z., Tang, C. Y., Rozycki, E. B., Miller, A., Lei, J. T., Jayasinghe, R. G., Dang, H. X., White, N. M., Reis-Filho, J. S., Mardis, E. R., Ellis, M. J., Ding, L., Silva-Fisher, J. M. & Maher, C. A., Dec 2022, In: npj Breast Cancer. 8, 1, 49.Research output: Contribution to journal › Article › peer-review
Open Access5 Scopus citations -
Liquid Phase Partitioning in Virus Replication: Observations and Opportunities
Wu, C., Holehouse, A. S., Leung, D. W., Amarasinghe, G. K. & Dutch, R. E., 2022, In: Annual Review of Virology. 9, p. 285-306 22 p.Research output: Contribution to journal › Review article › peer-review
Open Access27 Scopus citations -
Mechanisms of autophagy and mitophagy in skeletal development, diseases and therapeutics
Behera, J., Ison, J., Tyagi, A., Mbalaviele, G. & Tyagi, N., Jul 15 2022, In: Life Sciences. 301, 120595.Research output: Contribution to journal › Review article › peer-review
Open Access19 Scopus citations -
Mesalamine Reduces Intestinal ACE2 Expression Without Modifying SARS-CoV-2 Infection or Disease Severity in Mice
Alvarado, D. M., Son, J., Thackray, L. B., Gomez Castro, M. F., Prasad, S., Cui, X., Sonnek, N. M., Diamond, M., Ding, S. & Ciorba, M. A., Feb 1 2022, In: Inflammatory bowel diseases. 28, 2, p. 318-321 4 p.Research output: Contribution to journal › Article › peer-review
Open Access5 Scopus citations