Channel: University of California, San Francisco

This collection includes bioRxiv and medRxiv papers from authors at University of California, San Francisco.

3200 Articles

Genome modeling and design across all domains of life with Evo 2

Brixi, G., Durrant, M. G., Ku, J., Poli, M., Brockman, G., Chang, D., Gonzalez, G. A., King, S. H., Li, D. B., Merchant, A. T., Naghipourfar, M., Nguyen, E., Ricci-Tam, C., Romero, D. W., Sun, G., Taghibakshi, A., Vorontsov, A., Yang, B., Deng, M., Gorton, L., Nguyen, N., Wang, N. K., Adams, E., Baccus, S. A., Dillmann, S., Ermon, S., Guo, D., Ilango, R., Janik, K., Lu, A. X., Mehta, R., Mofrad, M. R. K., Ng, M. Y., Pannu, J., Re, C., Schmok, J. C., St. John, J., Sullivan, J., Zhu, K., Zynda, G., Balsam, D., Collison, P., Costa, A. B., Hernandez-Boussard, T., Ho, E., Liu, M.-Y., McGrath, T., P

10.1101/2025.02.18.638918 — Posted: 2025-02-21

Plasmodium falciparum genomic surveillance reveals a diversity of kelch13 mutations in Zambia

Aranda-Diaz, A., Mwanza, S., Makhanthisa, T. I., Lauterbach, S. B., De Amaral, F., Chisenga, M., Mangena, B., Routledge, I., Letinic, B., Kasonde, B., Chongwe, G., Mwenda, M. C., Miller, J. M., Hibwato, T., Jacob, C., Hamainza, B., Bwalya, S., Chiwaula, J., Matoba, J., Sikaala, C., Chimumbwa, J., Wesolowski, A., Smith, J. L., Raman, J., Hawela, M.

10.1101/2025.02.19.25322554 — Posted: 2025-02-21

A Trypanosoma cruzi Trans-Sialidase Peptide Demonstrates High Serological Prevalence Among Infected Populations Across Endemic Regions of Latin America

Kortbawi, H. M., Marczak, R. J., Rajan, J. V., Bulaong, N. L., Pak, J. E., Wu, W., Wang, G., Mitchell, A., Saxena, A., Maheshwari, A., Fleischmann, C. J., Kelly, E. A., Teal, E., Townsend, R. L., Stramer, S. L., Okamoto, E. E., Sherbuk, J. E., Clark, E. H., Gilman, R. H., Colanzi, R., Gennatas, E. D., Bern, C., DeRisi, J. L., Whitman, J. D.

10.1101/2025.01.22.25320967 — Posted: 2025-02-21

Peripheral blood mononuclear cell transcriptomic trajectories reveal dynamic regulation of inflammatory actors in delirium

LaHue, S. C., Takegami, N., Simmasalam, R., Baqai, A., Munoz, E., Sikri, A., du Buisson de Courson, T., Singhal, N. S., Eckalbar, W., Langelier, C. R., Hendrickson, C. M., Calfee, C. S., Erle, D. J., Krummel, M. F., Woodruff, P. G., Oskotsky, T., Sirota, M., Ferguson, A. R., Douglas, V. C., Newman, J. C., Pleasure, S. J., Wilson, M. R., COMET consortium, , Singhal, N. S.

10.1101/2025.02.14.25322163 — Posted: 2025-02-20

Associations between residential segregation, ambient air pollution, and hippocampal features in recent trauma survivors

Liang, S. S., Roeckner, A. R., Ely, T. D., Lebois, L. A. M., van Rooij, S. J. H., Bruce, S. E., Jovanovic, T., House, S. L., Beaudoin, F. L., An, X., Neylan, T. C., Clifford, G. D., Linnstaedt, S. D., Germine, L. T., Rauch, S. L., Haran, J. P., Storrow, A. B., Lewandowski, C., Musey, P. I., Hendry, P. L., Sheikh, S., Pascual, J. L., Seamon, M. J., Harris, E., Pearson, C., Peak, D. A., Merchant, R. C., Domeier, R. M., Rathlev, N. K., O'Neil, B. J., Sergot, P., Sanchez, L. D., Sheridan, J. F., Harte, S. E., Kessler, R. C., Koenen, K. C., McLean, S. A., Ressler, K. J., Stevens, J. S., Webb, E. K.

10.1101/2025.02.18.25322464 — Posted: 2025-02-20

Type 2 diabetes polygenic risk score demonstrates context-dependent effects and associations with type 2 diabetes-related risk factors and complications across diverse populations

Guo, B., Cai, Y., Kim, D., Smit, R. A. J., Wang, Z., Iyer, K. R., Hilliard, A. T., Haessler, J., Tao, R., Broadaway, K. A., Wang, Y., Pozdeyev, N., Staeger, F. F., Yang, C., Vanderwerff, B., Patki, A. D., Stalbow, L., Lin, M., Rafaels, N., Shortt, J., Wiley, L., Stanislawski, M., Pattee, J., Davis, L., Straub, P. S., Shuey, M. M., Cox, N. J., Lee, N. R., Jorgensen, M. E., Bjerregaard, P., Larsen, C., Hansen, T., Moltke, I., Meigs, J. B., Stram, D. O., Yin, X., Zhou, X., Chang, K.-M., Clarke, S. L., Guarischi-Sousa, R., Lankester, J., Tsao, P. S., Buyske, S., Graff, M., Raffield, L. M., Sun, Q.

10.1101/2025.02.15.25322341 — Posted: 2025-02-20

Human precentral gyrus neurons link speech sequences from listening to speaking

Xu, D., Chung, J. E., Silva, A. B., Greicius, Q. R., Metzger, S. L., Zhang, Y., Leonard, M. K., Aghi, M. K., Hervey-Jumper, S. L., Chang, E. F.

10.1101/2024.12.27.630563 — Posted: 2025-02-20

Sensitive and modular amplicon sequencing of Plasmodium falciparum diversity and resistance for research and public health

Aranda-Diaz, A., Vickers, E. N., Murie, K., Palmer, B., Hathaway, N., Gerlovina, I., Boene, S., Garcia-Ulloa, M., Cistero, P., Katairo, T., Semakuba, F. D., Nsengimaana, B., Gwarinda, H., Garcia-Fernandez, C., Louie, W., Esayas, E., Da Silva, C., Datta, D., Kiyaga, S., Wiringilimaana, I., Fekele, S. M., Bennett, A., Smith, J. L., Gadisa, E., Parr, J. B., Conrad, M., Raman, J., Tukwasibwe, S., Ssewanyana, I., Rovira-Vallbona, E., Tato, C. M., Briggs, J., Mayor, A., Greenhouse, B.

10.1101/2024.08.22.609145 — Posted: 2025-02-19

Identification of a conserved subset of cold tumors responsive to immune checkpoint blockade

Moore, J., Gkantalis, J., Guix, I., Chou, W., Yuen, K., Lazar, A., Spitzer, M. H., Combes, A., Barcellos-Hoff, M. H.

10.1101/2024.03.06.583752 — Posted: 2025-02-19

Comorbidity analysis and clustering of endometriosis patients using electronic health records

Khan, U., Oskotsky, T. T., Yilmaz, B. D., Roger, J., Gjoni, K., Irwin, J. C., Opoku-Anane, J., Elhadad, N., Giudice, L. C., Sirota, M.

10.1101/2025.02.13.25322244 — Posted: 2025-02-19

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