Channel: University of California, San Francisco

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

2355 Articles

Accurate estimation of intraspecific microbial gene content variation in metagenomic data with MIDAS v3 and StrainPGC

Smith, B. J., Zhao, C., Dubinkina, V., Jin, X., Zahavi, L., Shoer, S., Moltzau-Anderson, J., Segal, E., Pollard, K.

10.1101/2024.04.10.588779 — Posted: 2024-11-11

Disease-Linked Regulatory DNA Variants and Homeostatic Transcription Factors in Epidermis

Porter, D. F., Meyers, R. M., Miao, W., Reynolds, D., Hong, A. W., Yang, X., Mondal, S., Siprashvili, Z., Srinivasan, S., DUCOLI, L., Meyers, J., Nguyen, D., Ko, L., Kellman, L., Elfaki, I., Guo, M., Winge, M., Lopez-Pajares, V., Tao, S., Khavari, P.

10.1101/2024.11.07.622542 — Posted: 2024-11-11

Genetic Basis, Quantitative Nature, and Functional Relevance of Evolutionarily Conserved DNA Methylation

Dong, Z., Schaffner, S., Fu, M., Whitehead, J., MacIsaac, J. L., Rehkopf, D. H., Boyce, W. T., Rosero-Bixby, L., Quintana-Murci, L., Patin, E., Miller, G. E., Korthauer, K., Kobor, M. S.

10.1101/2024.11.07.622474 — Posted: 2024-11-09

Integrated, high-dimensional analysis of CD4 T cell epitope specificities and phenotypes reveals unexpected diversity in the response to Mycobacterium tuberculosis

Mead, H. L., Kirschman, J. H., Harms, C. E., Kelley, E. J., Soria-Bustos, J., Nelson, G. A., Ogongo, P., Ouma, G., Ouma, S. G., Ernst, J. D., Altin, J. A.

10.1101/2024.11.05.622086 — Posted: 2024-11-08

Human xenobiotic metabolism proteins have full-length and split homologs in the gut microbiome

Rendina, M., Turnbaugh, P. J., Bradley, P. H.

10.1101/2024.11.06.622278 — Posted: 2024-11-08

Evolutionarily guided transcription factor design programs novel T cell states

Takacsi-Nagy, O., Hartman, A., Chen, A. Y., Yin, Y., Reeder, G. C., Kernick, C., Lu, J., McClellan, A. K., Raposo, C. J., Theberath, N. E., Yan, P. K., Eyquem, J., Roth, T. L., Satpathy, A. T.

10.1101/2024.11.06.622344 — Posted: 2024-11-08

Relationship between plasma cortisol concentration and Long COVID symptoms in the post-acute phase of COVID-19: a cross-sectional study and recommendations for future research

Dalhuisen, T., Grebe, H., Anglin, K., Lu, S., Goldberg, S. A., Kallas-Silva, L., Hauser, J., Conway, E., Ewing, M., Chen, J. Y., Fehrman, E. A., Kelly, J. D., Martin, J. N., Hunt, P. W., Henrich, T. J., Durstenfeld, M. S., Deeks, S. G., Murphy, E., Schambelan, M., Peluso, M. J.

10.1101/2024.11.07.24316777 — Posted: 2024-11-08

Post-SARS-CoV-2 Onset Myalgic Encephalomyelitis/Chronic Fatigue Syndrome Symptoms in Two Cohort Studies of COVID-19 Recovery

Jamal, A., Dalhuisen, T., Gallego Marquez, N., Dziarski, A. D., Uy, J., Walch, S. N., Thomas, S. A., Fehrman, E. A., Romero, A. E., Zelaya, A. S., Akasreku, E. A., Adeagbo, T. V., Pasetes, E. C., Akbas, S. Y., Azola, A. M., Deeks, S. G., Kelly, J. D., Martin, J. N., Henrich, T. J., Landay, A. L., Peluso, M. J., Antar, A. A. R.

10.1101/2024.11.08.24316976 — Posted: 2024-11-08

Optimal strategies for adapting open-source large language models for clinical information extraction: a benchmarking study in the context of ulcerative colitis research

Yim, R. P., Silverman, A. L., Wang, S., Rudrapatna, V. A.

10.1101/2024.11.06.24316817 — Posted: 2024-11-07

De novo structural variants in autism spectrum disorder disrupt distal regulatory interactions of neuronal genes

Gjoni, K., Ren, X., Everitt, A., Shen, Y., Pollard, K. S.

10.1101/2024.11.06.621353 — Posted: 2024-11-07

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