Channel:  Arc Institute

30 Articles

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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
Dietary manipulation of intestinal microbes prolongs survival in a mouse model of Hirschsprung disease
Tjaden, N. E. B., Liou, M. J., Sax, S., Lassoued, N., Lou, M., Schneider, S., Beigel, K., Eisenberg, J. D., Loeffler, E., Anderson, S. E., Yan, G., Litichevskiy, L., Dohnalova, L., Zhu, Y., Jin, D. M. J. C., Raab, J., Furth, E. E., Thompson, Z., Rubenstein, R. C., Pilon, N., Thaiss, C. A., Heuckeroth, R.
10.1101/2025.02.10.637436 — Posted: 2025-02-11
scGPT-spatial: Continual Pretraining of Single-Cell Foundation Model for Spatial Transcriptomics
Wang, C. X., Cui, H., Zhang, A. H., Xie, R., Goodarzi, H., Wang, B.
10.1101/2025.02.05.636714 — Posted: 2025-02-08
Learning single-cell spatial context through integrated spatial multiomics with CORAL
He, S., Bieniosek, M., Song, D., Zhou, J., Chidester, B., Wu, Z., Boen, J., Sharma, P., Trevino, A. E., Zou, J.
10.1101/2025.02.01.636038 — Posted: 2025-02-06
Decoy-seq unlocks scalable genetic screening for regulatory small noncoding RNAs
Choi, B., Sobti, S., Soto, L. M., Charbonneau, T., Sababi, A., Navickas, A., Najafabadi, H. S., Goodarzi, H.
10.1101/2025.01.25.634869 — Posted: 2025-01-27
Pervasive and programmed nucleosome distortion patterns on single mammalian chromatin fibers
Yang, M. G., Richter, H. J., Wang, S., McNally, C. P., Harris, N., Dhillon, S., Maresca, M., de Wit, E., Willenbring, H., Maher, J., Goodarzi, H., Ramani, V.
10.1101/2025.01.17.633622 — Posted: 2025-01-22
A generative framework for enhanced cell-type specificity in rationally designed mRNAs
Khoroshkin, M. S., Zinkevich, A., Aristova, E., Yousefi, H., Lee, S. B., Mittmann, T., Manegold, K., Penzar, D., Raleigh, D. R., Kulakovskiy, I. V., Goodarzi, H.
10.1101/2024.12.31.630783 — Posted: 2024-12-31
Semantic mining of functional de novo genes from a genomic language model
Merchant, A. T., King, S. H., Nguyen, E., Hie, B. L.
10.1101/2024.12.17.628962 — Posted: 2024-12-18
Multiplexed mosaic tumor models reveal natural phenotypic variations in drug response within and between populations
Yu, J. X., Suh, J. M., Popova, K. D., Garcia, K., Joshi, T., Culbertson, B., Spinelli, J. B., Subramanyam, V., Lou, K., Shokat, K. M., Weissman, J., Goodarzi, H.
10.1101/2024.12.13.628239 — Posted: 2024-12-16
A combinatorial domain screening platform reveals epigenetic effector interactions for transcriptional perturbation
Moon, H. C., Herschl, M. H., Pawluk, A., Konermann, S., Hsu, P. D.
10.1101/2024.10.28.620683 — Posted: 2024-11-05

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