Channel:  Arc Institute

28 Articles

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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
Site-specific DNA insertion into the human genome with engineered recombinases
Fanton, A., Bartie, L. J., Martins, J. Q., Tran, V. Q., Goudy, L., Durrant, M. G., Wei, J., Pawluk, A., Konermann, S., Marson, A., Gilbert, L. A., Hsu, P. D.
10.1101/2024.11.01.621560 — Posted: 2024-11-03
Combinatorial effector targeting (COMET) for transcriptional modulation and locus-specific biochemistry
Wilson, C. M., Pommier, G. C., Richman, D. D., Sambold, N., Hussmann, J. A., Weissman, J. S., Gilbert, L. A.
10.1101/2024.10.28.620517 — Posted: 2024-10-28

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