Channel:  Harvard Program in Therapeutic Sciences

bioRxiv posts many COVID19-related papers. A reminder: they have not been formally peer-reviewed and should not guide health-related behavior or be reported in the press as conclusive.

103 Articles

Multiplexed 3D Analysis of Cell Plasticity and Immune Niches in Melanoma
Yapp, C., Nirmal, A. J., Zhou, F. Y., Maliga, Z., Montero Llopis, P., Murphy, G. F., Lian, C., Danuser, G., Santagata, S., Sorger, P. K.
10.1101/2023.11.10.566670 — Posted: 2023-11-28
Cell Spotter (CSPOT): A machine-learning approach to automated cell spotting and quantification of highly multiplexed tissue images
Nirmal, A. J., Yapp, C., Santagata, S., Sorger, P.
10.1101/2023.11.15.567196 — Posted: 2023-11-17
SpatialCells: Automated Profiling of Tumor Microenvironments with Spatially Resolved Multiplexed Single-Cell Data
Wan, G., Maliga, Z., Yan, B., Vallius, T., Shi, Y., Khattab, S., Chang, C., Nirmal, A. J., Yu, K.-H., Liu, D., Lian, C. G., DeSimone, M. S., Sorger, P. K., Semenov, Y. R.
10.1101/2023.11.10.566378 — Posted: 2023-11-14
2D and 3D multiplexed subcellular profiling of nuclear instability in human cancer
Coy, S., Cheng, B., Lee, J. S., Rashid, R., Browning, L., Xu, Y., Chakrabarty, S. S., Yapp, C., Chan, S., Tefft, J. B., Spektor, A., Ligon, K. L., Baker, G. J., Pellman, D., Sorger, P. K., Santagata, S.
10.1101/2023.11.07.566063 — Posted: 2023-11-11
Quality Control for Single Cell Analysis of High-plex Tissue Profiles using CyLinter
Baker, G. J., Novikov, E., Zhao, Z., Vallius, T., Davis, J. A., Lin, J.-R., Muhlich, J. L., Mittendorf, E. A., Santagata, S., Guerriero, J. L., Sorger, P. K.
10.1101/2023.11.01.565120 — Posted: 2023-11-01
ASCT2 is the primary serine transporter in cancer cells
Conger, K. O., Chidley, C., Ozgurses, M. E., Zhao, H., Kim, Y., Semina, S. E., Burns, P. A., Rawat, V., Sheldon, R., Ben-Sahra, I., Frasor, J., Sorger, P. K., DeNicola, G. M., Coloff, J. L.
10.1101/2023.10.09.561530 — Posted: 2023-10-11
Resident memory T cell development is associated with AP-1 transcription factor upregulation across anatomical niches.
Smith, N. P., Yan, Y., Pan, Y., Williams, J. B., Manakongtreecheep, K., Pant, S., Zhao, J., Tian, T., Pan, T., Stingley, C., Wu, K., Zhang, J., Kley, A. L., Sorger, P. K., Villani, A.-C., Kupper, T. S.
10.1101/2023.09.29.560006 — Posted: 2023-10-02
Longitudinal and multimodal auditing of tumor adaptation to CDK4/6 inhibitors in HR+ metastatic breast cancers
Creason, A. L., Egger, J., Watson, C., Sivagnanam, S., Chin, K., MacPherson, K., Lin, J.-R., Chen, Y.-A., Johnson, B. E., Feiler, H. S., Galipeau, D., Navin, N. E., Demir, E., Chang, Y. H., Corless, C. L., Mitri, Z. I., Thomas, G., Sorger, P. K., Adey, A. C., Coussens, L. M., Gray, J. W., Mills, G. B., Goecks, J.
10.1101/2023.09.27.557464 — Posted: 2023-09-29
OpenFold: Retraining AlphaFold2 yields new insights into its learning mechanisms and capacity for generalization
Ahdritz, G., Bouatta, N., Floristean, C., Kadyan, S., Xia, Q., Gerecke, W., O'Donnell, T. J., Berenberg, D., Fisk, I., Zanichelli, N., Zhang, B., Nowaczynski, A., Wang, B., Stepniewska-Dziubinska, M. M., Zhang, S., Ojewole, A., Guney, M. E., Biderman, S., Watkins, A. M., Ra, S., Lorenzo, P. R., Nivon, L., Weitzner, B., Ban, Y.-E. A., Sorger, P. K., Mostaque, E., Zhang, Z., Bonneau, R., AlQuraishi, M.
10.1101/2022.11.20.517210 — Posted: 2023-08-12
Addressing persistent challenges in digital image analysis of cancerous tissues
Prabhakaran, S., Yapp, C., Baker, G. J., Beyer, J., Chang, Y. H., Creason, A. L., Krueger, R., Muhlich, J., Patterson, N. H., Sidak, K., Sudar, D., Taylor, A. J., Ternes, L., Troidl, J., Yubin, X., Sokolov, A., Tyson, D. R., Participants of the Cell Imaging Hackathon 2022
10.1101/2023.07.21.548450 — Posted: 2023-07-24

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