Channel:  NCI Human Tumor Atlas Network

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.

72 Articles

Single-cell characterization of subsolid and solid lesions in the lung adenocarcinoma spectrum
Yanagawa, J., Tran, L. M., Fung, E., Wallace, W. D., Prosper, A. E., Fishbein, G. A., Shea, C., Hong, R., Liu, B., Salehi-Rad, R., Deng, J. Z., Gower, A., Campbell, J. D., Mazzilli, S. A., Beane, J., Kadara, H., Lenburg, M. E., Spira, A., Aberle, D. R., Krysan, K., Dubinett, S. M.
10.1101/2020.12.25.424416 — Posted: 2020-12-26
Human colorectal pre-cancer atlas identifies distinct molecular programs underlying two major subclasses of pre-malignant tumors
Chen, B., McKinley, E. T., Simmons, A. J., Ramirez, M. A., Zhu, X., Southard-Smith, A. N., Markham, N. O., Sheng, Q., Drewes, J., Xu, Y., Heiser, C. N., Zhou, Y., Revetta, F., Berry, L. D., Zheng, W., Washington, M. K., Cai, Q., Sears, C. L., Goldenring, J. R., Franklin, J. L., Vandekar, S., Roland, J. T., Su, T., Huh, W. J., Liu, Q., Coffey, R. J., Shrubsole, M. J., Lau, K.
10.1101/2021.01.11.426044 — Posted: 2021-01-13
GLUER: integrative analysis of single-cell omics and imaging data by deep neural network
Peng, T., Chen, G., Tan, K.
10.1101/2021.01.25.427845 — Posted: 2021-01-26
MCMICRO: A scalable, modular image-processing pipeline for multiplexed tissue imaging
Schapiro, D., Sokolov, A., Yapp, C., Muhlich, J. L., Hess, J., Lin, J.-R., Chen, Y.-A., Nariya, M. K., Baker, G. J., Ruokonen, J., Maliga, Z., Jacobson, C. A., Farhi, S. L., Abbondanza, D., McKinley, E. T., Betts, C., Regev, A., Coffey, R. J., Coussens, L. M., Santagata, S., Sorger, P. K.
10.1101/2021.03.15.435473 — Posted: 2021-03-16
Comprehensive generation, visualization, and reporting of quality control metrics for single-cell RNA sequencing data
Hong, R., Koga, Y., Bandyadka, S., Leshchyk, A., Wang, Z., Alabdullatif, S., Wang, Y., Akavoor, V., Cao, X., Sarfraz, I., Jansen, F., Johnson, W. E., Yajima, M., Campbell, J. D.
10.1101/2020.11.16.385328 — Posted: 2021-02-14
Spatial drivers and pre-cancer populations collaborate with the microenvironment in untreated and chemo-resistant pancreatic cancer
Cui Zhou, D., Jayasinghe, R. G., Herndon, J. M., Storrs, E., Mo, C.-K., Wu, Y., Fulton, R. S., Wyczalkowski, M. A., Fronick, C. C., Fulton, L. A., Thammavong, L., Sato, K., Zhu, H., Sun, H., Wang, L.-B., Li, Y., Zuo, C., McMichael, J. F., Davies, S. R., Appelbaum, E. L., Robbins, K. J., Chasnoff, S. E., Yang, X., Liu, R., Reeb, A. N., Wendl, M. C., Oh, C., Serasanambati, M., Lal, P., Varghese, R., Mashl, J. R., Ponce, J., Terekhanova, N. V., Naser Al Deen, N., Yao, L., Wang, F., Chen, L., Schnaubelt, M., Puram, S. V., Kim, A. H., Song, S.-K., Shoghi, K. I., Ju, T., Hawkins, W. G., Chen, K., Ch
10.1101/2021.01.13.426413 — Posted: 2021-01-14
Transition to invasive breast cancer is associated with progressive changes in the structure and composition of tumor stroma
Risom, T., Glass, D. R., Liu, C. C., Rivero-Gutierrez, B., Baranski, A., McCaffrey, E. F., Greenwald, N. F., Kagel, A. C., Strand, S. H., Varma, S., Kong, A., Keren, L., Srivastava, S., Zhu, C., Khair, Z., Veis, D. J., Deschryver, K., Vennam, S., Maley, C., Hwang, E. S., Marks, J. R., Bendall, S. C., Colditz, G. A., West, R. B., Angelo, M.
10.1101/2021.01.05.425362 — Posted: 2021-01-06
Multicellular immune hubs and their organization in MMRd and MMRp colorectal cancer
Pelka, K., Hofree, M., Chen, J., Sarkizova, S., Pirl, J. D., Jorgji, V., Bejnood, A., Dionne, D., Ge, W. H., Xu, K. H., Chao, S. X., Zollinger, D. R., Lieb, D. J., Reeves, J. W., Fuhrman, C. A., Hoang, M. L., Delorey, T., Nguyen, L. T., Waldman, J., Klapholz, M., Wakiro, I., Cohen, O., Smillie, C. S., Cuoco, M. S., Wu, J., Su, M.-j., Yeung, J., Vijaykumar, B., Magnuson, A. M., Asinovski, N., Moll, T., Goder-Reiser, M. N., Applebaum, A. S., Brais, L. K., DelloStritto, L. K., Denning, S. L., Phillips, S. T., Hill, E. K., Meehan, J. K., Frederick, D. T., Sharova, T., Kanodia, A., Todres, E. Z., J
10.1101/2021.01.30.426796 — Posted: 2021-02-02
Multiplexed 3D atlas of state transitions and immune interactions in colorectal cancer
Lin, J.-R., Wang, S., Coy, S., Chen, Y.-A., Yapp, C., Tyler, M. A., Nariya, M., Heiser, C. N., Lau, K., Santagata, S., Sorger, P. K.
10.1101/2021.03.31.437984 — Posted: 2022-09-28
Automated quality control and cell identification of droplet-based single-cell data using dropkick
Heiser, C. N., Wang, V. M., Chen, B., Hughey, J. J., Lau, K. S.
10.1101/2020.10.08.332288 — Posted: 2020-10-09

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