Single-Cell Analysis

Displaying 1 - 20 of 20CSV
Craig-Schapiro, R., Li, G., Chen, K., Gomez-Salinero, J. M., Nachman, R., Kopacz, A., Schreiner, R., Chen, X., Zhou, Q., Rafii, S., & Redmond, D. (2025). Single-cell atlas of human pancreatic islet and acinar endothelial cells in health and diabetes. Nature Communications, 16(1). https://doi.org/10.1038/s41467-024-55415-3
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Caron, D. P., Specht, W. L., Chen, D., Wells, S. B., Szabo, P. A., Jensen, I. J., Farber, D. L., & Sims, P. A. (2025). Multimodal hierarchical classification of CITE-seq data delineates immune cell states across lineages and tissues. Cell Reports Methods, 5(1), 100938. https://doi.org/10.1016/j.crmeth.2024.100938
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Leifer, V. P., Fang, F., Song, L., Kim, J., Papanikolaou, J. F., Smeeton, J., & Thomopoulos, S. (2024). Single-cell RNA-sequencing analysis of immune and mesenchymal cell crosstalk in the developing enthesis. Scientific Reports, 14(1). https://doi.org/10.1038/s41598-024-77958-7
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Gao, V. R., Yang, R., Das, A., Luo, R., Luo, H., McNally, D. R., Karagiannidis, I., Rivas, M. A., Wang, Z.-M., Barisic, D., Karbalayghareh, A., Wong, W., Zhan, Y. A., Chin, C. R., Noble, W. S., Bilmes, J. A., Apostolou, E., Kharas, M. G., Béguelin, W., … Leslie, C. S. (2024). ChromaFold predicts the 3D contact map from single-cell chromatin accessibility. Nature Communications, 15(1). https://doi.org/10.1038/s41467-024-53628-0
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Bashore, A. C., Xue, C., Kim, E., Yan, H., Zhu, L. Y., Pan, H., Kissner, M., Ross, L. S., Zhang, H., Li, M., & Reilly, M. P. (2024). Monocyte Single-Cell Multimodal Profiling in Cardiovascular Disease Risk States. Circulation Research, 135(6), 685–700. https://doi.org/10.1161/circresaha.124.324457
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Mellis, I. A., Melzer, M. E., Bodkin, N., & Goyal, Y. (2024). Prevalence of and gene regulatory constraints on transcriptional adaptation in single cells. Genome Biology, 25(1). https://doi.org/10.1186/s13059-024-03351-2
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Kirk, J. S., Wang, J., Long, M., Rosario, S., Tracz, A., Ji, Y., Kumar, R., Liu, X., Jamroze, A., Singh, P. K., Puzanov, I., Chatta, G., Cheng, Q., Huang, J., Wrana, J. L., Lovell, J., Yu, H., Liu, S., Shen, M. M., … Tang, D. G. (2024). Integrated single-cell analysis defines the epigenetic basis of castration-resistant prostate luminal cells. Cell Stem Cell, 31(8), 1203-1221.e7. https://doi.org/10.1016/j.stem.2024.05.008
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Kabeer, F., Tran, H., Andronescu, M., Singh, G., Lee, H., Salehi, S., Wang, B., Biele, J., Brimhall, J., Gee, D., Cerda, V., O’Flanagan, C., Algara, T., Kono, T., Beatty, S., Zaikova, E., Lai, D., Lee, E., … Moore, R. (2024). Single-cell decoding of drug induced transcriptomic reprogramming in triple negative breast cancers. Genome Biology, 25(1). https://doi.org/10.1186/s13059-024-03318-3
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Wang, Q., Antone, J., Alsop, E., Reiman, R., Funk, C., Bendl, J., Dudley, J. T., Liang, W. S., Karr, T. L., Roussos, P., Bennett, D. A., De Jager, P. L., Serrano, G. E., Beach, T. G., Van Keuren-Jensen, K., Mastroeni, D., Reiman, E. M., & Readhead, B. P. (2024). Single cell transcriptomes and multiscale networks from persons with and without Alzheimer’s disease. Nature Communications, 15(1). https://doi.org/10.1038/s41467-024-49790-0
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Zaidi, S., Park, J., Chan, J. M., Roudier, M. P., Zhao, J. L., Gopalan, A., Wadosky, K. M., Patel, R. A., Sayar, E., Karthaus, W. R., Kates, D. H., Chaudhary, O., Xu, T., Masilionis, I., Mazutis, L., Chaligné, R., Obradovic, A., Linkov, I., Barlas, A., … Sawyers, C. L. (2024). Single-cell analysis of treatment-resistant prostate cancer: Implications of cell state changes for cell surface antigen–targeted therapies. Proceedings of the National Academy of Sciences, 121(28). https://doi.org/10.1073/pnas.2322203121
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Li, Y., Li, J., Li, W., Liang, S., Wei, W., Chu, J., Lai, J., Lin, Y., Chen, H., Su, J., Hu, X., Wang, G., Meng, J., Jiang, J., Ye, L., & An, S. (2024). Scm6A: A Fast and Low-cost Method for Quantifying m6A Modifications at the Single-cell Level. Genomics, Proteomics & Bioinformatics. https://doi.org/10.1093/gpbjnl/qzae039
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Cheng, Y. L., Banu, M. A., Zhao, W., Rosenfeld, S. S., Canoll, P., & Sims, P. A. (2024). Multiplexed single-cell lineage tracing of mitotic kinesin inhibitor resistance in glioblastoma. Cell Reports, 43(5), 114139. https://doi.org/10.1016/j.celrep.2024.114139
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Lake, B. B., Menon, R., Winfree, S., Hu, Q., Melo Ferreira, R., Kalhor, K., Barwinska, D., Otto, E. A., Ferkowicz, M., Diep, D., Plongthongkum, N., Knoten, A., Urata, S., Mariani, L. H., Naik, A. S., Eddy, S., Zhang, B., Wu, Y., Salamon, D., … Jain, S. (2023). An atlas of healthy and injured cell states and niches in the human kidney. Nature, 619(7970), 585–594. https://doi.org/10.1038/s41586-023-05769-3
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Shim, J., Park, J., Abudureyimu, G., Kim, M.-H., Shim, J. S., Jang, K.-T., Kwon, E. J., Jang, H.-S., Yeo, E., Lee, J. H., & Lee, D. (2022). Comparative Spatial Transcriptomic and Single-Cell Analyses of Human Nail Units and Hair Follicles Show Transcriptional Similarities between the Onychodermis and Follicular Dermal Papilla. Journal of Investigative Dermatology, 142(12), 3146-3157.e12. https://doi.org/10.1016/j.jid.2022.06.022
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Fabian, P., Tseng, K.-C., Thiruppathy, M., Arata, C., Chen, H.-J., Smeeton, J., Nelson, N., & Crump, J. G. (2022). Lifelong single-cell profiling of cranial neural crest diversification in zebrafish. Nature Communications, 13(1). https://doi.org/10.1038/s41467-021-27594-w
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Sheng, J., Hod, E. A., Vlad, G., & Chavez, A. (2022). Quantifying protein abundance on single cells using split-pool sequencing on DNA-barcoded antibodies for diagnostic applications. Scientific Reports, 12(1). https://doi.org/10.1038/s41598-022-04842-7
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Domínguez Conde, C., Xu, C., Jarvis, L. B., Rainbow, D. B., Wells, S. B., Gomes, T., Howlett, S. K., Suchanek, O., Polanski, K., King, H. W., Mamanova, L., Huang, N., Szabo, P. A., Richardson, L., Bolt, L., Fasouli, E. S., Mahbubani, K. T., Prete, M., Tuck, L., … Teichmann, S. A. (2022). Cross-tissue immune cell analysis reveals tissue-specific features in humans. Science, 376(6594). https://doi.org/10.1126/science.abl5197
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