Channel:  Impact of Genomic Variation on Function (IGVF)

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.

120 Articles

Mapping MAVE data for use in human genomics applications
Arbesfeld, J. A., Da, E. Y., Stevenson, J. S., Kuzma, K., Paul, A., Farris, T., Capodanno, B. J., Grindstaff, S. B., Riehle, K., Agostinho, N. D. S., Safer, J. F., Milosavljevic, A., Foreman, J., Firth, H. V., Hunt, S. E., Iqbal, S., Cline, M., Rubin, A. F., Wagner, A. H.
10.1101/2023.06.20.545702 — Posted: 2024-06-30
CRISPR Screening Uncovers a Long-Range Enhancer for ONECUT1 in Pancreatic Differentiation and Links a Diabetes Risk Variant
Kaplan, S. J., Wong, W., Yan, J., Pulecio, J., Cho, H., Leslie-Iyer, J., Kazakov, J., Zhao, J., Li, Q., Murphy, D., Luo, R., Dey, K. K., Apostolou, E., Lesie, C. S., Huangfu, D.
10.1101/2024.04.26.591412 — Posted: 2024-06-28
A Regularized Bayesian Dirichlet-multinomial Regression Model for Integrating Single-cell-level Omics and Patient-level Clinical Study Data
Guo, Y., Yu, L., Guo, L., Xu, L., Li, Q.
10.1101/2024.06.04.597391 — Posted: 2024-06-06
Multiplex, single-cell CRISPRa screening for cell type specific regulatory elements
Chardon, F. M., McDiarmid, T. A., Page, N. F., Daza, R., Martin, B. K., Domcke, S., Regalado, S. G., Lalanne, J.-B., Calderon, D., Li, X., Starita, L. M., Sanders, S. J., Ahituv, N., Shendure, J.
10.1101/2023.03.28.534017 — Posted: 2024-04-30
Massively parallel reporter assays and mouse transgenic assays provide complementary information about neuronal enhancer activity
Kosicki, M., Cintron, D. L., Page, N. F., Georgakopoulos-Soares, I., Akiyama, J. A., Plajzer-Frick, I., Novak, C. S., Kato, M., Hunter, R. D., von Maydell, K., Barton, S., Godfrey, P., Beckman, E., Sanders, S. J., Pennacchio, L. A., Ahituv, N.
10.1101/2024.04.22.590634 — Posted: 2024-04-23
Massively parallel jumping assay decodes Alu retrotransposition activity
Ahituv, N., Matharu, N., Zhao, J., Sohota, A., Deng, L., Hung, Y., Li, Z., Sims, J., Rattanasopha, S., Meyer, J., Carbone, L., Kircher, M.
10.1101/2024.04.16.589814 — Posted: 2024-04-19
Assessing NGS-based computational methods for predicting transcriptional regulators with query gene sets
Lu, Z., Xiao, X., Zheng, Q., Wang, X., Xu, L.
10.1101/2024.02.01.578316 — Posted: 2024-03-22
A missense variant effect map for the human tumour suppressor protein CHK2
Gebbia, M., Zimmerman, D. I., Jiang, R., Nguyen, M., Weile, J., Li, R., Gavac, M., Kishore, N., Sun, S., Boonen, R. A., Dines, J. N., Wahl, A., Reuter, J., Johnson, B., Fowler, D., van Attikum, H., Roth, F. P.
10.1101/2024.02.13.579700 — Posted: 2024-02-15
kallisto, bustools, and kb-python for quantifying bulk, single-cell, and single-nucleus RNA-seq
Sullivan, D. K., Min, K. H., Hjörleifsson, K. E., Luebbert, L., Holley, G., Moses, L., Gustafsson, J., Bray, N. L., Pimentel, H., Booeshaghi, A. S., Melsted, P., Pachter, L.
10.1101/2023.11.21.568164 — Posted: 2024-01-23
Mechanosensitive genomic enhancers potentiate the cellular response to matrix stiffness
Cosgrove, B. D., Bounds, L. R., Taylor, C. K., Su, A. L., Rizzo, A. J., Barrera, A., Crawford, G. E., Hoffman, B. D., Gersbach, C. A.
10.1101/2024.01.10.574997 — Posted: 2024-01-10

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