Channel:  ENCODE

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.

141 Articles

Uncovering Hidden Enhancers Through Unbiased In Vivo Testing
Mannion, B. J., Osterwalder, M., Tran, S., Plajzer-Frick, I., Novak, C. S., Afzal, V., Akiyama, J. A., Barton, S., Beckman, E., Garvin, T. H., Godfrey, P., Godoy, J., Hunter, R. D., Kato, M., Kosicki, M., Kronshage, A. H., Lee, E. A., Meky, E. M., Pham, Q. T., von Maydell, K., Zhu, Y., Lopez-Rios, J., Dickel, D. E., Visel, A., Pennacchio, L. A.
10.1101/2022.05.29.493901 — Posted: 2022-05-30
Genome-wide CRISPR guide RNA design and specificity analysis with GuideScan2
Schmidt, H., Zhang, M., Mourelatos, H., Sanchez-Rivera, F. J., Lowe, S. W., Ventura, A., Leslie, C. S., Pritykin, Y.
10.1101/2022.05.02.490368 — Posted: 2022-05-03
Evolution of transposable element-derived enhancer activity
Du, A. Y., Zhuo, X., Sundaram, V., Jensen, N. O., Chaudhari, H. G., Saccone, N. L., Cohen, B. A., Wang, T.
10.1101/2022.03.16.483999 — Posted: 2022-03-17
Widespread contribution of transposable elements to the rewiring of mammalian 3D genomes and gene regulation
Choudhary, M. N., Quaid, K., Xing, X., Schmidt, H., Wang, T.
10.1101/2022.02.01.475239 — Posted: 2022-02-03
Chromatin interaction aware gene regulatory modeling with graph attention networks
Karbalayghareh, A., Sahin, M., Leslie, C. S.
10.1101/2021.03.31.437978 — Posted: 2021-12-10
Epiphany: predicting Hi-C contact maps from 1D epigenomic signals
Yang, R., Das, A., Gao, V. R., Karbalayghareh, A., Noble, W. S., Bilmes, J. A., Leslie, C. S.
10.1101/2021.12.02.470663 — Posted: 2021-12-03
Identifying disease-critical cell types and cellular processes across the human body by integration of single-cell profiles and human genetics
Jagadeesh, K. A., Dey, K. K., Montoro, D. T., Mohan, R., Gazal, S., Engreitz, J. M., Xavier, R. J., Price, A. L., Regev, A.
10.1101/2021.03.19.436212 — Posted: 2021-11-23
Multiplex genomic recording of enhancer and signal transduction activity in mammalian cells
Chen, W., Choi, J., Nathans, J. F., Agarwal, V., Martin, B., Nichols, E., Leith, A., Lee, C., Shendure, J.
10.1101/2021.11.05.467434 — Posted: 2021-11-05
Compatibility logic of human enhancer and promoter sequences
Bergman, D. T., Jones, T. R., Liu, V., Siraj, L., Kang, H. Y., Nasser, J., Nguyen, T. H., Grossman, S. R., Fulco, C. P., Lander, E. S., Engreitz, J. M.
10.1101/2021.10.23.462170 — Posted: 2021-10-24
Factorbook: an Updated Catalog of Transcription Factor Motifs and Candidate Regulatory Motif Sites
Pratt, H. E., Andrews, G. R., Phalke, N., Purcaro, M. J., van der Velde, A. G., Moore, J. E., Weng, Z.
10.1101/2021.10.11.463518 — Posted: 2021-10-12

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