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.

136 Articles

A catalog of transcription start sites across 115 human tissue and cell types
Moore, J. E., Zhang, X.-O., Elhajjajy, S. I., Fan, K., Reese, F., Mortazavi, A., Weng, Z.
10.1101/2021.05.12.443890 — Posted: 2021-05-13
Systematic comparison of experimental assays and analytical pipelines for identification of active enhancers genome-wide
Yao, L., Liang, J., Ozer, A., Leung, A. K.-Y., ENCODE Consortium, , Lis, J. T., Yu, H.
10.1101/2021.06.02.446833 — Posted: 2021-06-04
Glucocorticoid receptor collaborates with pioneer factors and AP-1 to execute genome-wide regulation
Wissink, E. M., Martinez, D. M., Ehmsen, K. T., Yamamoto, K. R., Lis, J. T.
10.1101/2021.06.01.444518 — Posted: 2021-06-01
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
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
Leveraging single-cell ATAC-seq to identify disease-critical fetal and adult brain cell types
Kim, S. S., Jagadeesh, K., Dey, K. K., Shen, A. Z., Raychaudhuri, S., Kellis, M., Price, A. L.
10.1101/2021.05.20.445067 — Posted: 2021-05-21
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
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
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
Predicting A/B compartments from histone modifications using deep learning
Zheng, S., Thakkar, N., Harris, H. L., Zhang, M., Liu, S., Gerstein, M., Aiden, E. L., Rowley, J., Noble, W. S., Gursoy, G., Singh, R.
10.1101/2022.04.19.488754 — Posted: 2022-09-19

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