bioRxiv/medRxiv TRiP Review Activity

157 Reviews — eLife — Genomics

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A pipeline to identify TF combinatorial binding uncovers TEAD1 as an antagonist of tissue-specific transcription factors in human organogenesis

Garcia-Mora, A., Mallen, J., Zarrineh, P., Hanley, N. A., Gerrard, D., Bobola, N.

10.1101/2023.10.05.561094 — Posted: 2023-10-07 — Discussion: 2025-06-10 eLife

Epigenetic context predicts gene expression variation and reproductive traits across genetically identical individuals

Webster, A. K., Willis, J. H., Johnson, E., Sarkies, P., Phillips, P. C.

10.1101/2023.10.13.562270 — Posted: 2023-10-13 — Discussion: 2025-05-23 eLife

Deeply hidden genome organization directly mediated by SATB1

Kohwi, Y., Grange, M., Richards, H. W., Liang, Y.-C., Chuong, C.-M., Kitagawa, Y., Sakaguchi, S., Botchkarev, V., Taniguchi, I., Kohwi-Shigematsu, T.

10.1101/2021.12.19.473323 — Posted: 2021-12-21 — Discussion: 2025-05-23 eLife

Exploiting functional regions in the viral RNA genome as druggable entities

Wei, D., Luo, D., Zheng, Y., Huang, Z., Wen, Z., Guo, L., Deng, Y., Li, Q., Bai, Y., Haider, S., Parkinson, G. N.

10.1101/2024.08.11.607475 — Posted: 2024-08-11 — Discussion: 2025-05-16 eLife

Post-fertilization transcription initiation in an ancestral LTR retrotransposon drives lineage-specific genomic imprinting of ZDBF2

Kobayashi, H., Igaki, T., Kumamoto, S., Tanaka, K., Takashima, T., Suzuki, S., Hayashi, M., Renfree, M. B., Kawahara, M., Saito, S., Kobayashi, T., Nagashima, H., Nakano, K., Matsunari, H., Uchikura, A., Kiyonari, H., Kaneko, M., Imai, H., Nakabayashi, K., Lorincz, M. C., Kurimoto, K.

10.1101/2023.10.30.564869 — Posted: 2023-11-02 — Discussion: 2025-05-12 eLife

Single cell transcriptomics of X-ray irradiated Drosophila wing discs reveals heterogeneity related to cell-cycle status and cell location

Cruz, J., Sun, W. Y., Verbeke, A., Hariharan, I. K.

10.1101/2024.12.10.627868 — Posted: 2024-12-12 — Discussion: 2025-04-22 eLife

Convergent evolution of epigenome recruited DNA repair across the Tree of Life

Monroe, G., Lee, C., Quiroz, D. P., Lensink, M., Oya, S., Davis, M., Long, E., Bird, K. A., Pierce, A. V., Zhao, K., Runcie, D. E.

10.1101/2024.10.15.618488 — Posted: 2024-11-02 — Discussion: 2025-04-17 eLife

Single-cell RNA-seq reveals trans-sialidase-like superfamily gene expression heterogeneity in Trypanosoma cruzi populations

Inchausti, L., Bilbao, L., Campo, V. A., Garat, J., Sotelo-Silveira, J., Rinaldi, G., Howick, V. M., Duhagon, M. A., G. De Gaudenzi, J., Smircich, P.

10.1101/2025.01.14.633000 — Posted: 2025-01-16 — Discussion: 2025-04-02 eLife

Li, K., Tolman, N., V. Segre, A., Stuart, K., Zeleznik, O. A., Vallabh, N. A., Hu, K., Zebardast, N., Hanyuda, A., Raita, Y., Montgomery, C., Zhang, C., Hysi, P. G., Do, R., Khawaja, A., Wiggs, J., Kang, J., John, S., Pasquale, L.

10.1101/2025.01.18.633745 — Posted: 2025-01-22 — Discussion: 2025-03-28 eLife

Beyond A and B Compartments: how major nuclear locales define nuclear genome organization and function

Gholamalamdari, O., van Schaik, T., Wang, Y., Kumar, P., Zhang, L., Zhang, Y., Gonzalez, G. A. H., Vouzas, A. E., Zhao, P. A., Gilbert, D. M., Ma, J., van Steensel, B., Belmont, A. S.

10.1101/2024.04.23.590809 — Posted: 2024-04-23 — Discussion: 2025-03-25 eLife