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179 Reviews — eLife — Genomics

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Multimodal single-cell analyses reveal distinct fusion-regulated transcriptional programs in Ewing sarcoma.
Waltner, O. G., Apfelbaum, A. A., Wrenn, E. D., Bhise, S. S., Kanaan, S. B., Gladden, R. G., Mendoza, M. A., Volden, R., Kronenberg, Z., Patel, A., Dyer, M., Sarthy, J. F., Lawlor, E. R., Furlan, S. N.
10.1101/2025.06.18.660457 — Posted: 2025-06-24 — Discussion: 2025-12-05  eLife
Neisseria gonorrhoeae LIN codes: a Robust, Multi-Resolution Lineage Nomenclature
Unitt, A., Krisna, M. A., Parfitt, K. M., Jolley, K. A., Maiden, M. C. J., Harrison, O. B.
10.1101/2025.03.28.646058 — Posted: 2025-04-03 — Discussion: 2025-11-27  eLife
Raman spectra and gene expression correspondences reveal global stoichiometry conservation architecture in cells
Kamei, K.-i. F., Kobayashi-Kirschvink, K. J., Nozoe, T., Nakaoka, H., Umetani, M., Wakamoto, Y.
10.1101/2023.05.09.539921 — Posted: 2023-05-10 — Discussion: 2025-11-26  eLife
Non-linear transcriptional responses to gradual modulation of transcription factor dosage
Domingo, J., Minaeva, M., Morris, J. A., Ziosi, M., Sanjana, N. E., Lappalainen, T.
10.1101/2024.03.01.582837 — Posted: 2024-03-04 — Discussion: 2025-11-25  eLife
Heterogeneity of Genetic Sequence within Quasi-species of Influenza Virus Revealed by Single-Molecule Sequencing
Tamao, K., Noji, H., Tabata, K. V.
10.1101/2025.06.19.658006 — Posted: 2025-06-19 — Discussion: 2025-11-24  eLife
The genetic control of rapid genome content divergence in Arabidopsis thaliana
Fiscus, C. J., Koenig, D.
10.1101/2025.06.11.659220 — Posted: 2025-06-16 — Discussion: 2025-10-20  eLife
Chromatin accessibility variation provides insights into missing regulation underlying immune-mediated diseases
Jeong, R., Bulyk, M. L.
10.1101/2024.04.12.589213 — Posted: 2024-04-15 — Discussion: 2025-10-03  eLife
OpenSpliceAI: An efficient, modular implementation of SpliceAI enabling easy retraining on non-human species
Chao, K.-H., Mao, A., Liu, A., Salzberg, S. L., Pertea, M.
10.1101/2025.03.20.644351 — Posted: 2025-03-23 — Discussion: 2025-09-09  eLife
Cell type-specific network analysis in Diversity Outbred mice identifies genes potentially responsible for human bone mineral density GWAS associations
Dillard, L. J., Calabrese, G. M., Mesner, L. D., Farber, C. R.
10.1101/2024.05.20.594981 — Posted: 2025-05-29 — Discussion: 2025-09-02  eLife
Human cytomegalovirus extensively re-organizes the human genome, diminishing TEAD1 transcription factor activity
Sayeed, K., Parameswaran, S., Beucler, M. J., Edsall, L. E., VonHandorf, A., Crowther, A., Donmez, O. A., Hass, M. R., Richards, S., Forney, C. R., Wright, J., Leong, M. M., Murray-Nerger, L. A., Gewurz, B. E., Kaufman, K. M., Harley, J. B., Zhao, B., Miller, W. E., Kottyan, L. C., Weirauch, M. T.
10.1101/2024.04.12.588762 — Posted: 2024-04-13 — Discussion: 2025-08-26  eLife

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