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456 Reviews — GigaScience — All Subjects

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Sex Chromosome Turnover and Structural Interspecific Genome Divergence Shapes Meiotic Outcomes in Hybridizing Cobitis
Schlebusch, S., Trifonov, V., Halenkova, Z., Klianitskaya, M., Dedukh, D., Ruiz Herrera, A., Alvarez Gonzalez, L., Pujol Infantes, G., Hribova, E., Andjel, L., Bartos, O., Pajer, P., Tichopad, T., Kulik, D., Kotusz, J., Dolezalkova-Kastankova, M., Bohne, A., Marta, A., Horna, P., Reifova, R., Guiguen, Y., Paces, J., Janko, K.
10.1101/2025.04.01.646337 — Posted: 2025-04-06 — Discussion: 2026-04-10  GigaScience
scDenorm: a denormalisation tool for integrating single-cell transcriptomics data
Huang, Y., Pournara, A. V., Ao, Y., Yang, L., Zhang, H., Zhang, Y., Liu, S., Brazma, A., Papatheodorou, I., Yang, X., Shi, M., Miao, Z.
10.1101/2025.05.10.653289 — Posted: 2025-05-15 — Discussion: 2026-04-09  GigaScience
MIReVTD, a Minimum Information Standard for Reporting Vector Trait Data
Ryan, S. J., Huxley, P., Lippi, C., Pawar, S., Cator, L., Rund, S. S. C., Johnson, L. R.
10.1101/2025.01.27.634769 — Posted: 2025-01-28 — Discussion: 2026-03-20  GigaScience
Comparative analysis of eccDNA and circRNA tools shows increased accuracy of tool combination
Zabala, A., Ascension, A. M., Prada-Luengo, I., Otaegui, D.
10.1101/2025.07.14.664708 — Posted: 2025-07-18 — Discussion: 2026-03-20  GigaScience
Improved genome assembly of whale shark, the world's biggest fish: revealing "chromocline" in intragenomic heterogeneity
Kawaguchi, Y. W., Matsumoto, R., Kuraku, S.
10.1101/2025.09.06.674125 — Posted: 2025-09-10 — Discussion: 2026-02-24  GigaScience
Enhanced semantic classification of microbiome sample origins using Large Language Models (LLMs)
Gaio, D., Tackmann, J., Perez-Molphe-Montoya, E., Napflin, N., Patsch, D., Malfertheiner, L., von Mering, C.
10.1101/2025.04.24.650461 — Posted: 2025-04-27 — Discussion: 2026-02-24  GigaScience
Single-nucleus multiple-organ chromatin accessibility mapping in the rat
Li, R., Yuan, Y., Duan, S., Deng, Q., Ma, W., Liu, C., Gao, P., Lu, L., Liu, C.
10.1101/2024.11.11.622900 — Posted: 2024-11-11 — Discussion: 2026-02-24  GigaScience
Graph-Regularized Optimal Transport for Single-Cell Data Integration
Wang, Z., Zhan, Q., Shen, L.
10.1101/2024.10.30.621072 — Posted: 2024-11-02 — Discussion: 2026-02-24  GigaScience
Expression-Driven Genetic Dependency Reveals Targets for Precision Medicine
Elmas, A., Layden, H., Ellis, J., Barlett, L., Zhao, X., Kawabata-Iwakawa, R., Obinata, H., Hiebert, S., Huang, K.-l.
10.1101/2024.10.17.618926 — Posted: 2024-10-21 — Discussion: 2026-01-30  GigaScience
Federated Knowledge Retrieval Elevates Large Language Model Performance on Biomedical Benchmarks
Joy, J., Su, A. I.
10.1101/2025.08.01.668022 — Posted: 2025-08-02 — Discussion: 2026-01-29  GigaScience

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