bioRxiv/medRxiv TRiP Review Activity

514 Reviews — All Partners — Bioinformatics

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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
nf-core/proteinfamilies: A scalable pipeline for the generation of protein families
Karatzas, E., Beracochea, M., Baltoumas, F. A., Aplakidou, E., Richardson, L., Fellows Yates, J. A., Lundin, D., nf-core community, , Buluc, A., Kyrpides, N., Georgakopoulos-Soares, I., Pavlopoulos, G. A., Finn, R. D.
10.1101/2025.08.12.670010 — Posted: 2025-08-16 — Discussion: 2026-01-29  GigaScience
The Hok bacterial toxin: diversity, toxicity, distribution and genomic localization
Escalera-Maurer, A., Messineo, A., Renault, T. T., Nicollin, E., Castaneda-Sastre, E., Brunot, M., Berrehail, C., Le Rhun, A.
10.1101/2025.08.07.668861 — Posted: 2025-08-07 — Discussion: 2026-01-26  Review Commons
Interpreting the Effects of DNA Polymerase Variants at the Structural Level
Arnaudi, M., Krzesinska, K., Beltrame, L., Tiberti, M., Nilbert, M., Rohlin, A., Papaleo, E.
10.1101/2025.08.04.653638 — Posted: 2025-08-04 — Discussion: 2026-01-23  Review Commons
Mechanistic genotype-phenotype translation using hierarchical transformers
Lee, I., Wallace, Z., Park, S., Nam, H., Majithia, A., Ideker, T.
10.1101/2024.10.23.619940 — Posted: 2024-10-24 — Discussion: 2026-01-16  Review Commons
An Integrative Multi-Omics Random Forest Framework for Robust Biomarker Discovery
Zhang, W., Huang, H., Wang, L., Brian, L. D., Chen, S. X.
10.1101/2025.03.05.641533 — Posted: 2025-03-06 — Discussion: 2026-01-05  GigaScience
Comparative evaluation of computational methods for reconstruction of human viral genomes
Sousa, M. J. P., Toppinen, M., Pyöriä, L., Hedman, K., Sajantila, A., Perdomo, M. F., Pratas, D.
10.1101/2025.01.17.633368 — Posted: 2025-01-22 — Discussion: 2026-01-05  GigaScience
Squidly: Enzyme Catalytic Residue Prediction Harnessing a Biology-Informed Contrastive Learning Framework
Rieger, W. J., Boden, M., Arnold, F. H., Mora, A.
10.1101/2025.06.13.659624 — Posted: 2025-06-20 — Discussion: 2025-12-30  eLife
Generative modeling for RNA splicing predictions and design
Wu, D., Maus, N., Jha, A., Yang, K., Wales-McGrath, B. D., Jewell, S., Tangiyan, A., Choi, P., Gardner, J. R., Barash, Y.
10.1101/2025.01.20.633986 — Posted: 2025-01-24 — Discussion: 2025-12-29  eLife
A network regularized linear model to infer spatial expression pattern for single cell
Gu, C., Chen, H., Liu, Z.
10.1101/2024.11.20.624541 — Posted: 2024-11-22 — Discussion: 2025-12-16  eLife

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