bioRxiv/medRxiv TRiP Review Activity

512 Reviews — All Partners — Bioinformatics

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Subtle methodological variations substantially impact correlation test results in ecological time series

Cannistra, C., Hoang, L., Yuan, A. E., Shou, W.

10.1101/2024.10.11.617506 — Posted: 2024-10-15 — Discussion: 2025-10-21 eLife

Decoding molecular mechanisms for loss of function variants in the human proteome

Cagiada, M., Jonsson, N., Lindorff-Larsen, K.

10.1101/2024.05.21.595203 — Posted: 2024-05-22 — Discussion: 2025-10-20 eLife

Translational buffering tunes gene expression in mouse and human

Rao, S., Le, A. Y., Persyn, L., Cenik, C.

10.1101/2025.05.16.654561 — Posted: 2025-05-21 — Discussion: 2025-10-10 Review Commons

MerQuaCo: a computational tool for quality control in image-based spatial transcriptomics

Martin, N. X., Olsen, P., Quon, J., Campos, J., Valera Cuevas, N. J., Nagra, J., VanNess, M., Maltzer, Z., Gelfand, E., Oyama, A., Gary, A., Wang, Y., Alaya, A., Ruiz, A., Reynoldson, C., Bielstein, C., Pom, C. A., Huang, C., Slaughterback, C., Liang, E., Alexander, J., Ariza, J., Malone, J., Melchor, J., Colbert, K., Brouner, K., Shulga, L., Reding, M., Latimer, P., Sanchez, R., Barta, S., Egdorf, T., Madigan, Z., Pagan, C., Close, J., Long, B., Kunst, M., Lein, E., Zeng, H., McMillen, D. A., Waters, J.

10.1101/2024.12.04.626766 — Posted: 2024-12-07 — Discussion: 2025-10-09 eLife

WaveSeekerNet: Accurate Prediction of Influenza A Virus Subtypes and Host Source Using Attention-Based Deep Learning

Nguyen, H.-H., Rudar, J., Lesperance, N., Vernygora, O., Taylor, G. W., Laing, C., Lapen, D., Leung, C. K., Lung, O.

10.1101/2025.02.25.639900 — Posted: 2025-02-28 — Discussion: 2025-09-30 GigaScience

Using synthetic RNA to benchmark poly(A) length inference from direct RNA sequencing.

Chang, J. J.-Y., Yang, X., Teng, H., Reames, B., Corbin, V., Coin, L. J. M.

10.1101/2024.10.25.620206 — Posted: 2024-10-25 — Discussion: 2025-09-30 GigaScience

Nanopore- and AI-empowered metagenomic viability inference

Urel, H., Benassou, S., Reska, T., Marti, H., Rayo, E., Martin, E. J., Schloter, M., Ferguson, J. M., Kesselheim, S., Borel, N., Urban, L.

10.1101/2024.06.10.598221 — Posted: 2024-06-11 — Discussion: 2025-09-30 GigaScience

SPEX: A modular end-to-end analytics tool for spatially resolved omics of tissues

Pechuan Jorge, X., Li, X., Risom, T., Zubkov, A., Tabatsky, E., Prilipko, A., Ye, X., Shi, Z., Nowicka, m., Peale, F., Hibar, D., Ziai, J., Jesudason, R., Orlova, D.

10.1101/2022.08.22.504841 — Posted: 2022-08-23 — Discussion: 2025-09-30 GigaScience

Product-stabilized filamentation by human glutamine synthetase allosterically tunes metabolic activity

Greene, E., Muniz, R., Yamamura, H., Hoff, S. E., Bajaj, P., Lee, D. J., Thompson, E. M., Arada, A., Lee, G. M., Bonomi, M., Kollman, J. M., Fraser, J. S.

10.1101/2025.07.04.663231 — Posted: 2025-07-06 — Discussion: 2025-09-24 eLife

Macroscopic Analyses of RNA-Seq Data to Reveal Chromatin Modifications in Aging and Disease

Mahajan, A., Ratti, F., Wang, B., El-Samad, H., Kaufman, J. H., Gopalakrishnan, V.

10.1101/2025.05.14.654062 — Posted: 2025-05-18 — Discussion: 2025-09-23 eLife