bioRxiv/medRxiv TRiP Review Activity

477 Reviews — All Partners — Bioinformatics

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HaploCharmer: a Snakemake workflow for read-scale haplotype calling adapted to polyploids
Rio, S., Abdallah, S., Durand, T., DHont, A., Garsmeur, O.
10.1101/2025.03.14.642807 — Posted: 2025-03-17 — Discussion: 2025-09-21  Peer Community In
Restoring data balance via generative models of T-cell receptors for antigen-binding prediction
Loffredo, E., Pastore, M., Cocco, S., Monasson, R.
10.1101/2024.07.10.602897 — Posted: 2024-07-15 — Discussion: 2025-09-15  eLife
The De-Modifier: a tool for screening modification-induced alternate peptide taxonomy in palaeoproteomics
Evans, M.
10.1101/2025.01.09.632126 — Posted: 2025-01-13 — Discussion: 2025-09-15  Peer Community In
Identification of type 2 diabetes- and obesity-associated human β-cells using deep transfer learning
Roy, G., Syed, R., Lazaro, O., Robertson, S., McCabe, S. D., Rodriguez, D., Mawla, A. M., Johnson, T. S., Kalwat, M. A.
10.1101/2024.01.18.576260 — Posted: 2024-01-23 — Discussion: 2025-09-02  eLife
Evidence of off-target probe binding in the 10x Genomics Xenium v1 Human Breast Gene Expression Panel compromises accuracy of spatial transcriptomic profiling
Hallinan, C., Ji, H. J., Salzberg, S. L., Fan, J.
10.1101/2025.03.31.646342 — Posted: 2025-04-03 — Discussion: 2025-08-26  eLife
EnVhog: an extended view of the viral protein space on Earth
Bucio, R. E. P., Enault, F., Galiez, C.
10.1101/2024.06.25.600602 — Posted: 2024-06-27 — Discussion: 2025-08-11  Peer Community In
Studying cis-regulatory heterogeneity in single-cells at allelic resolution
Petrova, V., Niu, M., Vierbuchen, T., Wong, E. S.
10.1101/2025.04.16.649227 — Posted: 2025-04-17 — Discussion: 2025-08-11  Review Commons
SeuratExtend: Streamlining Single-Cell RNA-Seq Analysis Through an Integrated and Intuitive Framework
Hua, Y., Weng, L., Zhao, F., Rambow, F.
10.1101/2024.08.01.606144 — Posted: 2024-08-04 — Discussion: 2025-08-04  GigaScience
Chevreul: An R Bioconductor Package for Exploratory Analysis of Full-Length Single Cell Sequencing
Stachelek, K., Bhat, B., Cobrinik, D.
10.1101/2025.05.27.656486 — Posted: 2025-06-01 — Discussion: 2025-07-30  Gigabyte
The Lipocone Superfamily: A Unifying Theme In Metabolism Of Lipids, Peptidoglycan And Exopolysaccharides, Inter-Organismal Conflicts And Immunity
Burroughs, A. M., Nicastro, G. G., Aravind, L.
10.1101/2025.01.14.632903 — Posted: 2025-01-19 — Discussion: 2025-07-18  eLife

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