bioRxiv/medRxiv TRiP Review Activity

477 Reviews — All Partners — Bioinformatics

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T cell receptor convergence is an indicator of antigen-specific T cell response in cancer immunotherapies
Pan, M. Y., Li, B.
10.1101/2022.06.15.495325 — Posted: 2022-06-16 — Discussion: 2022-10-23  eLife
Taxonium: a web-based tool for exploring large phylogenetic trees
Sanderson, T.
10.1101/2022.06.03.494608 — Posted: 2022-06-03 — Discussion: 2022-10-20  eLife
svaRetro and svaNUMT: modular packages for annotation of retrotransposed transcripts and nuclear integration of mitochondrial DNA in genome sequencing data
Dong, R., Cameron, D. L., Bedo, J., Papenfuss, A. T.
10.1101/2021.08.18.456578 — Posted: 2021-08-19 — Discussion: 2022-10-08  Gigabyte
Building a novel nuclear-organelle genomic framework for the fever tree (Cinchona pubescens Vahl) through short and long-read DNA data assemblies
Canales, N. A., Perez Escobar, O. A., Powell, R., Topel, M., Kidner, C., Nesbitt, M., Maldonado, C., Barnes, C., Ronsted, N., Leitch, I., Antonelli, A.
10.1101/2022.04.25.489452 — Posted: 2022-04-26 — Discussion: 2022-10-08  Gigabyte
Parchment Glutamine Index (PQI): A novel method to estimate glutamine deamidation levels in parchment collagen obtained from low-quality MALDI-TOF data
Nair, B., Palomo, I. R., Markussen, B., Wiuf, C., Collins, M. J.
10.1101/2022.03.13.483627 — Posted: 2022-03-14 — Discussion: 2022-10-03  Peer Community In
The Effects of Nonlinear Signal on Expression-Based Prediction Performance
Heil, B. J., Crawford, J., Greene, C. S.
10.1101/2022.06.22.497194 — Posted: 2022-06-26 — Discussion: 2022-09-30  Review Commons
HMMploidy: inference of ploidy levels from short-read sequencing data
Soraggi, S., Rhodes, J., Altinkaya, I., Tarrant, O., Balloux, F., Fisher, M. C., Fumagalli, M.
10.1101/2021.06.29.450340 — Posted: 2021-06-30 — Discussion: 2022-09-28  Peer Community In
Tourmaline: a workflow for rapid and reproducible amplicon sequence analysis using QIIME 2 and Snakemake
Thompson, L. R., Anderson, S. R., Den Uyl, P. A., Patin, N. V., Sanderson, G., Goodwin, K. D.
10.1101/2021.09.15.460495 — Posted: 2021-09-17 — Discussion: 2022-09-05  GigaScience
Resolution of the curse of dimensionality in single-cell RNA sequencing data analysis
Imoto, Y., Nakamura, T., Escolar, E. G., Yoshiwaki, M., Kojima, Y., Yabuta, Y., Katou, Y., Yamamoto, T., Hiraoka, Y., Saitou, M.
10.1101/2022.05.02.490246 — Posted: 2022-05-02 — Discussion: 2022-08-19  EMBO Press
Comprehensive phylogenetic analysis of the ribonucleotide reductase family reveals an ancestral clade and the role of insertions and extensions in diversification
Burnim, A. A., Spence, M. A., Xu, D., Jackson, C., Ando, N.
10.1101/2022.04.23.489257 — Posted: 2022-04-23 — Discussion: 2022-08-11  eLife

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