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456 Reviews — GigaScience — All Subjects

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PathoFact 2.0: An Integrative Pipeline for Predicting Antimicrobial Resistance Genes, Virulence Factors, Toxins and Biosynthetic Gene Clusters in Metagenomes
Sunyer, J. O., Delgado, L. F., Hickl, O., Laczny, C. C., May, P., Wilmes, P.
10.1101/2024.12.09.627531 — Posted: 2024-12-11 — Discussion: 2026-07-10  GigaScience
Cell type transcriptomics reveal shared genetic mechanisms in Alzheimer's and Parkinson's disease
Bhattacharya, A., Fon, E. A., Dagher, A., Iturria-Medina, Y., STRATTON, J. A., Savignac, C., Stanley, J., Hodgson, L., Hammou, B. A., Bennett, D. A., Bzdok, D.
10.1101/2025.02.17.638647 — Posted: 2025-02-19 — Discussion: 2026-07-10  GigaScience
4D Single-Cell Spatial Transcriptomics Reveals Dynamic Morphogenetic Gradients and Regenerative Domains in Planarians
Han, K., Chen, Y., Li, Y., Guo, L., Wang, Y., Liu, X., Lin, Y., Huang, Z., Liu, Q., Guo, W., Zhang, R., Zhao, W., Liang, L., Wei, X., Zhou, L., Mao, X., Wang, J., Wu, W., Pan, H., Yang, T., Zhang, H., Su, X., Liu, S., Zhang, W., Liu, L., Christensen, S. T., Fei, J., Liu, X., Fan, G., Li, H., Gu, Y., Wang, J., Yang, H., Pei, G., Xu, X., Zeng, A., Xu, M.
10.64898/2026.02.18.706529 — Posted: 2026-02-19 — Discussion: 2026-07-10  GigaScience
Breaking the cold chain: solutions for room temperature preservation of mosquitoes leading to high quality reference genomes
Teltscher, F., Korlevic, P., Sheerin, E., Makunin, A., Lawniczak, M. K. N.
10.1101/2025.07.03.662936 — Posted: 2025-07-05 — Discussion: 2026-07-10  GigaScience
MicroFinder: Conserved gene-set mapping and assembly ordering for manual curation of bird microchromosomes
Mathers, T. C., Paulini, M., Sotero-Caio, C. G., Wood, J. M. D.
10.1101/2025.05.09.653066 — Posted: 2025-05-14 — Discussion: 2026-04-28  GigaScience
scfetch: an R package to access and format single-cell RNA sequencing datasets from public repositories
Song, Y., Gao, J., Wang, J.
10.1101/2023.11.18.567507 — Posted: 2023-11-20 — Discussion: 2026-04-28  GigaScience
HVRLocator: A Computationally Efficient Tool for Identifying Hypervariable Regions in 16S rRNA Big Datasets
Arboleda-Baena, C., Borim Correa, F., Saraiva, J. P., Castillo, S., Kasmanas, J. C., Chatzinotas, A., Jurburg, S. D.
10.1101/2025.07.24.666487 — Posted: 2025-07-29 — Discussion: 2026-04-28  GigaScience
Characterising a species-rich and understudied tropical insect fauna using DNA barcoding
Hemprich-Bennett, D. R., Donkor, E., Adams, B., Acquaah, N. A., Ofori, E. D., Anie-Amoah, S., Bailey, A., Godfray, H. C. J., Lewis, O. T., Aboagye-Antwi, F., Hackett, T. D.
10.1101/2025.09.30.675770 — Posted: 2025-10-01 — Discussion: 2026-04-10  GigaScience
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
MADRe: Strain-Level Metagenomic Classification Through Assembly-Driven Database Reduction
Lipovac, J., Sikic, M., Vicedomini, R., Krizanovic, K.
10.1101/2025.05.12.653324 — Posted: 2025-05-15 — Discussion: 2026-04-10  GigaScience

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