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439 Reviews — GigaScience — All Subjects

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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
First chromosome-level genome assembly of the colonial tunicate Botryllus schlosseri
De Thier, O., Tawfeeq, M. M., Faure, R., Lebel, M., Dru, P., Blanchoud, S., Alie, A., Brown, F. D., Flot, J.-F., Tiozzo, S.
10.1101/2024.05.29.594498 — Posted: 2024-06-02 — Discussion: 2025-09-30  GigaScience
PathoGFAIR: a collection of FAIR and adaptable (meta)genomics workflows for (foodborne) pathogens detection and tracking
Nasr, E., Henger, A., Gruning, B., Zierep, P., Batut, B.
10.1101/2024.06.26.600753 — Posted: 2024-06-30 — Discussion: 2025-09-30  GigaScience
Haplotype-resolved reference genomes of the sea turtle clade unveil ultra-syntenic genomes with hotspots of divergence
Arantes, L. S., Brown, T., De Panis, D., Whiting, S. D., LaCasella, E. L., Carvajal, G. A., Kennedy, A., Edmunds, D., Bentley, B. P., Balacco, J., Whelan, C., Jain, N., Tilley, T., O'Toole, B., Traore, P., Jarvis, E. D., Berry, O., Dutton, P. H., Komoroske, L. M., Mazzoni, C. J.
10.1101/2025.03.26.644878 — Posted: 2025-03-28 — Discussion: 2025-09-30  GigaScience
CNSistent integration and feature extraction from somatic copy number profiles
Streck, A., Schwarz, R. F.
10.1101/2024.12.23.630118 — Posted: 2024-12-23 — Discussion: 2025-09-30  GigaScience
A telomere to telomere phased genome assembly and annotation for the Australian central bearded dragon Pogona vitticeps
Patel, H. R., Alreja, K., Reis, A. M., Chang, J. K., Chew, Z. A., Jung, H., Hammond, J. M., Deveson, I. W., Ruiz-Herrera, A., Marin-Gual, L., Holleley, C. E., Zhang, X., Lister, N. C., Whiteley, S. L., Xiong, L., Dissanayake, D. S. B., Waters, P. D., Georges, A.
10.1101/2025.05.01.651798 — Posted: 2025-05-02 — Discussion: 2025-08-26  GigaScience
Telomere-to-telomere African wild rice (Oryza longistaminata) reference genome reveals segmental and structural variation
Guang, X., Yang, J., Zhang, S., Guo, F., Li, L., Lian, X., Zeng, T., Cai, C., Liu, F., Li, Z., Hu, Y., Fang, D., He, W., Sahu, S. K., Li, W., Lu, H., Li, Y., Liu, H., Xu, X., Guang, Y., Hu, F., Dong, Y., Wei, T.
10.1101/2024.09.05.611405 — Posted: 2024-09-07 — Discussion: 2025-08-26  GigaScience
A near-complete genome assembly of the bearded dragon Pogona vitticeps provides insights into the origin of Pogona sex chromosomes
Guo, Q., Pan, Y., Dai, W., Guo, F., Zeng, T., Chen, W., Mi, Y., Zhang, Y., Shi, S., Jiang, W., Cai, H., Wu, B., Zhou, Y., Wang, Y., Yang, C., Shi, X., Yan, X., Chen, J., Cai, C., Yang, J., Xu, X., Gu, Y., Dong, Y., Li, Q.
10.1101/2024.09.05.611321 — Posted: 2024-09-10 — Discussion: 2025-08-26  GigaScience
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
Multiomics uncovers the epigenomic and transcriptomic response to viral and bacterial stimulation in turbot
Aramburu, O., Pardo, B. G., Rodriguez-Villamayor, P., Blanco Hortas, A., Lamas, J., Dewari, P. S., Perojil, D., Boudinot, P., Macqueen, D. J., Bouza, C., Martinez, P.
10.1101/2024.02.15.580452 — Posted: 2024-02-15 — Discussion: 2025-08-04  GigaScience

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