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84 Reviews — GigaScience — Genomics

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Draft genome assemblies using sequencing reads from Oxford Nanopore Technology and Illumina platforms for four species of North American killifish from the Fundulus genus

Johnson, L. K., Sahasrabudhe, R., Gill, T., Roach, J. L., Froenicke, L., Brown, C. T., Whitehead, A.

10.1101/686246 — Posted: 2019-06-28 — Discussion: 2022-01-24 GigaScience

High-quality chromosome-scale assembly of the walnut (Juglans regia L) reference genome

Marrano, A., Britton, M., Zaini, P. A., Zimin, A., Workman, R., Puiu, D., Bianco, L., Di Pierro, E. A., Allen, B., Chakraborty, S., Troggio, M., Leslie, C., Timp, W., Dendekar, A., Salzberg, S., Neale, D. B.

10.1101/809798 — Posted: 2019-10-17 — Discussion: 2022-01-24 GigaScience

A haplotype-resolved, de novo genome assembly for the wood tiger moth (Arctia plantaginis) through trio binning

Yen, E. C., McCarthy, S. A., Galarza, J. A., Generalovic, T. N., Pelan, S., Nguyen, P., Meier, J. I., Warren, I. A., Mappes, J., Durbin, R., Jiggins, C. D.

10.1101/2020.02.28.970020 — Posted: 2020-03-02 — Discussion: 2022-01-24 GigaScience

Accurate assembly of the olive baboon (Papio anubis) genome using long-read and Hi-C data

Batra, S. S., Levy-Sakin, M., Robinson, J., Guillory, J., Durinck, S., Kwok, P.-Y., Cox, L. A., Seshagiri, S., Song, Y. S., Wall, J. D.

10.1101/678771 — Posted: 2019-06-24 — Discussion: 2022-01-24 GigaScience

Reduced chromatin accessibility underlies gene expression differences in homologous chromosome arms of hexaploid wheat and diploid Aegilops tauschii

Lu, F.-H., McKenzie, N., Gardiner, L.-J., Luo, M., Hall, A., Bevan, M. W.

10.1101/571133 — Posted: 2019-03-07 — Discussion: 2022-01-24 GigaScience

Sequencing smart: De novo sequencing and assembly approaches for non-model mammals.

Etherington, G. J., Heavens, D., Baker, D., Lister, A., McNelly, R., Garcia Accinelli, G., Clavijo, B. J., Macaulay, I., Haerty, W., Di Palma, F.

10.1101/723890 — Posted: 2019-08-05 — Discussion: 2022-01-24 GigaScience

Comparison of the two up-to-date sequencing technologies for genome assembly: HiFi reads of Pacbio Sequel II system and ultralong reads of Oxford Nanopore

Lang, D., Zhang, S., Ren, P., Liang, F., Sun, Z., Meng, G., Tan, Y., Hu, J., Li, X., Lai, Q., Han, L., Wang, D., Hu, F., Wang, W., Liu, S.

10.1101/2020.02.13.948489 — Posted: 2020-02-14 — Discussion: 2022-01-24 GigaScience

Genome Diversity in Ukraine

Oleksyk, T. K., Wolfsberger, W. W., Weber, A., Shchubelka, K., Oleksyk, O. T., Levchuk, O., Patrus, A., Lazar, N., Castro-Marquez, S. O., Boldyzhar, P., Urbanovych, A., Stakhovska, V., Malyar, K., Chervyakova, S., Podoroha, O., Kovalchuk, N., Hasynets, Y., Rodriguez-Flores, J. L., Medley, S., Battistuzzi, F. U., Liu, R., Hou, Y., Chen, S., Yang, H., Yeager, M., Dean, M., Mills, R. E., Smolanka, V.

10.1101/2020.08.07.238329 — Posted: 2020-08-07 — Discussion: 2022-01-24 GigaScience

Framework for determining accuracy of RNA sequencing data for gene expression profiling of single samples

Beale, H. C., Roger, J., Cattle, M., McKay, L., Learned, K., Lyle, G., Kephart, E., Currie, R., Lam, D. L., Sanders, L., Pfeil, J., Vivian, J., Bjork, I., Salama, S., Haussler, D., Vaske, O.

10.1101/716829 — Posted: 2019-07-30 — Discussion: 2022-01-24 GigaScience

The Gene-Rich Genome of the Scallop Pecten maximus

Kenny, N. J., McCarthy, S. A., Dudchenko, O., James, K., Betteridge, E., Corton, C., Dolucan, J., Mead, D., Oliver, K., Omer, A. D., Pelan, S., Ryan, Y., Sims, Y., Skelton, J., Smith, M., Torrance, J., Weisz, D., Wipat, A., Aiden, E. L., Howe, K., Williams, S. T.

10.1101/2020.01.08.887828 — Posted: 2020-01-09 — Discussion: 2022-01-24 GigaScience