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381 Reviews — GigaScience — All Subjects

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A chromosome-level genome assembly for the Eastern Fence Lizard (Sceloporus undulatus), a reptile model for physiological and evolutionary ecology
Westfall, A. K., Telemeco, R. S., Grizante, M. B., Waits, D. S., Clark, A. D., Simpson, D. Y., Klabacka, R. L., Sullivan, A. P., Perry, G. H., Sears, M. W., Cox, C. L., Cox, R. M., Gifford, M. E., John-Alder, H. B., Langkilde, T., Angilletta, M., Leache, A., Tollis, M., Kusumi, K., Schwartz, T. S.
10.1101/2020.06.06.138248 — Posted: 2020-06-06 — Discussion: 2022-01-24  GigaScience
MB-GAN: Microbiome Simulation via Generative Adversarial Network
Rong, R., Jiang, S., Xu, L., Xiao, G., Xie, Y., Liu, D. J., Li, Q., Zhan, X.
10.1101/863977 — Posted: 2019-12-04 — Discussion: 2022-01-24  GigaScience
Lilikoi V2.0: a deep-learning enabled, personalized pathway-based R package for diagnosis and prognosis predictions using metabolomics data
Xinying Fang, Yu Liu, Zhijie Ren, Yuheng Du, Qianhui Huang, Lana X. Garmire
10.1101/2020.07.09.195677 — Posted: 2020-07-10 — 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
Correcting for experiment-specific variability in expression compendia can remove underlying signals
Lee, A. J., Park, Y., Doing, G., Hogan, D. A., Greene, C. S.
10.1101/2020.05.03.066597 — Posted: 2020-05-03 — 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
SoupX removes ambient RNA contamination from droplet based single cell RNA sequencing data
Young, M. D., Behjati, S.
10.1101/303727 — Posted: 2018-04-20 — 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
CNVpytor: a tool for CNV/CNA detection and analysis from read depth and allele imbalance in whole genome sequencing
Suvakov, M., Panda, A., Diesh, C., Holmes, I., Abyzov, A.
10.1101/2021.01.27.428472 — Posted: 2021-01-27 — 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

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