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Resource: Gene expression networks in the Drosophila Genetic Reference Panel
- Logan J. Everett,
- Wen Huang,
- Shanshan Zhou,
- Mary Anna Carbone,
- Richard F. Lyman,
- Gunjan H. Arya,
- Matthew S. Geisz,
- Junwu Ma,
- Fabio Morgante,
- Genevieve St. Armour,
- Lavanya Turlapati,
- Robert R.H. Anholt,
- and Trudy F.C. Mackay
Genome Res. March 2020 30: 485-496; Published in Advance March 6, 2020, doi:10.1101/gr.257592.119
...-component Gaussian mixture model and by finding the expression value (FPKM = 0.280263) where the posterior probability of being in the lower expression component is 0.95. Genes on Chr U and Chr Uextra were also removed. We further adjusted transposon expression estimates to account for differences in transposon copy...
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Method: Fast and flexible bacterial genomic epidemiology with PopPUNK
- John A. Lees,
- Simon R. Harris,
- Gerry Tonkin-Hill,
- Rebecca A. Gladstone,
- Stephanie W. Lo,
- Jeffrey N. Weiser,
- Jukka Corander,
- Stephen D. Bentley,
- and Nicholas J. Croucher
Genome Res. February 2019 29: 304-316; Published in Advance January 24, 2019, doi:10.1101/gr.241455.118
..., and the cluster closest to the origin is the within-strain cluster. The two-dimensional Gaussian mixture model (2D GMM) is in the left column, which also shows ellipses with the mean and covariance of the fitted mixture components. The HDBSCAN plot in the center column shows unclassified noise points in black...
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