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Phased nanopore assembly with Shasta and modular graph phasing with GFAse.
Genome Res. 2024 Apr 25;34(3):454-468. doi: 10.1101/gr.278268.123.
Genome Res. 2024.
PMID: 38627094
Phased nanopore assembly with Shasta and modular graph phasing with GFAse.
Lorig-Roach R, Meredith M, Monlong J, Jain M, Olsen H, McNulty B, Porubsky D, Montague T, Lucas J, Condon C, Eizenga J, Juul S, McKenzie S, Simmonds SE, Park J, Asri M, Koren S, Eichler E, Axel R, Martin B, Carnevali P, Miga K, Paten B.
Lorig-Roach R, et al. Among authors: simmonds se.
bioRxiv [Preprint]. 2023 Feb 22:2023.02.21.529152. doi: 10.1101/2023.02.21.529152.
bioRxiv. 2023.
PMID: 36865218
Free PMC article.
Updated.
Preprint.
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Phylogenetics and comparative plastome genomics of two of the largest genera of angiosperms, Piper and Peperomia (Piperaceae).
Simmonds SE, Smith JF, Davidson C, Buerki S.
Simmonds SE, et al.
Mol Phylogenet Evol. 2021 Oct;163:107229. doi: 10.1016/j.ympev.2021.107229. Epub 2021 Jun 13.
Mol Phylogenet Evol. 2021.
PMID: 34129936
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Genomic signatures of host-associated divergence and adaptation in a coral-eating snail, Coralliophila violacea (Kiener, 1836).
Simmonds SE, Fritts-Penniman AL, Cheng SH, Mahardika GN, Barber PH.
Simmonds SE, et al.
Ecol Evol. 2020 Feb 5;10(4):1817-1837. doi: 10.1002/ece3.5977. eCollection 2020 Feb.
Ecol Evol. 2020.
PMID: 32128119
Free PMC article.
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Using DNA barcoding to track seafood mislabeling in Los Angeles restaurants.
Willette DA, Simmonds SE, Cheng SH, Esteves S, Kane TL, Nuetzel H, Pilaud N, Rachmawati R, Barber PH.
Willette DA, et al. Among authors: simmonds se.
Conserv Biol. 2017 Oct;31(5):1076-1085. doi: 10.1111/cobi.12888. Epub 2017 May 10.
Conserv Biol. 2017.
PMID: 28075039
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