Aaron E. Darling

University of California, Davis, Davis, CA 
"Aaron Darling"


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Nicole T. Perna grad student 2001-2006 UW Madison
 (Computational analysis of genome evolution.)
Jonathan A. Eisen post-doc UC Davis
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Meyer F, Fritz A, Deng ZL, et al. (2022) Critical Assessment of Metagenome Interpretation: the second round of challenges. Nature Methods. 19: 429-440
Gaio D, Anantanawat K, To J, et al. (2022) Hackflex: low-cost, high-throughput, Illumina Nextera Flex library construction. Microbial Genomics. 8
DeMaere MZ, Darling AE. (2021) qc3C: Reference-free quality control for Hi-C sequencing data. Plos Computational Biology. 17: e1008839
Gaio D, DeMaere MZ, Anantanawat K, et al. (2021) Post-weaning shifts in microbiome composition and metabolism revealed by over 25 000 pig gut metagenome-assembled genomes. Microbial Genomics. 7
Quince C, Nurk S, Raguideau S, et al. (2021) STRONG: metagenomics strain resolution on assembly graphs. Genome Biology. 22: 214
Vicedomini R, Quince C, Darling AE, et al. (2021) Strainberry: automated strain separation in low-complexity metagenomes using long reads. Nature Communications. 12: 4485
Hastak P, Fourment M, Darling AE, et al. (2020) ST8196 is a novel, locally evolved, and extensively drug resistant pathogenic lineage within the ST131 clonal complex. Emerging Microbes & Infections. 1-35
Zingali T, Reid CJ, Chapman TA, et al. (2020) Whole Genome Sequencing Analysis of Porcine Faecal Commensal Carrying Class 1 Integrons from Sows and Their Offspring. Microorganisms. 8
Yasir M, Turner AK, Bastkowski S, et al. (2020) TraDIS-Xpress: a high-resolution whole-genome assay identifies novel mechanisms of triclosan action and resistance. Genome Research
Cooke I, Mead O, Whalen C, et al. (2019) Molecular techniques and their limitations shape our view of the holobiont. Zoology (Jena, Germany). 137: 125695
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