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Items: 10

1.

Comprehensive benchmarking and ensemble approaches for metagenomic classifiers.

McIntyre ABR, Ounit R, Afshinnekoo E, Prill RJ, Hénaff E, Alexander N, Minot SS, Danko D, Foox J, Ahsanuddin S, Tighe S, Hasan NA, Subramanian P, Moffat K, Levy S, Lonardi S, Greenfield N, Colwell RR, Rosen GL, Mason CE.

Genome Biol. 2017 Sep 21;18(1):182. doi: 10.1186/s13059-017-1299-7.

2.

Genomic Methods and Microbiological Technologies for Profiling Novel and Extreme Environments for the Extreme Microbiome Project (XMP).

Tighe S, Afshinnekoo E, Rock TM, McGrath K, Alexander N, McIntyre A, Ahsanuddin S, Bezdan D, Green SJ, Joye S, Stewart Johnson S, Baldwin DA, Bivens N, Ajami N, Carmical JR, Herriott IC, Colwell R, Donia M, Foox J, Greenfield N, Hunter T, Hoffman J, Hyman J, Jorgensen E, Krawczyk D, Lee J, Levy S, Garcia-Reyero N, Settles M, Thomas K, Gómez F, Schriml L, Kyrpides N, Zaikova E, Penterman J, Mason CE.

J Biomol Tech. 2017 Apr;28(1):31-39. doi: 10.7171/jbt.17-2801-004. Epub 2017 Mar 10. Erratum in: J Biomol Tech. 2017 Jul;28(2):93.

3.

Applying evolutionary genetics to developmental toxicology and risk assessment.

Leung MCK, Procter AC, Goldstone JV, Foox J, DeSalle R, Mattingly CJ, Siddall ME, Timme-Laragy AR.

Reprod Toxicol. 2017 Apr;69:174-186. doi: 10.1016/j.reprotox.2017.03.003. Epub 2017 Mar 4. Review.

4.

The mitogenome of the bed bug Cimex lectularius (Hemiptera: Cimicidae).

Kolokotronis SO, Foox J, Rosenfeld JA, Brugler MR, Reeves D, Benoit JB, Booth W, Robison G, Steffen M, Sakas Z, Palli SR, Schal C, Richards S, Narechania A, Baker RH, Sorkin LN, Amato G, Mason CE, Siddall ME, DeSalle R.

Mitochondrial DNA B Resour. 2016;1(1):425-427. doi: 10.1080/23802359.2016.1180268. Epub 2016 Jun 20.

5.

Data for constructing insect genome content matrices for phylogenetic analysis and functional annotation.

Rosenfeld J, Foox J, DeSalle R.

Data Brief. 2015 Dec 17;6:279-81. doi: 10.1016/j.dib.2015.12.015. eCollection 2016 Mar.

6.

Genome assembly and geospatial phylogenomics of the bed bug Cimex lectularius.

Rosenfeld JA, Reeves D, Brugler MR, Narechania A, Simon S, Durrett R, Foox J, Shianna K, Schatz MC, Gandara J, Afshinnekoo E, Lam ET, Hastie AR, Chan S, Cao H, Saghbini M, Kentsis A, Planet PJ, Kholodovych V, Tessler M, Baker R, DeSalle R, Sorkin LN, Kolokotronis SO, Siddall ME, Amato G, Mason CE.

Nat Commun. 2016 Feb 2;7:10164. doi: 10.1038/ncomms10164.

7.

Insect genome content phylogeny and functional annotation of core insect genomes.

Rosenfeld JA, Foox J, DeSalle R.

Mol Phylogenet Evol. 2016 Apr;97:224-232. doi: 10.1016/j.ympev.2015.10.014. Epub 2015 Nov 5.

PMID:
26549428
8.

In silico hybridization enables transcriptomic illumination of the nature and evolution of Myxozoa.

Foox J, Ringuette M, Desser SS, Siddall ME.

BMC Genomics. 2015 Oct 23;16:840. doi: 10.1186/s12864-015-2039-6.

9.

Multiplexed pyrosequencing of nine sea anemone (Cnidaria: Anthozoa: Hexacorallia: Actiniaria) mitochondrial genomes.

Foox J, Brugler M, Siddall ME, Rodríguez E.

Mitochondrial DNA A DNA Mapp Seq Anal. 2016 Jul;27(4):2826-32. doi: 10.3109/19401736.2015.1053114. Epub 2015 Jun 24.

PMID:
26104159
10.

The Road To Cnidaria: History of Phylogeny of the Myxozoa.

Foox J, Siddall ME.

J Parasitol. 2015 Jun;101(3):269-74. doi: 10.1645/14-671.1. Epub 2015 Jan 26. Review.

PMID:
25621522

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