Miller JB - Search Results

1

Assembly of 809 whole mitochondrial genomes with clinical, imaging, and fluid biomarker phenotyping.

Ridge PG, Wadsworth ME, Miller JB, Saykin AJ, Green RC; Alzheimer's Disease Neuroimaging Initiative; Kauwe JSK. Ridge PG, et al. Among authors: miller jb. Alzheimers Dement. 2018 Apr;14(4):514-519. doi: 10.1016/j.jalz.2017.11.013. Epub 2018 Jan 5. Alzheimers Dement. 2018. PMID: 29306584 Free PMC article.

2

Genetic analysis, structural modeling, and direct coupling analysis suggest a mechanism for phosphate signaling in Escherichia coli.

Gardner SG, Miller JB, Dean T, Robinson T, Erickson M, Ridge PG, McCleary WR. Gardner SG, et al. Among authors: miller jb. BMC Genet. 2015;16 Suppl 2(Suppl 2):S2. doi: 10.1186/1471-2156-16-S2-S2. Epub 2015 Apr 23. BMC Genet. 2015. PMID: 25953406 Free PMC article.

3

Evaluating the necessity of PCR duplicate removal from next-generation sequencing data and a comparison of approaches.

Ebbert MT, Wadsworth ME, Staley LA, Hoyt KL, Pickett B, Miller J, Duce J; Alzheimer’s Disease Neuroimaging Initiative; Kauwe JS, Ridge PG. Ebbert MT, et al. BMC Bioinformatics. 2016 Jul 25;17 Suppl 7(Suppl 7):239. doi: 10.1186/s12859-016-1097-3. BMC Bioinformatics. 2016. PMID: 27454357 Free PMC article.

4

Kmer-SSR: a fast and exhaustive SSR search algorithm.

Pickett BD, Miller JB, Ridge PG. Pickett BD, et al. Among authors: miller jb. Bioinformatics. 2017 Dec 15;33(24):3922-3928. doi: 10.1093/bioinformatics/btx538. Bioinformatics. 2017. PMID: 28968741 Free PMC article.

5

JustOrthologs: a fast, accurate and user-friendly ortholog identification algorithm.

Miller JB, Pickett BD, Ridge PG. Miller JB, et al. Bioinformatics. 2019 Feb 15;35(4):546-552. doi: 10.1093/bioinformatics/bty669. Bioinformatics. 2019. PMID: 30084941 Free PMC article.

6

ExtRamp: a novel algorithm for extracting the ramp sequence based on the tRNA adaptation index or relative codon adaptiveness.

Miller JB, Brase LR, Ridge PG. Miller JB, et al. Nucleic Acids Res. 2019 Feb 20;47(3):1123-1131. doi: 10.1093/nar/gky1193. Nucleic Acids Res. 2019. PMID: 30649455 Free PMC article.

7

Arabidopsis thaliana organelles mimic the T7 phage DNA replisome with specific interactions between Twinkle protein and DNA polymerases Pol1A and Pol1B.

Morley SA, Peralta-Castro A, Brieba LG, Miller J, Ong KL, Ridge PG, Oliphant A, Aldous S, Nielsen BL. Morley SA, et al. BMC Plant Biol. 2019 Jun 6;19(1):241. doi: 10.1186/s12870-019-1854-3. BMC Plant Biol. 2019. PMID: 31170927 Free PMC article.

8

CAM: an alignment-free method to recover phylogenies using codon aversion motifs.

Miller JB, McKinnon LM, Whiting MF, Ridge PG. Miller JB, et al. PeerJ. 2019 Jun 4;7:e6984. doi: 10.7717/peerj.6984. eCollection 2019. PeerJ. 2019. PMID: 31198636 Free PMC article.

9

Codon use and aversion is largely phylogenetically conserved across the tree of life.

Miller JB, McKinnon LM, Whiting MF, Ridge PG. Miller JB, et al. Mol Phylogenet Evol. 2020 Mar;144:106697. doi: 10.1016/j.ympev.2019.106697. Epub 2019 Dec 2. Mol Phylogenet Evol. 2020. PMID: 31805345 Free article.

10

Failure to detect synergy between variants in transferrin and hemochromatosis and Alzheimer's disease in large cohort.

Vance E, Gonzalez Murcia JD, Miller JB; Alzheimer's Disease Genetics Consortium (ADGC); Staley L, Crane PK, Mukherjee S, Kauwe JSK. Vance E, et al. Among authors: miller jb. Neurobiol Aging. 2020 May;89:142.e9-142.e12. doi: 10.1016/j.neurobiolaging.2020.01.013. Epub 2020 Feb 12. Neurobiol Aging. 2020. PMID: 32143980 Free PMC article.

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