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Research Output 2011 2018

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Article
2018
6 Citations (Scopus)

Comprehensive Functional Analysis of the Enterococcus faecalis Core Genome Using an Ordered, Sequence-Defined Collection of Insertional Mutations in Strain OG1RF

Dale, J. L., Beckman, K. B., Willett, J. L. E., Nilson, J. L., Palani, N. P., Baller, J. A., Hauge, A., Gohl, D. M., Erickson, R., Manias, D. A., Sadowsky, M. J. & Dunny, G. M., Sep 1 2018, In : mSystems. 3, 5, e0006218.

Research output: Contribution to journalArticle

Open Access
Functional analysis
Enterococcus faecalis
Functional Analysis
Mutant
mutation
19 Citations (Scopus)

The lung tissue microbiota of mild and moderate chronic obstructive pulmonary disease

Pragman, A. A., Lyu, T., Baller, J. A., Gould, T. J., Kelly, R. F., Reilly, C. S., Isaacson, R. E. & Wendt, C. H., Jan 1 2018, In : Microbiome. 6, 1, 7.

Research output: Contribution to journalArticle

Microbiota
Chronic Obstructive Pulmonary Disease
Lung
Nose
rRNA Genes
2016
4 Citations (Scopus)

Development of the intestinal RNA virus community of healthy broiler chickens

Shah, J. D., Desai, P. T., Zhang, Y., Scharber, S. K., Baller, J. A., Xing, Z. & Cardona, C. J., Feb 1 2016, In : PloS one. 11, 2, e0150094.

Research output: Contribution to journalArticle

RNA Viruses
Viral RNA
Viruses
Chickens
broiler chickens
9 Citations (Scopus)
Genetic Loci
Double-Stranded DNA Breaks
Homologous Recombination
Zinc Fingers
Arabidopsis
2015
30 Citations (Scopus)

An RNA polymerase III subunit determines sites of retrotransposon integration

Bridier-Nahmias, A., Tchalikian-Cosson, A., Baller, J. A., Menouni, R., Fayol, H., Flores, A., Saïb, A., Werner, M., Voytas, D. F. & Lesage, P., May 1 2015, In : Science. 348, 6234, p. 585-588 4 p.

Research output: Contribution to journalArticle

RNA Polymerase III
Integrases
Retroelements
Interspersed Repetitive Sequences
Genomic Instability
2014
7 Citations (Scopus)
Metagenome
Viral RNA
Viruses
RNA Viruses
Astroviridae
11 Citations (Scopus)

Origin replication complex binding, nucleosome depletion patterns, and a primary sequence motif can predict origins of replication in a genome with epigenetic centromeres

Tsai, H. J., Baller, J. A., Liachko, I., Koren, A., Burrack, L. S., Hickman, M. A., Thevandavakkam, M. A., Rusche, L. N. & Berman, J. G., Sep 2 2014, In : mBio. 5, 5, e01703-14.

Research output: Contribution to journalArticle

Replication Origin
Nucleosomes
Centromere
Candida albicans
Epigenomics
19 Citations (Scopus)

Silencing Is Noisy: Population and Cell Level Noise in Telomere-Adjacent Genes Is Dependent on Telomere Position and Sir2

Anderson, M. Z., Gerstein, A., Wigen, L., Baller, J. A. & Berman, J., Jan 1 2014, In : PLoS Genetics. 10, 7, e1004436.

Research output: Contribution to journalArticle

telomeres
Telomere
Noise
gene
Population
2013
86 Citations (Scopus)

Increasing frequencies of site-specific mutagenesis and gene targeting in Arabidopsis by manipulating DNA repair pathways

Qi, Y., Zhang, Y., Zhang, F., Baller, J. A., Cleland, S. C., Ryu, Y., Starker, C. & Voytas, D. F., Mar 1 2013, In : Genome Research. 23, 3, p. 547-554 8 p.

Research output: Contribution to journalArticle

Gene Targeting
Site-Directed Mutagenesis
Arabidopsis
DNA Repair
Mutagenesis
229 Citations (Scopus)

Transcription activator-like effector nucleases enable efficient plant genome engineering

Zhang, Y., Zhang, F., Li, X., Baller, J. A., Qi, Y., Starker, C. G., Bogdanove, A. J. & Voytas, D. F., Jan 1 2013, In : Plant physiology. 161, 1, p. 20-27 8 p.

Research output: Contribution to journalArticle

Plant Genome
nucleases
engineering
transcription (genetics)
Acetolactate Synthase
2012
34 Citations (Scopus)

A nucleosomal surface defines an integration hotspot for the Saccharomyces cerevisiae Ty1 retrotransposon

Baller, J. A., Gao, J., Stamenova, R., Curcio, M. J. & Voytas, D. F., Apr 1 2012, In : Genome Research. 22, 4, p. 704-713 10 p.

Research output: Contribution to journalArticle

Retroelements
Nucleosomes
Saccharomyces cerevisiae
Histone Code
Genome
23 Citations (Scopus)

The three clades of the telomere-associated Tlo gene family of Candida albicans have different splicing, localization, and expression features

Anderson, M. Z., Baller, J. A., Dulmage, K., Wigen, L. & Berman, J. G., Oct 1 2012, In : Eukaryotic Cell. 11, 10, p. 1268-1275 8 p.

Research output: Contribution to journalArticle

Telomere
Candida albicans
Genes
Inteins
Aptitude
2011
15 Citations (Scopus)
Retroelements
Heterochromatin
Yeasts
Euchromatin
DNA
1266 Citations (Scopus)

Efficient design and assembly of custom TALEN and other TAL effector-based constructs for DNA targeting

Cermak, T., Doyle, E. L., Christian, M., Wang, L., Zhang, Y., Schmidt, C., Baller, J. A., Somia, N. V., Bogdanove, A. J. & Voytas, D. F., Jul 2011, In : Nucleic acids research. 39, 12, p. e82

Research output: Contribution to journalArticle

DNA
Xanthomonas
Plasmids
Software
Guidelines
45 Citations (Scopus)

Putting genetic interactions in context through a global modular decomposition

Bellay, J., Atluri, G., Sing, T. L., Toufighi, K., Costanzo, M., Ribeiro, P. S. M., Pandey, G., Baller, J., VanderSluis, B., Michaut, M., Han, S., Kim, P., Brown, G. W., Andrews, B. J., Boone, C., Kumar, V. & Myers, C. L., Aug 1 2011, In : Genome research. 21, 8, p. 1375-1387 13 p.

Research output: Contribution to journalArticle

Genetic Models
Duplicate Genes
Data Mining
Genetic Structures
Essential Genes