Alexis Battle

Alexis Battle

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Alexis Battle

Alexis Battle

Publications by authors named "Alexis Battle"

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Addressing confounding artifacts in reconstruction of gene co-expression networks.

Genome Biol 2019 05 16;20(1):94. Epub 2019 May 16.

Department of Biostatistics, Johns Hopkins Bloomberg School of Public Health, Baltimore, MD, USA.

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http://dx.doi.org/10.1186/s13059-019-1700-9DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC6521369PMC
May 2019

False positives in trans-eQTL and co-expression analyses arising from RNA-sequencing alignment errors.

F1000Res 2018 28;7:1860. Epub 2018 Nov 28.

Department of Computer Science, Johns Hopkins University, Baltimore, Maryland, 21218, USA.

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http://dx.doi.org/10.12688/f1000research.17145.2DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC6305209.2PMC
November 2018

Identifying global expression patterns and key regulators in epithelial to mesenchymal transition through multi-study integration.

BMC Cancer 2017 Jun 26;17(1):447. Epub 2017 Jun 26.

Department of Computer Science, Johns Hopkins University, Baltimore, MD, 21218, USA.

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http://dx.doi.org/10.1186/s12885-017-3413-3DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5485747PMC
June 2017

The impact of structural variation on human gene expression.

Nat Genet 2017 May 3;49(5):692-699. Epub 2017 Apr 3.

McDonnell Genome Institute, Washington University School of Medicine, St. Louis, Missouri, USA.

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http://dx.doi.org/10.1038/ng.3834DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5406250PMC
May 2017

Genetic variation in MHC proteins is associated with T cell receptor expression biases.

Nat Genet 2016 09 1;48(9):995-1002. Epub 2016 Aug 1.

Department of Genetics, Stanford University, Stanford, California, USA.

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http://dx.doi.org/10.1038/ng.3625DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5010864PMC
September 2016

Impact of the X Chromosome and sex on regulatory variation.

Genome Res 2016 06 21;26(6):768-77. Epub 2016 Apr 21.

Department of Pathology, Stanford University School of Medicine, Stanford, California 94305, USA; Department of Genetics, Stanford University School of Medicine, Stanford, California 94305, USA; Department of Computer Science, Stanford University, Stanford, California 94305, USA;

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http://dx.doi.org/10.1101/gr.197897.115DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4889977PMC
June 2016

An Efficient Multiple-Testing Adjustment for eQTL Studies that Accounts for Linkage Disequilibrium between Variants.

Am J Hum Genet 2016 Jan 31;98(1):216-24. Epub 2015 Dec 31.

Department of Genetics, Stanford University, Stanford, CA 94305, USA; Department of Pathology, Stanford University, Stanford, CA 94305, USA. Electronic address:

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http://dx.doi.org/10.1016/j.ajhg.2015.11.021DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4716687PMC
January 2016

EIF3G is associated with narcolepsy across ethnicities.

Eur J Hum Genet 2015 Nov 11;23(11):1573-80. Epub 2015 Feb 11.

Molecular Sleep Laboratory, Department of Diagnostics, Glostrup University Hospital, Glostrup, Denmark.

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http://dx.doi.org/10.1038/ejhg.2015.4DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4613472PMC
November 2015

High-resolution transcriptome analysis with long-read RNA sequencing.

PLoS One 2014 24;9(9):e108095. Epub 2014 Sep 24.

Department of Computer Science, Stanford University, Stanford, California, United States of America; Department of Genetics, Stanford University, Stanford, California, United States of America; Department of Pathology, Stanford University, Stanford, California, United States of America.

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http://journals.plos.org/plosone/article?id=10.1371/journal.pone.0108095PLOS
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4176000PMC
June 2015

Sharing and Specificity of Co-expression Networks across 35 Human Tissues.

PLoS Comput Biol 2015 May 13;11(5):e1004220. Epub 2015 May 13.

Department of Computer Science, Stanford University, Stanford, California, United States of America.

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http://dx.doi.org/10.1371/journal.pcbi.1004220DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4430528PMC
May 2015

Genomic variation. Impact of regulatory variation from RNA to protein.

Science 2015 Feb 18;347(6222):664-7. Epub 2014 Dec 18.

Department of Human Genetics, University of Chicago, Chicago, IL 60637, USA.

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http://www.sciencemag.org/cgi/doi/10.1126/science.1260793
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http://dx.doi.org/10.1126/science.1260793DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4507520PMC
February 2015

Transcriptome sequencing of a large human family identifies the impact of rare noncoding variants.

Am J Hum Genet 2014 Sep;95(3):245-56

Department of Pathology, Stanford University School of Medicine, Stanford, CA 94305, USA; Department of Genetics, Stanford University School of Medicine, Stanford, CA 94305, USA; Department of Computer Science, Stanford University, Stanford, CA 94305, USA. Electronic address:

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https://linkinghub.elsevier.com/retrieve/pii/S00029297140034
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http://dx.doi.org/10.1016/j.ajhg.2014.08.004DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4157143PMC
September 2014

Automated identification of pathways from quantitative genetic interaction data.

Mol Syst Biol 2010 Jun;6:379

Department of Computer Science, Stanford University, Stanford, CA 94305-9010, USA.

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http://dx.doi.org/10.1038/msb.2010.27DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC2913392PMC
June 2010

Probabilistic discovery of overlapping cellular processes and their regulation.

J Comput Biol 2005 Sep;12(7):909-27

Computer Science Department, Stanford University, Stanford, CA 94305-9010, USA.

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http://www.liebertpub.com/doi/10.1089/cmb.2005.12.909
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http://dx.doi.org/10.1089/cmb.2005.12.909DOI Listing
September 2005