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Estimation of Neural Cell types in the Allen Human Brain Atlas using Murine-derived Expression Profiles

Johnson, Travis Steele
http://orcid.org/0000-0002-4628-2256
http://rave.ohiolink.edu/etdc/view?acc_num=osu1461243036

Abstract Details

2016, Master of Science, Ohio State University, Public Health.
Spatial patterns of gene expression in brain tissue have been observed in both human and more thoroughly in mouse. Because of the increased complexity and data availability, these spatial gene expression patterns in human have not been biologically explained in the same way that they have in murine models. In mice they can be explained by the spatial distribution of cell types. Using this insight, we address the human biology behind these spatial transcription changes by informing the human model with a-priori mouse transcriptional profiles. We apply clustered single cell RNA sequencing (scRNA-Seq) derived expression profiles across transcriptomics platforms to show: i) ordinary least squares regression can accurately predict the cell types within a tissue sample (validated through biomarkers and training/test data), ii) the distribution of cell types in the human brain vary between different locations in the brain, and iii) the distribution of human and mouse neural densities correlate between human and mouse. We developed a methodology to deconvolute cell types within heterogeneous tissue samples that can be applied to disparate data and achieve meaningful results. We then map these results to the large Allen Brain microarray database to evaluate changes in tissue between brain location.
Kun Huang, PhD (Advisor)
Po-Yin Yen, PhD (Advisor)
Raghu Machiraju, PhD (Committee Member)
Albert Lai, PhD (Committee Member)
51 p.
Biomedical Research
Deconvolution, Cross-species, RNA-Seq, Microarray, Expression profiles, Brain structure, Neuron, Mouse brain, Human brain, Neural cell types, Linear modeling

Recommended Citations

Citations

  • Johnson, T. S. (2016). Estimation of Neural Cell types in the Allen Human Brain Atlas using Murine-derived Expression Profiles [Master's thesis, Ohio State University]. OhioLINK Electronic Theses and Dissertations Center. http://rave.ohiolink.edu/etdc/view?acc_num=osu1461243036

    APA Style (7th edition)

  • Johnson, Travis. Estimation of Neural Cell types in the Allen Human Brain Atlas using Murine-derived Expression Profiles. 2016. Ohio State University, Master's thesis. OhioLINK Electronic Theses and Dissertations Center, http://rave.ohiolink.edu/etdc/view?acc_num=osu1461243036.

    MLA Style (8th edition)

  • Johnson, Travis. "Estimation of Neural Cell types in the Allen Human Brain Atlas using Murine-derived Expression Profiles." Master's thesis, Ohio State University, 2016. http://rave.ohiolink.edu/etdc/view?acc_num=osu1461243036

    Chicago Manual of Style (17th edition)

osu1461243036
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© 2016, all rights reserved.
This open access ETD is published by The Ohio State University and OhioLINK.