Mapeamento variantes da doença de Alzheimer para seus genes-alvo usando análise computacional da configuração de cromatina
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Summary
Abstract
Introduction
Protocol
Representative Results
Discussion
Disclosures
The authors have nothing to disclose.
Acknowledgements
Materials
| 10 kb resolution Hi-C interaction profiles in the adult brain from psychencode | <a target="_blank" href="http://adult.psychencode.org/Datasets/Integrative/Promoter-anchored_chromatin_loops.bed">http://adult.psychencode.org/</a> | ||
| Developmental expression datasets | <a target="_blank" href="http://www.brainspan.org/api/v2/well_known_file_download/267666527">http://www.brainspan.org/</a> | ||
| Fine-mapped credible SNPs for AD (Supplementary Table 8 from Jansen et al.<sup>14</sup>) | <a target="_blank" href="https://static-content.springer.com/esm/art%3A10.1038%2Fs41588-018-0311-9/MediaObjects/41588_2018_311_MOESM3_ESM.xlsx">https://static-content.springer.com/</a> | ||
| HOMER | <a target="_blank" href="http://homer.ucsd.edu/homer/configureHomer.pl">http://homer.ucsd.edu/</a> | ||
| R (version 3.5.0) | <a target="_blank" href="https://www.r-project.org/">https://www.r-project.org/</a> | ||
| RStudio Desktop | <a target="_blank" href="https://www.rstudio.com/products/rstudio/download/">https://www.rstudio.com/</a> | ||
| Single cell expression datasets | <a target="_blank" href="http://adult.psychencode.org/Datasets/Derived/SC_Decomp/DER-20_Single_cell_expression_processed_TPM_backup.tsv">http://adult.psychencode.org/</a> |
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Cite This Article
Matoba, N., Quiroga, I. Y., Phanstiel, D. H., Won, H. Mapping Alzheimer’s Disease Variants to Their Target Genes Using Computational Analysis of Chromatin Configuration. J. Vis. Exp. (155), e60428, doi:10.3791/60428 (2020).