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Bioinformatics
Data Processing Subread STAR Homer samtools Picard mirPro SCENIC Cell Ranger |
R WGCNA edgeR DEseq2 yacca Seurat GOExpress |
External sources DAVID IPA GSEA Cytoscape String |
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Publically Available Datasets
ABCA1 haplodeficiency affects the brain transcriptome following traumatic brain injury in mice expressing human APOE isoforms.
Acta Neuropathologica Communications 2018 Jul 26; 6(1):69.
DOI:10.1186/s40478-018-0569-2 PMID:6062955 GEO:GSE109152
Integrated approach reveals diet, APOE genotype and sex affect immune response in APP mice.
Biochimica et Biophysica Acta (BBA) - Molecular Basis of Disease 2018 Jan; 1864(1):152-161.
DOI:10.1016/j.bbadis.2017.10.018 PMID:5714325 GEO:GSE109152
Gene co-expression networks identify Trem2 and Tyrobp as major hubs in human APOE expressing mice following traumatic brain injury.
Neurobiology of Disease 2017 Sep; 105:1-14.
DOI:10.1016/j.nbd.2017.05.006 PMID:5530876 GEO:GSE102014
RNA-sequencing reveals transcriptional up-regulation of Trem2 in response to bexarotene treatment.
Neurobiology of Disease 2015 Oct 15; 82:132-40.
DOI:10.1016/j.nbd.2015.05.019 PMID:4640940 GEO:GSE77569
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