Meta-analysis of mouse transcriptomic studies supports a context-dependent astrocyte reaction in acute CNS injury versus neurodegeneration

Table 2 Summary of publicly available human neurodegenerative transcriptomic datasets used in this study

Label	Comparison	N	Sample type	RNA method	CNS region	Accession #	Ref.
AD-DLPC	AD (Braak V/VI) vs CTRL (Braak 0/I/II)	140/112	Bulk tissue	RNA-seq	Dorsolateral prefrontal cortex	syn3505720	[32]
AD-PHG	AD (Braak V/VI) vs CTRL (Braak 0/I/II)	62/79	Bulk tissue	RNA-seq	Parahippocampal gyrus	syn5898488	[33]
AD-astro1	AD (Braak V/VI) vs CTRL (Braak 0/I/II)	6/6	LCM of GFAP+ astrocytes	Microarray	Lateral temporal cortex	GDS4135	[34]
AD-astro2	AD (Braak V/VI) vs CTRL (Braak 0/I/II)	7/12	FACS with GFAP Ab	RNA-seq	Superior frontal gyrus	GSE125050	Friedman, Hansen (unpublished)
PD-SN	PD vs CTRL	3/3	Bulk tissue	Microarray	Substantia nigra	GSE54282	[35]
PD-Str	PD vs CTRL	6/6	Bulk tissue	Microarray	Striatum	GSE54282	[35]
ALS-SC	SALS vs CTRL	5/4	Bulk tissue	Microarray	Spinal cord gray matter	GSE833	[36]

Abbreviations: Ab antibody, AD Alzheimer’s disease, ALS amyotrophic lateral sclerosis, CNS central nervous system, CTRL control, DLPC dorsolateral prefrontal cortex, FACS fluorescence-activated cell sorting, GFAP glial fibrillary acidic protein, LCM laser capture microdissection, PD Parkinson’s disease, PHG parahippocampal gyrus, SALS sporadic ALS, SC spinal cord, SN substantia nigra, Str striatum

ISSN: 1742-2094