RNA-Seq Data Mining: Downregulation of NeuroD6 Serves as a Possible Biomarker for Alzheimer’s Disease Brains

Table 2

The set of 15 genes DEGs downregulated in cortical neurons of the superior frontal gyrus of AD identified by microarray data analysis of GSE5281 corresponding to RNA-Seq data analysis of SRA060752.

Entrez Gene; ID	Gene symbol	Gene name	Fold change; (AD versus NC)	value
116	ADCYAP1	Adenylate cyclase activating polypeptide 1 (pituitary)	0.069636923
6750	SST	Somatostatin	0.078547047
10777	ARPP21	cAMP-regulated phosphoprotein, 21 kDa	0.1474134
6511	SLC1A6	Solute carrier family 1 (high affinity aspartate/glutamate transporter), member 6	0.156759363
728192	LINC00460	Long intergenic non-protein-coding RNA 460	0.171656016
891	CCNB1	Cyclin B1	0.182817517
523	ATP6V1A	ATPase, H+ transporting, lysosomal 70 kDa, V1 subunit A	0.190442377
7991	TUSC3	Tumor suppressor candidate 3	0.200399391
1741	DLG3	Discs, large homolog 3 (Drosophila)	0.222930685
63974	NeuroD6	Neurogenic differentiation 6	0.237572737
3382	ICA1	Islet cell autoantigen 1, 69 kDa	0.249762845
844	CASQ1	Calsequestrin 1 (fast-twitch, skeletal muscle)	0.271852315
9577	BRE	Brain and reproductive organ-expressed (TNFRSF1A modulator)	0.306075086
84900	RNFT2	Ring finger protein, transmembrane 2	0.306171729
9515	STXBP5L	Syntaxin binding protein 5-like	0.360338998

The set of 215 DEGs in LCM-captured frontal cortex neurons of AD satisfying value <0.0001 by two-tailed -test and fold change greater than 2 or smaller than 0.5 were extracted by microarray data analysis of GSE5281. Among them, the set of 15 genes corresponding to the core set of 522 DEGs identified by RNA-Seq data analysis of SRA060572 are listed with Entrez Gene ID, gene symbol, gene name, fold change, and value. NeuroD6 is italicized. The complete set of 215 DEGs are shown in Supplementary Table  3.