Table 2.

Genotype-dependent DEGs (HET vs WT): DEGs with positive PMI score, ranked in terms of their PMI text-mining association scores with the MeSH term “Parkinson Disease”

Age	Gene symbol	PMI	Protein name	Cell type	Gene symbol	Protein name	Cell type	Direction	log2
	(human)	score	(human)	(human)	(mouse)	(mouse)	(mouse)		FC
3M (top 10)	TMEM230	5.706	Transmembrane protein 230	Neurons	Tmem230	Transmembrane protein 230	Oligodendrocytes	Up	0.100
	RILPL1	5.557	RILP-like protein 1	Astrocytes	Rilpl1	RILP-like protein 1	Microglia	Up	0.159
	TMEM175	5.403	Endosomal /lysosomal potassium channel TMEM175	Astrocytes	Tmem175	Uncharacterized protein	Astrocytes	Up	0.076
	QSER1	4.576	Glutamine and serine-rich protein 1	Astrocytes	Qser1	Uncharacterized protein	Astrocytes	Down	− 0.120
	FAM168B	4.353	Myelin-associated neurite-outgrowth inhibitor (Mani) (p20)	Neurons	Fam168b	Myelin-associated neurite-outgrowth inhibitor	Neurons	Up	0.119
	PSMC4	4.016	26S proteasome regulatory subunit 6B	Microglia	Psmc4	AAA domain-containing protein	Endothelial	Up	0.147
	IDH3G	3.765	Isocitrate dehydrogenase (NAD) subunit, mitochondrial	Astrocytes	Idh3g	Isocitrate dehydrogenase (NAD) subunit, mitochondrial	Microglia	Up	0.108
	B4GALNT1	3.685	Beta-1,4-N-acetyl-galactosaminyl transferase 1 isoform d	Neurons	B4galnt1	Beta-1,4 N-acetyl-galactosaminyl transferase 1	Microglia	Up	0.114
	COPZ1	3.660	Alternative protein COPZ1	Neurons	Copz1	Coatomer subunit zeta-1	Microglia	Up	0.109
	SCAMP5	3.660	Secretory carrier-associated membrane protein	Neurons	Scamp5	Secretory carrier-associated membrane protein	Oligodendrocytes	Up	0.079
9M	OMD	3.863	Osteomodulin	Endothelial	Omd	Omd protein	Pan-cellular	Up	0.113
13M	no DEGs

Protein names were extracted from Uniprot database (https://www.uniprot.org/) [119]; the brain cell type where the genes show the highest expression was extracted from the Brain RNAseq database (https://www.brainrnaseq.org/) [133]