Table 1.

Biological processes enriched for brain disorders. Gene ontologies detected in H-MAGMA but not in cMAGMA are marked in bold.

	ADHD	ASD	BD	SCZ	MDD	AD	PD	MS	ALS
Transcriptional regulators	✓	✓	✓	✓	✓	✓	✓	✓	✓
DNA damage/repair	✓	✓	✓	✓	✓	✓	✓	-	✓
RNA splicing	✓	✓	✓	✓	✓	✓	✓	✓	✓
Neurogenesis	✓	-	-	✓	✓	✓	✓	✓	✓
Neuronal differentiation	✓	✓	✓	✓	✓	✓	✓	✓	✓
Neuronal apoptosis	✓	✓	✓	✓	✓	✓	✓	✓	✓
Glutamatergic	✓	✓	✓	✓	✓	✓	✓	✓	✓
GABAergic	-	✓	✓	✓	-	-	-	-	✓
Synaptic	Pre/Post	Post	Post	Pre/Post	Pre/Post	Post	Post	Pre/Post	Post
Neurotransmitter	Dopamine Serotonin Acetylcholine Monoamine Nitric oxide	Acetylcholine Nitric oxide Serotonin	Acetylcholine Nitric oxide	Dopamine Acetylcholine Nitric oxide	Monoamine	--	Nitric oxide Norepinephrine	Dopamine	-
Glial/Astrocytes	Differentiation	Development Gliogenesis	Gliogenesis	-	Astrocyte development Glial guided migration	Differentiation Migration Proliferation	Differentiation Proliferation	Projection Migration Proliferation	Migration
Oligodendrocytes	-	✓	-	✓	✓	✓Myelination	✓Myelination	✓Myelination	✓Myelination
Brain development	Cerebral cortex	Telencephalon	Hippocampus Substantia Nigra Telencephalon	-	Cerebral cortex Telencephalon Substantia nigra	Forebrain Cerebral cortex	Forebrain Limbic system Midbrain Telencephalon	Cerebral cortex Hypothalamus Forebrain	Hindbrain Forebrain Substantia nigra
Interferon	✓	-	✓	✓	✓	✓	✓	✓	✓
Antigen processing	✓	✓	✓	✓	-	✓	✓	✓	✓
Interleukin	✓	✓	✓	✓	✓	✓	✓	✓	✓
Cytokine	-	✓	-	✓	✓	✓	✓	✓	-
T cell	✓	✓	✓	✓	✓	✓	✓	✓	✓
B cell	-	✓	-	✓	-	✓	-	-	-
TLR	✓	✓	✓	✓	✓	-	✓	-	✓
Aging	✓	✓	-	-	-	✓	-	-	✓
Ischemia	-	-	-	-	-	-	-	✓	✓
Others	ERBB	Vocalization Wnt BAF APP	Glucocorticoid APP Synaptic plasticity	Amyloid beta BAF Beta-catenin/Wnt ERBB	Beta-catenin ERBB	Amyloid beta ERBB Glucocorticoid	Wnt Amyloid beta ERBB Tau	ERBB2 Beta-catenin/Wnt Tau	Wnt