PsyMuKB

PPI network (data source: BioGrid)

A gene is determined as “expressed” when its expression values are above the pre-determined cutoff, which is the mean normalized expression(base 2 log of (TPM+1)) +1 in all brain tissue from GTEx v7 or BrainSpan data.

A protein is determined as “expressed” when its expression values are above the pre-determined cutoff, which is the normalized expression (base 10 log of iBAQ intensity) ≥0.5 in at least one brain tissue from ProteomicsDB data. Otherwise, a gene or protein is determined as either with below-cutoff expressions or no available data.

	The queried gene/protein
	The interacting partner is expressed at mRNA-level
	The interacting partner is expressed at protein-level
	The interacting partner is expressed at both mRNA and protein level
	The interacting partner is with either below-cutoff expressions or no expression data at both mRNA and protein level
	The interacting partner is hit by coding DNMs
	Physical interaction between queried gene/protein and its partner
	Physical interaction between two interacting partners

Symbol A	GeneA coding DNM count	Symbol B	GeneB coding DNM count	Interaction detection method	Publication	Evidence
NKX3-1	2	TPT1	1	two hybrid	Wang X (2008)	1
NKX3-1	2	RABL6	3	two hybrid	Wang X (2008)	1
NKX3-1	2	SP1	0	two hybrid	Simmons SO (2006)	1
SPDEF	2	NKX3-1	2	affinity chromatography technology, two hybrid, two hybrid	Chen H (2002), Chen H (2002), Wang X (2008)	3
SRF	1	NKX3-1	2	affinity chromatography technology	Carson JA (2000)	1
NKX3-1	2	HMG20B	2	two hybrid	Wang X (2008)	1
CCT7	2	WDR77	2	affinity chromatography technology	Huttlin EL (2017)	1
NKX3-1	2	CENPX	1	two hybrid	Wang X (2008)	1
SP4	4	SP1	0	genetic interference	Hagen G (1995)	1
NKX3-1	2	TOP1	1	affinity chromatography technology, pull down, affinity chromatography technology	Bowen C (2007), Bowen C (2007), Bowen C (2007)	3
NKX3-1	2	CCT7	2	two hybrid	Wang X (2008)	1
NKX3-1	2	MNAT1	0	two hybrid	Wang X (2008)	1
SP1	0	MNAT1	0	affinity chromatography technology	Chuang JY (2012)	1
NKX3-1	2	RARG	2	two hybrid	Wang X (2008)	1
HNRNPA0	1	RPSA	2	biochemical	Havugimana PC (2012)	1
NKX3-1	2	SP3	4	two hybrid	Simmons SO (2006)	1
HDAC1	4	HMG20B	2	affinity chromatography technology, biochemical, affinity chromatography technology, affinity chromatography technology, affinity chromatography technology, affinity chromatography technology, affinity chromatography technology, affinity chromatography technology, affinity chromatography technology	Hakimi MA (2002), Hakimi MA (2002), Hakimi MA (2002), Hakimi MA (2002), Bantscheff M (2011), Joshi P (2013), Huttlin EL (2015), Hein MY (2015), Huttlin EL (2017)	9
FAM136A	1	NKX3-1	2	affinity chromatography technology	Huttlin EL (2017)	1
SP4	4	SP3	4	genetic interference	Hagen G (1995)	1
TOPORS	6	NKX3-1	2	pull down, enzymatic study	Guan B (2008), Guan B (2008)	2
RPL37A	0	RPSA	2	biochemical, biochemical	Havugimana PC (2012), Wan C (2015)	2
NKX3-1	2	TEX264	0	two hybrid	Wang X (2008)	1
NKX3-1	2	AEN	0	two hybrid	Wang X (2008)	1
SP1	0	SRF	1	pull down	Biesiada E (1999)	1
NKX3-1	2	FEM1B	1	two hybrid	Wang X (2008)	1
NKX3-1	2	SP4	4	two hybrid	Simmons SO (2006)	1
NKX3-1	2	CHPF	1	two hybrid	Wang X (2008)	1
NKX3-1	2	ND4	0	two hybrid	Wang X (2008)	1
SP3	4	HDAC1	4	affinity chromatography technology, affinity chromatography technology, affinity chromatography technology, affinity chromatography technology, affinity chromatography technology, affinity chromatography technology, affinity chromatography technology, affinity chromatography technology	Sun JM (2002), Goto T (2006), Choi HS (2002), Choi HS (2002), Walker GE (2001), Walker GE (2001), Enya K (2008), Wooten-Blanks LG (2007)	8
NKX3-1	2	HSP90B1	3	two hybrid	Wang X (2008)	1
NKX3-1	2	LMCD1	0	two hybrid	Wang X (2008)	1
NKX3-1	2	STMN3	0	two hybrid	Wang X (2008)	1
NKX3-1	2	PTMS	2	two hybrid	Wang X (2008)	1
NKX3-1	2	CKAP4	0	two hybrid	Wang X (2008)	1
TOPORS	6	TOP1	1	affinity chromatography technology, two hybrid, enzymatic study, enzymatic study	Haluska P (1999), Haluska P (1999), Pelisch F (2010), Hammer E (2007)	4
NKX3-1	2	RPSA	2	two hybrid	Wang X (2008)	1
NKX3-1	2	KAT2B	2	affinity chromatography technology, affinity chromatography technology	Mogal AP (2007), Mogal AP (2007)	2
NKX3-1	2	RPL37A	0	two hybrid	Wang X (2008)	1
NKX3-1	2	MAN2B1	6	two hybrid	Wang X (2008)	1
NKX3-1	2	SP5	4	two hybrid	Simmons SO (2006)	1
HDAC1	4	CCT7	2	affinity chromatography technology, affinity chromatography technology	Hein MY (2015), Huttlin EL (2017)	2
NKX3-1	2	HNRNPA0	1	two hybrid	Wang X (2008)	1
SP3	4	SP1	0	affinity chromatography technology, affinity chromatography technology, affinity chromatography technology, affinity chromatography technology, affinity chromatography technology, affinity chromatography technology, pull down, pull down, pull down, affinity chromatography technology, affinity chromatography technology, pull down	Goto T (2006), Goto T (2006), Choi HS (2002), Choi HS (2002), Walker GE (2001), Walker GE (2001), Xu Q (2000), Tang S (2004), Kwon JH (2003), Syddall CM (2013), Syddall CM (2013), Syddall CM (2013)	12
HDAC1	4	NKX3-1	2	affinity chromatography technology, affinity chromatography technology	Lei Q (2006), Lei Q (2006)	2
SP1	0	HDAC1	4	affinity chromatography technology, affinity chromatography technology, affinity chromatography technology, affinity chromatography technology, affinity chromatography technology, affinity chromatography technology, affinity chromatography technology, affinity chromatography technology, affinity chromatography technology, pull down, affinity chromatography technology, affinity chromatography technology, affinity chromatography technology, two hybrid, pull down, affinity chromatography technology, affinity chromatography technology, affinity chromatography technology, affinity chromatography technology, affinity chromatography technology, affinity chromatography technology, affinity chromatography technology, affinity chromatography technology, affinity chromatography technology, affinity chromatography technology, affinity chromatography technology, affinity chromatography technology, affinity chromatography technology, affinity chromatography technology, affinity chromatography technology, affinity chromatography technology, affinity chromatography technology, affinity chromatography technology	Di Padova M (2003), Singh J (2002), Zhang Y (2002), Sun JM (2002), Gao J (2009), Shon JK (2009), Mottet D (2009), Goto T (2006), Hung JJ (2006), Lagger G (2003), Choi HS (2002), Choi HS (2002), Kang JE (2005), Kang JE (2005), Kang JE (2005), Gan Y (2005), Gan Y (2005), Duan H (2005), Varshochi R (2005), Varshochi R (2005), Plaisance V (2005), Walker GE (2001), Walker GE (2001), Ammanamanchi S (2004), Doetzlhofer A (1999), Sekhavat A (2007), Liu T (2007), Enya K (2008), Liu S (2010), Leclerc GJ (2010), Leclerc GJ (2010), Wong CY (2011), Schnur N (2007)	33
NKX3-1	2	PEBP1	0	two hybrid	Wang X (2008)	1
NKX3-1	2	SP2	3	two hybrid	Simmons SO (2006)	1
WDR77	2	NKX3-1	2	pull down	Hosohata K (2003)	1