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
XRCC4	0	ALDH7A1	0	affinity chromatography technology, affinity chromatography technology	Huttlin EL (2015), Huttlin EL (2017)	2
PNKP	3	LIG4	0	affinity chromatography technology, affinity chromatography technology	Ewing RM (2007), Koch CA (2004)	2
CSNK2A1	15	PRKDC	12	affinity chromatography technology, imaging technique, affinity chromatography technology	Olsen BB (2012), Olsen BB (2012), Olsen BB (2012)	3
XRCC4	0	DNAJC9	0	affinity chromatography technology	Boldt K (2016)	1
XRCC4	0	LIG4	0	two hybrid, affinity chromatography technology, x-ray crystallography, affinity chromatography technology, pull down, biochemical, affinity chromatography technology, pull down, two hybrid, affinity chromatography technology, affinity chromatography technology	Deshpande RA (2007), Deshpande RA (2007), Sibanda BL (2001), Drouet J (2005), Huang J (2002), Nick McElhinny SA (2000), Wang YG (2004), Wang YG (2004), Rolland T (2014), Huttlin EL (2015), Huttlin EL (2017)	11
BIN1	2	XRCC6	3	biochemical	Ramalingam A (2007)	1
HSDL2	0	XRCC4	0	affinity chromatography technology	Boldt K (2016)	1
CSNK2A1	15	CALM1	0	enzymatic study, pull down, enzymatic study	Meggio F (1987), Benitez MJ (2001), Llorens F (2003)	3
LIG4	0	KIF3A	4	two hybrid	Woods NT (2012)	1
ACTN1	5	XRCC4	0	two hybrid	Rual JF (2005)	1
CHD3	19	VIM	0	two hybrid	Goehler H (2004)	1
CALM1	0	DDX5	2	pull down, affinity chromatography technology	Shen X (2005), Jang DJ (2007)	2
APLF	3	XRCC6	3	affinity chromatography technology, affinity chromatography technology, affinity chromatography technology	Huttlin EL (2015), Gibbs-Seymour I (2016), Huttlin EL (2017)	3
FYTTD1	2	XRCC4	0	affinity chromatography technology	Huttlin EL (2017)	1
XRCC4	0	XRCC5	5	affinity chromatography technology, affinity chromatography technology	Drouet J (2005), Drouet J (2005)	2
VPS41	3	XRCC4	0	biochemical	Havugimana PC (2012)	1
PRKDC	12	XRCC6	3	affinity chromatography technology, affinity chromatography technology, affinity chromatography technology, affinity chromatography technology, affinity chromatography technology, biochemical, enzymatic study, enzymatic study, affinity chromatography technology	Shao RG (1999), Drouet J (2005), Gottlieb TM (1993), Shamanna RA (2011), Shamanna RA (2011), Havugimana PC (2012), Sartorius CA (2000), Sartorius CA (2000), Hein MY (2015)	9
DENR	2	XRCC4	0	biochemical	Havugimana PC (2012)	1
SETMAR	3	XRCC4	0	affinity chromatography technology	Hromas R (2008)	1
NHEJ1	0	LIG4	0	affinity chromatography technology	Deshpande RA (2007)	1
MTMR7	0	XRCC4	0	affinity chromatography technology	Li X (2016)	1
XRCC4	0	LONRF2	0	affinity chromatography technology, affinity chromatography technology	Huttlin EL (2015), Huttlin EL (2017)	2
MED4	2	KIF3A	4	bioid	Lambert JP (2015)	1
XRCC5	5	NBN	1	affinity chromatography technology	Falck J (2005)	1
LIG4	0	APLF	3	pull down, affinity chromatography technology, affinity chromatography technology	Kanno S (2007), Huttlin EL (2015), Huttlin EL (2017)	3
XRCC4	0	APPBP2	3	affinity chromatography technology, affinity chromatography technology	Huttlin EL (2015), Huttlin EL (2017)	2
ERG	1	DDX5	2	affinity chromatography technology	Brenner JC (2011)	1
CWC27	1	XRCC4	0	biochemical	Havugimana PC (2012)	1
APTX	3	XRCC4	0	two hybrid, affinity chromatography technology, affinity chromatography technology	Lim J (2006), Huttlin EL (2015), Huttlin EL (2017)	3
DDX5	2	PRKDC	12	biochemical	Havugimana PC (2012)	1
CHD3	19	DDX5	2	affinity chromatography technology	Carter CL (2010)	1
XRCC5	5	PRKDC	12	pull down, affinity chromatography technology, pull down, affinity chromatography technology, affinity chromatography technology, affinity chromatography technology, pull down, affinity chromatography technology, imaging technique, affinity chromatography technology, enzymatic study, enzymatic study, affinity chromatography technology, affinity chromatography technology, x-ray crystallography, biochemical, affinity chromatography technology	Jin S (1997), Matheos D (2002), Gell D (1999), Drouet J (2005), Falck J (2005), Falck J (2005), Falck J (2005), Olsen BB (2012), Olsen BB (2012), Sand-Dejmek J (2011), Sartorius CA (2000), Sartorius CA (2000), Drouet J (2006), Drouet J (2006), Sibanda BL (2010), Wan C (2015), Hein MY (2015)	17
PRKDC	12	LIG4	0	unspecified method, affinity chromatography technology, enzymatic study	Kim ST (1999), Wang YG (2004), Wang YG (2004)	3
XRCC4	0	PRKDC	12	affinity chromatography technology, biochemical, affinity chromatography technology	Drouet J (2005), Havugimana PC (2012), Wang YG (2004)	3
SRP54	0	XRCC4	0	biochemical	Havugimana PC (2012)	1
DNPEP	2	XRCC4	0	affinity chromatography technology	Boldt K (2016)	1
DNPEP	2	KIF3A	4	affinity chromatography technology	Boldt K (2016)	1
XRCC5	5	XRCC6	3	two hybrid, biochemical, two hybrid, pull down, affinity chromatography technology, pull down, 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, x-ray crystallography, affinity chromatography technology, affinity chromatography technology, biochemical, affinity chromatography technology, affinity chromatography technology, affinity chromatography technology, affinity chromatography technology, biochemical, enzymatic study, enzymatic study, x-ray crystallography, affinity chromatography technology, pull down, biochemical, pull down, biochemical, affinity chromatography technology, affinity chromatography technology, affinity chromatography technology, affinity chromatography technology, imaging technique, imaging technique, affinity chromatography technology, affinity chromatography technology	Gell D (1999), Barlev NA (1998), Yang CR (1999), Singleton BK (1999), Song K (2000), Gell D (1999), Gell D (1999), Willis DM (2002), Willis DM (2002), Drouet J (2005), Drouet J (2005), Cohen HY (2004), Lan L (2010), Cooper MP (2000), Cooper MP (2000), Velma V (2010), Zheng Y (2011), Sucharov CC (2004), Sucharov CC (2004), Sibani S (2005), Sibani S (2005), Walker JR (2001), Nick McElhinny SA (2000), Nick McElhinny SA (2000), Sand-Dejmek J (2011), Sand-Dejmek J (2011), Sand-Dejmek J (2011), Pucci S (2009), Trougakos IP (2009), Havugimana PC (2012), Sartorius CA (2000), Sartorius CA (2000), Rivera-Calzada A (2007), Kelavkar UP (2001), Kelavkar UP (2001), Kristensen AR (2012), Kim E (2008), Wan C (2015), Hein MY (2015), Hein MY (2015), Nolens G (2009), Nolens G (2009), Nolens G (2009), Nolens G (2009), Huttlin EL (2017), Fantini D (2017)	46
NBN	1	PRKDC	12	pull down, affinity chromatography technology	Falck J (2005), Falck J (2005)	2
CALM1	0	BIN1	2	affinity chromatography technology	Myers MD (2016)	1
XRCC4	0	IFFO1	0	two hybrid, affinity chromatography technology, affinity chromatography technology	Rual JF (2005), Huttlin EL (2015), Huttlin EL (2017)	3
NUDT21	0	VIM	0	biochemical	Havugimana PC (2012)	1
CSNK2A1	15	USP7	14	enzymatic study, enzymatic study	Carra G (2017), Khoronenkova SV (2012)	2
PRKDC	12	SRP54	0	biochemical	Havugimana PC (2012)	1
XRCC4	0	ASTE1	1	two hybrid	Rolland T (2014)	1
ERG	1	XRCC5	5	affinity chromatography technology, affinity chromatography technology	Brenner JC (2011), Brenner JC (2011)	2
CSNK2A1	15	XRCC5	5	enzymatic study	Olsen BB (2010)	1
XRCC6	3	LIG4	0	affinity chromatography technology, affinity chromatography technology, affinity chromatography technology, affinity chromatography technology	Drouet J (2005), Nick McElhinny SA (2000), Woods NT (2012), Hein MY (2015)	4
USP7	14	KIF3A	4	affinity chromatography technology	Sowa ME (2009)	1
ERG	1	XRCC4	0	affinity chromatography technology, affinity chromatography technology	Brenner JC (2011), Brenner JC (2011)	2
ERG	1	PRKDC	12	affinity chromatography technology, affinity chromatography technology, affinity chromatography technology, pull down	Brenner JC (2011), Brenner JC (2011), Wang S (2014), Wang S (2014)	4
XRCC4	0	VIM	0	two hybrid	Stelzl U (2005)	1
XRCC5	5	APLF	3	pull down, affinity chromatography technology, affinity chromatography technology	Kanno S (2007), Huttlin EL (2015), Huttlin EL (2017)	3
DNAJC9	0	KIF3A	4	affinity chromatography technology	Boldt K (2016)	1
XRCC5	5	LIG4	0	affinity chromatography technology, affinity chromatography technology	Drouet J (2005), Nick McElhinny SA (2000)	2
NF2	1	XRCC4	0	affinity chromatography technology	Zhou L (2015)	1
HSDL2	0	DNAJC9	0	affinity chromatography technology	Boldt K (2016)	1
USP7	14	XRCC4	0	biochemical	Havugimana PC (2012)	1
HSDL2	0	KIF3A	4	affinity chromatography technology	Boldt K (2016)	1
XRCC4	0	CHD3	19	two hybrid	Stelzl U (2005)	1
XRCC4	0	XRCC6	3	affinity chromatography technology, affinity chromatography technology, affinity chromatography technology	Drouet J (2005), Drouet J (2005), Hein MY (2015)	3
CSNK2A1	15	XRCC6	3	enzymatic study	Olsen BB (2010)	1
XRCC4	0	FAM9B	0	two hybrid	Rolland T (2014)	1
PNKP	3	XRCC6	3	affinity chromatography technology	Koch CA (2004)	1
NBN	1	XRCC4	0	two hybrid	Matsuzaki K (2008)	1
CSNK2A1	15	XRCC4	0	enzymatic study	Koch CA (2004)	1
RNF135	1	XRCC4	0	affinity chromatography technology	Huttlin EL (2017)	1
MED4	2	NBN	1	bioid	Lambert JP (2015)	1
APLF	3	XRCC4	0	affinity chromatography technology, affinity chromatography technology	Huttlin EL (2015), Huttlin EL (2017)	2
SINHCAF	0	XRCC4	0	affinity chromatography technology	Huttlin EL (2017)	1
PNKP	3	XRCC4	0	affinity chromatography technology, pull down, affinity chromatography technology, affinity chromatography technology, affinity chromatography technology	Ewing RM (2007), Koch CA (2004), Koch CA (2004), Huttlin EL (2015), Huttlin EL (2017)	5
XRCC4	0	NHEJ1	0	two hybrid, two hybrid, affinity chromatography technology	Deshpande RA (2007), Deshpande RA (2007), Deshpande RA (2007)	3
XRCC4	0	KIF3A	4	affinity chromatography technology	Boldt K (2016)	1
BIN1	2	XRCC5	5	biochemical	Ramalingam A (2007)	1
DNPEP	2	DNAJC9	0	affinity chromatography technology	Boldt K (2016)	1
PNKP	3	PRKDC	12	affinity chromatography technology	Koch CA (2004)	1
PNKP	3	XRCC5	5	affinity chromatography technology	Koch CA (2004)	1
XRCC4	0	IFFO2	0	affinity chromatography technology, affinity chromatography technology	Huttlin EL (2015), Huttlin EL (2017)	2
HSDL2	0	DNPEP	2	affinity chromatography technology	Boldt K (2016)	1
APTX	3	KIF3A	4	affinity chromatography technology	Huttlin EL (2017)	1
CALM1	0	XRCC4	0	pull down	Shen X (2005)	1
MED4	2	XRCC4	0	affinity chromatography technology	Lambert JP (2015)	1
NF2	1	XRCC5	5	affinity chromatography technology	Zhou L (2015)	1
NUDT21	0	XRCC4	0	biochemical	Havugimana PC (2012)	1
NF2	1	XRCC6	3	affinity chromatography technology	Zhou L (2015)	1
CHD3	19	CSNK2A1	15	affinity chromatography technology	Sun JM (2007)	1
NF2	1	DNPEP	2	affinity chromatography technology	Zhou L (2015)	1
PRKDC	12	CWC27	1	biochemical	Havugimana PC (2012)	1
XRCC4	0	XRCC4	0	two hybrid, two hybrid, two hybrid, x-ray crystallography	Deshpande RA (2007), Stelzl U (2005), Rolland T (2014), Junop MS (2000)	4
NF2	1	PNKP	3	affinity chromatography technology	Zhou L (2015)	1
DDX5	2	XRCC4	0	biochemical	Havugimana PC (2012)	1
CAAP1	0	XRCC4	0	two hybrid	Stelzl U (2005)	1
XRCC4	0	NFKB1	2	affinity chromatography technology, affinity chromatography technology	Huttlin EL (2015), Huttlin EL (2017)	2
XRCC4	0	BIN1	2	unspecified method, pull down, two hybrid	Grelle G (2006), Grelle G (2006), Grelle G (2006)	3
ERG	1	XRCC6	3	affinity chromatography technology, affinity chromatography technology	Brenner JC (2011), Brenner JC (2011)	2