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
SMAD2	5	RUNX3	1	affinity chromatography technology	Hanai J (1999)	1
EP300	36	SMAD3	1	affinity chromatography technology, affinity chromatography technology, pull down, pull down, affinity chromatography technology, affinity chromatography technology, affinity chromatography technology, pull down, two hybrid, affinity chromatography technology, pull down, affinity chromatography technology, 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	Qiu P (2006), Furumatsu T (2005), Itoh S (2000), Akiyoshi S (1999), Abecassis L (2004), Kaimori A (2010), Janknecht R (1998), Janknecht R (1998), Nishihara A (1999), Nishihara A (1999), Furumatsu T (2005), Ghosh AK (2004), Shen X (1998), Shen X (1998), Ghosh AK (2001), Postigo AA (2003), Postigo AA (2003), Yang WS (2005), Lim JY (2012), Lim JY (2012), Jinnin M (2007), Wang G (2005)	22
SMAD5	2	RUNX3	1	affinity chromatography technology	Hanai J (1999)	1
PML	7	PIN1	0	affinity chromatography technology, affinity chromatography technology, affinity chromatography technology, pull down, affinity chromatography technology, affinity chromatography technology	Reineke EL (2008), Reineke EL (2008), Reineke EL (2010), Reineke EL (2010), Lim JH (2011), El Asmi F (2014)	6
SMAD5	2	YAP1	0	affinity chromatography technology, affinity chromatography technology	Alarcon C (2009), Alarcon C (2009)	2
SMAD5	2	HDAC1	4	affinity chromatography technology	Takeda M (2004)	1
PIN1	0	SMAD3	1	pull down, affinity chromatography technology, affinity chromatography technology, unspecified method, affinity chromatography technology, affinity chromatography technology, two hybrid	Nakano A (2009), Nakano A (2009), Nakano A (2009), Aragon E (2011), Matsuura I (2010), Matsuura I (2010), Wang J (2011)	7
PML	7	RUNX3	1	affinity chromatography technology	Nguyen LA (2005)	1
RUNX3	1	EP300	36	affinity chromatography technology, affinity chromatography technology	Jin YH (2004), Jin YH (2004)	2
SMURF2	3	SMURF1	4	affinity chromatography technology, affinity chromatography technology, affinity chromatography technology, affinity chromatography technology	Fukunaga E (2008), Fukunaga E (2008), Lee YS (2011), Huttlin EL (2017)	4
SMAD3	1	SUV39H1	0	affinity chromatography technology	Wakabayashi Y (2011)	1
EZH2	4	HDAC1	4	affinity chromatography technology, affinity chromatography technology, affinity chromatography technology, affinity chromatography technology, affinity chromatography technology, affinity chromatography technology, affinity chromatography technology, biochemical	van der Vlag J (1999), van der Vlag J (1999), Caretti G (2004), Tong ZT (2012), Tong ZT (2012), Su L (2012), Su L (2012), Wan C (2015)	8
EZH2	4	HOTAIR	0	unspecified method, unspecified method, affinity chromatography technology, unspecified method	Kaneko S (2010), Guil S (2012), Wang L (2013), Wu L (2013)	4
PIN1	0	SMAD2	5	pull down, affinity chromatography technology, affinity chromatography technology, affinity chromatography technology	Nakano A (2009), Nakano A (2009), Matsuura I (2010), Matsuura I (2010)	4
TLE1	6	HDAC1	4	pull down, affinity chromatography technology, affinity chromatography technology, affinity chromatography technology	Ahn JW (2009), Ahn JW (2009), Su L (2012), Su L (2012)	4
RUNX3	1	TLE1	6	two hybrid, far western blotting	Levanon D (1998), Levanon D (1998)	2
HDAC5	4	MYCN	2	affinity chromatography technology, affinity chromatography technology	Sun Y (2013), Sun Y (2013)	2
RUNX3	1	HOTAIR	0	affinity chromatography technology	Xue M (2018)	1
YAP1	0	SMAD2	5	affinity chromatography technology	Pefani DE (2016)	1
EP300	36	HDAC1	4	affinity chromatography technology, affinity chromatography technology, pull down, pull down, affinity chromatography technology, enzymatic study, affinity chromatography technology	Han Y (2008), Mayanil CS (2006), Simone C (2004), Simone C (2004), Simone C (2004), Liu Y (2012), Mizuguchi Y (2012)	7
RUNX3	1	FANCD2	3	affinity chromatography technology	Wang CQ (2014)	1
PML	7	EZH2	4	affinity chromatography technology	Villa R (2007)	1
NANOG	0	RUNX3	1	affinity chromatography technology	Oliviero G (2015)	1
RUNX3	1	RBPJ	1	affinity chromatography technology, affinity chromatography technology	Gao J (2010), Gao J (2010)	2
PHB2	1	HDAC5	4	pull down, affinity chromatography technology, affinity chromatography technology	Kurtev V (2004), Kurtev V (2004), Greco TM (2011)	3
MDM2	2	SUV39H1	0	affinity chromatography technology, affinity chromatography technology, affinity chromatography technology	Chen L (2010), Mungamuri SK (2016), Mungamuri SK (2016)	3
SIRT2	1	RUNX3	1	affinity chromatography technology, affinity chromatography technology	Kim WJ (2011), Kim WJ (2011)	2
MDM2	2	EZH2	4	affinity chromatography technology, affinity chromatography technology	Wienken M (2016), Wienken M (2016)	2
RUNX3	1	FANCI	1	affinity chromatography technology	Wang CQ (2014)	1
HDAC1	4	PML	7	pull down, affinity chromatography technology, affinity chromatography technology, affinity chromatography technology, two hybrid, pull down, pull down, affinity chromatography technology, imaging technique, affinity chromatography technology	Khan MM (2001), Khan MM (2001), Wu WS (2001), Wu WS (2001), Wu WS (2001), Wu WS (2001), Wu WS (2001), Morey L (2008), Kuo HY (2013), Kim YE (2015)	10
SMAD2	5	SMURF2	3	two hybrid, pull down, affinity chromatography technology, affinity chromatography technology, affinity chromatography technology, affinity chromatography technology, two hybrid, affinity chromatography technology, affinity chromatography technology, pull down, affinity chromatography technology, two hybrid, two hybrid, affinity chromatography technology, affinity chromatography technology, affinity chromatography technology	Lin X (2000), Lin X (2000), Bonni S (2001), Nakano A (2009), Komuro A (2004), Zhang Y (2001), Zhang Y (2001), Runyan CE (2009), Runyan CE (2009), Chong PA (2010), Brown KA (2008), Colland F (2004), Colland F (2004), Zhang Y (2017), Zhou F (2017), Zhou F (2017)	16
SMAD2	5	SMAD5	2	affinity chromatography technology	Brown KA (2008)	1
RUNX3	1	MYCN	2	affinity chromatography technology, affinity chromatography technology, pull down, pull down	Yu F (2014), Yu F (2014), Yu F (2014), Yu F (2014)	4
MEX3B	1	HOTAIR	0	affinity chromatography technology, affinity chromatography technology	Yoon JH (2013), Zhang H (2016)	2
DZIP3	6	HOTAIR	0	affinity chromatography technology, unspecified method	Yoon JH (2013), Yoon JH (2013)	2
SIRT2	1	EP300	36	enzymatic study, affinity chromatography technology, affinity chromatography technology, enzymatic study, enzymatic study	Black JC (2008), Han Y (2008), Han Y (2008), Han Y (2008), Delvecchio M (2013)	5
HDAC1	4	DZIP3	6	affinity chromatography technology	Zhou W (2008)	1
RUNX3	1	EZH2	4	affinity chromatography technology, affinity chromatography technology	Ciavatta DJ (2010), Ciavatta DJ (2010)	2
YAP1	0	PML	7	affinity chromatography technology, affinity chromatography technology	Lapi E (2008), Lapi E (2008)	2
SMAD3	1	SMURF2	3	two hybrid, pull down, affinity chromatography technology, affinity chromatography technology, affinity chromatography technology, affinity chromatography technology, two hybrid, affinity chromatography technology, affinity chromatography technology, affinity chromatography technology, affinity chromatography technology, affinity chromatography technology	Lin X (2000), Lin X (2000), Bonni S (2001), Nakano A (2009), Komuro A (2004), Zhang Y (2001), Zhang Y (2001), Tang LY (2011), Brown KA (2008), Zhang L (2013), Li Y (2017), Zhang Y (2017)	12
PIN1	0	EP300	36	pull down	Yi P (2005)	1
RUNX3	1	MEX3B	1	affinity chromatography technology	Xue M (2018)	1
RUNX3	1	79104	0	affinity chromatography technology	Xue M (2018)	1
SMAD3	1	HDAC1	4	two hybrid, pull down	Liberati NT (2001), Akiyoshi S (1999)	2
HDAC5	4	SUV39H1	0	affinity chromatography technology	Zhang CL (2002)	1
SMAD2	5	SMURF1	4	affinity chromatography technology, affinity chromatography technology, two hybrid	Komuro A (2004), Ito I (2010), Colland F (2004)	3
SMAD1	0	RUNX3	1	affinity chromatography technology	Hanai J (1999)	1
RUNX3	1	100750247	0	affinity chromatography technology	Xue M (2018)	1
RUNX3	1	SMURF2	3	affinity chromatography technology	Jin YH (2004)	1
SMAD3	1	SMAD1	0	affinity chromatography technology, two hybrid, two hybrid	Brown KA (2008), Wu RY (1997), Wu RY (1997)	3
NOTCH1	25	RBPJ	1	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, biochemical, affinity chromatography technology, affinity chromatography technology, affinity chromatography technology, imaging technique, affinity chromatography technology, affinity chromatography technology, affinity chromatography technology, affinity chromatography technology, affinity chromatography technology, affinity chromatography technology, affinity chromatography technology, affinity chromatography technology	Nam Y (2003), Aster JC (1997), Aster JC (1997), Gao J (2010), Gao J (2010), Kim MY (2007), Kim MY (2007), Popko-Scibor AE (2011), Mo JS (2007), Kim MY (2011), Kim MY (2011), Yatim A (2012), Yatim A (2012), Choi YH (2013), Jeffries S (2002), Jeffries S (2002), Jeffries S (2002), Kitagawa M (2001), Cho S (2011), Baek HJ (2015), Baek HJ (2015), Huttlin EL (2015), Hein MY (2015), Li X (2015), Huttlin EL (2017), Tremblay CS (2009), Tremblay CS (2009)	27
YAP1	0	EP300	36	imaging technique	Strano S (2005)	1
RUNX3	1	285943	0	affinity chromatography technology	Xue M (2018)	1
HDAC1	4	PIN1	0	biochemical	Wan C (2015)	1
YAP1	0	PHB2	1	affinity chromatography technology	Enzo E (2015)	1
EP300	36	NANOG	0	affinity chromatography technology	Xie X (2014)	1
PHB2	1	HDAC1	4	affinity chromatography technology, pull down, pull down, affinity chromatography technology, imaging technique	Kurtev V (2004), Kurtev V (2004), Kurtev V (2004), Sun L (2004), Yoshimaru T (2013)	5
SMAD3	1	HDAC5	4	affinity chromatography technology, pull down	Kang JS (2005), Kang JS (2005)	2
FANCI	1	FANCD2	3	pull down, affinity chromatography technology, affinity chromatography technology, affinity chromatography technology, biochemical, two hybrid, affinity chromatography technology, affinity chromatography technology, fluorescent resonance energy transfe, pull down, imaging technique, affinity chromatography technology, pull down, biochemical, affinity chromatography technology, pull down, pull down, affinity chromatography technology, two hybrid, two hybrid	Yuan F (2009), Ishiai M (2008), Sims AE (2007), Rego MA (2012), Longerich S (2014), Polito D (2014), Wang D (2016), Oka Y (2015), Oka Y (2015), Oka Y (2015), Oka Y (2015), Unno J (2014), Long DT (2011), Sato K (2014), Sato K (2014), Takahashi D (2014), Gwon GH (2014), Lossaint G (2013), Siddiqui MQ (2017), Inano S (2017)	20
RUNX3	1	HDAC1	4	affinity chromatography technology	Jin YH (2004)	1
SMAD5	2	SMURF1	4	affinity chromatography technology, affinity chromatography technology, affinity chromatography technology, enzymatic study, affinity chromatography technology, affinity chromatography technology, affinity chromatography technology, pull down, unspecified method, two hybrid, two hybrid, enzymatic study	Lu K (2008), Komuro A (2004), Ebisawa T (2001), Nie J (2010), Alarcon C (2009), Murakami G (2003), Sangadala S (2007), Sangadala S (2007), Sangadala S (2007), Haag J (2006), Colland F (2004), Lu K (2008)	12
PHB2	1	RUNX3	1	affinity chromatography technology	Ewing RM (2007)	1
RUNX3	1	DZIP3	6	affinity chromatography technology	Xue M (2018)	1
SMAD3	1	SMURF1	4	affinity chromatography technology, two hybrid, affinity chromatography technology, affinity chromatography technology	Komuro A (2004), Colland F (2004), Li Y (2017), Li Y (2017)	4
SIRT2	1	MDM2	2	enzymatic study	Nihira NT (2017)	1
RUNX3	1	MDM2	2	affinity chromatography technology	Chi XZ (2009)	1
SMAD3	1	NOTCH1	25	pull down, affinity chromatography technology	Blokzijl A (2003), Blokzijl A (2003)	2
RUNX3	1	8847	0	affinity chromatography technology	Xue M (2018)	1
SMAD1	0	HDAC1	4	affinity chromatography technology	Takeda M (2004)	1
RUNX3	1	SMURF1	4	affinity chromatography technology	Jin YH (2004)	1
SMAD3	1	RUNX3	1	affinity chromatography technology, affinity chromatography technology, affinity chromatography technology	Hanai J (1999), Jin YH (2004), Kong Y (2016)	3
EP300	36	SMAD5	2	affinity chromatography technology, two hybrid	Jeon EJ (2006), Haag J (2006)	2
PIN1	0	YAP1	0	biochemical	Havugimana PC (2012)	1
EP300	36	SMAD2	5	affinity chromatography technology, affinity chromatography technology, affinity chromatography technology, two hybrid, affinity chromatography technology	Wotton D (1999), Pessah M (2001), Furumatsu T (2005), Wang J (2011), Suganuma T (2002)	5
PIN1	0	RUNX3	1	affinity chromatography technology	Nicole Tsang YH (2012)	1
PML	7	MDM2	2	affinity chromatography technology, pull down, affinity chromatography technology, pull down, pull down, affinity chromatography technology, pull down, affinity chromatography technology, affinity chromatography technology, enzymatic study, affinity chromatography technology, affinity chromatography technology, affinity chromatography technology	Bernardi R (2004), Bernardi R (2004), Zhu H (2003), Zhu H (2003), Kurki S (2003), Kurki S (2003), Wei X (2003), Wei X (2003), Wu Q (2009), Chu Y (2011), Yang Q (2013), Yang Q (2013), Bursac S (2012)	13
RUNX3	1	NOTCH1	25	affinity chromatography technology, affinity chromatography technology, pull down, imaging technique	Gao J (2010), Gao J (2010), Gao J (2010), Gao J (2010)	4
HDAC1	4	MDM2	2	affinity chromatography technology, pull down, affinity chromatography technology, affinity chromatography technology, imaging technique	Ito A (2002), Ito A (2002), Ito A (2002), Gaughan L (2005), Gaughan L (2005)	5
MDM2	2	SMURF1	4	pull down, affinity chromatography technology, affinity chromatography technology	Nie J (2010), Nie J (2010), Nie J (2010)	3
SMAD3	1	SMAD2	5	affinity chromatography technology, genetic interference, affinity chromatography technology, affinity chromatography technology, affinity chromatography technology, two hybrid, two hybrid, affinity chromatography technology, affinity chromatography technology, two hybrid, affinity chromatography technology, affinity chromatography technology	Nakao A (1997), Lebrun JJ (1999), Dumont E (2003), Brown KA (2008), Brown KA (2008), Wu RY (1997), Wu RY (1997), Tang Y (2003), Tang Y (2003), Wang J (2011), Huttlin EL (2015), Huttlin EL (2017)	12
SMAD3	1	YAP1	0	affinity chromatography technology	Alarcon C (2009)	1
RUNX3	1	HDAC5	4	affinity chromatography technology	Jin YH (2004)	1
RUNX3	1	MALAT1	0	affinity chromatography technology	Xue M (2018)	1
EZH2	4	TLE1	6	affinity chromatography technology, affinity chromatography technology	Su L (2012), Su L (2012)	2
SMAD2	5	HDAC1	4	affinity chromatography technology, affinity chromatography technology, affinity chromatography technology, affinity chromatography technology	Wotton D (1999), Wotton D (1999), Takeda M (2004), Lo RS (2001)	4
YAP1	0	HDAC1	4	affinity chromatography technology	Enzo E (2015)	1
SUV39H1	0	SMAD5	2	affinity chromatography technology	Frontelo P (2004)	1
EZH2	4	PHB2	1	pull down	Hwang C (2008)	1
HDAC5	4	HDAC1	4	affinity chromatography technology	Greco TM (2011)	1
YAP1	0	RUNX3	1	pull down	Yagi R (1999)	1
EZH2	4	SUV39H1	0	affinity chromatography technology, two hybrid	Weimann M (2013), Weimann M (2013)	2
SMAD3	1	PML	7	affinity chromatography technology	Lin HK (2004)	1
RUNX3	1	GAS5	0	affinity chromatography technology	Xue M (2018)	1
PML	7	SMAD2	5	affinity chromatography technology	Lin HK (2004)	1
SUV39H1	0	HDAC1	4	affinity chromatography technology, pull down	Vaute O (2002), Vaute O (2002)	2
SMAD1	0	YAP1	0	affinity chromatography technology, affinity chromatography technology, affinity chromatography technology, pull down, x-ray crystallography	Alarcon C (2009), Alarcon C (2009), Aragon E (2011), Aragon E (2011), Aragon E (2011)	5
EP300	36	NOTCH1	25	affinity chromatography technology, enzymatic study, affinity chromatography technology, two hybrid	Hao L (2010), Popko-Scibor AE (2011), Popko-Scibor AE (2011), Popko-Scibor AE (2011)	4
EP300	36	SMAD1	0	affinity chromatography technology, affinity chromatography technology, affinity chromatography technology, affinity chromatography technology, affinity chromatography technology, affinity chromatography technology	Pearson KL (1999), Nakashima K (1999), Nakashima K (1999), Jeon EJ (2006), Jun JH (2010), Weng Q (2012)	6
SMAD3	1	SMAD5	2	affinity chromatography technology	Brown KA (2008)	1
SMURF1	4	SMAD1	0	enzymatic study, affinity chromatography technology, enzymatic study, affinity chromatography technology, pull down, affinity chromatography technology, affinity chromatography technology, two hybrid, affinity chromatography technology, affinity chromatography technology, affinity chromatography technology, x-ray crystallography, pull down, affinity chromatography technology, enzymatic study, affinity chromatography technology, enzymatic study, pull down, unspecified method, two hybrid, affinity chromatography technology, pull down, enzymatic study, pull down, enzymatic study, affinity chromatography technology, affinity chromatography technology, pull down	Sangadala S (2006), Komuro A (2004), Tian M (2011), Tian M (2011), Tian M (2011), Sapkota G (2007), Sapkota G (2007), Li L (2004), Alarcon C (2009), Aragon E (2011), Aragon E (2011), Aragon E (2011), Aragon E (2011), Gao S (2009), Sangadala S (2007), Sangadala S (2007), Sangadala S (2007), Sangadala S (2007), Sangadala S (2007), Colland F (2004), Cao Y (2014), Cao Y (2014), Sangadala S (2007), Gao S (2009), Wan L (2011), Wan L (2011), Zhang Y (2017), Zhang Y (2017)	28
SUV39H1	0	RUNX3	1	affinity chromatography technology	Reed-Inderbitzin E (2006)	1
SMAD1	0	SMURF2	3	two hybrid, pull down, affinity chromatography technology, affinity chromatography technology, two hybrid, two hybrid, pull down, two hybrid, affinity chromatography technology, affinity chromatography technology	Lin X (2000), Lin X (2000), Komuro A (2004), Zhang Y (2001), Zhang Y (2001), Li L (2004), Chong PA (2010), Colland F (2004), Huttlin EL (2017), Zhou F (2017)	10
NOTCH1	25	HDAC1	4	affinity chromatography technology, affinity chromatography technology	Yatim A (2012), Yatim A (2012)	2
RUNX3	1	SP110	3	two hybrid	Ravasi T (2010)	1
SIRT2	1	PHB2	1	affinity chromatography technology	Ewing RM (2007)	1
MDM2	2	NOTCH1	25	affinity chromatography technology, affinity chromatography technology, affinity chromatography technology, pull down, enzymatic study	Lim SO (2011), Lim SO (2011), Pettersson S (2012), Pettersson S (2012), Pettersson S (2012)	5
SMAD5	2	SMURF2	3	affinity chromatography technology, enzymatic study, two hybrid, affinity chromatography technology	Komuro A (2004), Nie J (2010), Colland F (2004), Huttlin EL (2017)	4
EP300	36	MDM2	2	pull down, affinity chromatography technology, biochemical, pull down, pull down, enzymatic study, affinity chromatography technology, biochemical, enzymatic study	Grossman SR (1998), Grossman SR (1998), Grossman SR (1998), Grossman SR (1998), Matt T (2004), Wang X (2004), Gillotin S (2010), Kobet E (2000), Nihira NT (2017)	9
RUNX3	1	5820	0	affinity chromatography technology	Xue M (2018)	1
SMAD2	5	SMAD1	0	affinity chromatography technology, two hybrid, two hybrid, fluorescent resonance energy transfe	Brown KA (2008), Wu RY (1997), Wu RY (1997), Ivanov AA (2017)	4
RUNX3	1	CBFB	1	affinity chromatography technology, affinity chromatography technology	Jin YH (2004), Kim DY (2013)	2
SMAD1	0	SMAD5	2	two hybrid	Colland F (2004)	1