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
COPS6	0	TUBB4B	6	affinity chromatography technology	Bennett EJ (2010)	1
TUBA1A	13	TUBB	3	biochemical, biochemical, pull down	Havugimana PC (2012), Kristensen AR (2012), Wang W (2014)	3
RPGR	0	SMC1A	15	affinity chromatography technology, pull down, pull down	Khanna H (2005), Khanna H (2005), Khanna H (2005)	3
RPGR	0	BIRC6	15	bioid	Gupta GD (2015)	1
RPGR	0	DNAJA1	2	bioid	Gupta GD (2015)	1
NPHP4	10	NUDCD2	2	bioid	Gupta GD (2015)	1
RPGR	0	NUDC	1	bioid	Gupta GD (2015)	1
RPGR	0	DNM2	2	bioid	Gupta GD (2015)	1
NPHP4	10	NUDC	1	bioid	Gupta GD (2015)	1
RPGR	0	TUBB2B	2	bioid	Gupta GD (2015)	1
NPHP1	2	DNM2	2	bioid	Gupta GD (2015)	1
DNAJC7	2	NPHP1	2	affinity chromatography technology	Huttlin EL (2017)	1
NEK4	5	TUBB1	1	affinity chromatography technology	Boldt K (2016)	1
NPHP4	10	TUBB4B	6	bioid	Gupta GD (2015)	1
NPHP1	2	FKBP4	0	bioid	Gupta GD (2015)	1
RPGR	0	PDLIM7	0	affinity chromatography technology	Huttlin EL (2017)	1
INPP5E	1	RPGR	0	affinity chromatography technology	Boldt K (2016)	1
RPGR	0	TUBA1A	13	bioid	Gupta GD (2015)	1
NPHP1	2	RPGRIP1L	2	bioid, bioid, affinity chromatography technology	Gupta GD (2015), Gupta GD (2015), Boldt K (2016)	3
RPGR	0	NUDCD2	2	bioid	Gupta GD (2015)	1
PDE6D	0	RHOA	0	two hybrid	Nancy V (2002)	1
NPHP4	10	NUDCD3	0	bioid	Gupta GD (2015)	1
TUBA1C	1	TUBB4B	6	biochemical, affinity chromatography technology	Kristensen AR (2012), Hein MY (2015)	2
TUBA1C	1	DNAJA1	2	affinity chromatography technology	Hein MY (2015)	1
RPGR	0	PDE6D	0	two hybrid, pull down, affinity chromatography technology, affinity chromatography technology	Linari M (1999), Linari M (1999), Huttlin EL (2017), Boldt K (2016)	4
NPHP1	2	NUDCD3	0	bioid	Gupta GD (2015)	1
RPGRIP1L	2	NEK4	5	affinity chromatography technology, bioid, affinity chromatography technology	Gupta GD (2015), Gupta GD (2015), Boldt K (2016)	3
RPGR	0	SPSB3	1	affinity chromatography technology	Huttlin EL (2017)	1
RPGR	0	FKBP4	0	bioid	Gupta GD (2015)	1
NPHP4	10	TUBB2B	2	bioid	Gupta GD (2015)	1
RPGRIP1L	2	RPGR	0	affinity chromatography technology, bioid, affinity chromatography technology, affinity chromatography technology	Gupta GD (2015), Gupta GD (2015), Huttlin EL (2017), Boldt K (2016)	4
INPP5E	1	PDE6D	0	affinity chromatography technology	Boldt K (2016)	1
NPHP4	10	NEK4	5	affinity chromatography technology	Boldt K (2016)	1
RPGR	0	UNC45A	1	bioid	Gupta GD (2015)	1
TUBB2B	2	TUBB1	1	affinity chromatography technology, affinity chromatography technology	Huttlin EL (2015), Huttlin EL (2017)	2
SMC3	16	TUBB	3	affinity chromatography technology	Gregson HC (2001)	1
COPS6	0	SMC3	16	affinity chromatography technology	Bennett EJ (2010)	1
RPGR	0	DNAJC7	2	bioid	Gupta GD (2015)	1
IQCB1	3	TUBA1A	13	affinity chromatography technology	Sang L (2011)	1
RPGRIP1	6	UNC45A	1	bioid	Gupta GD (2015)	1
RPGR	0	ORC2	0	affinity chromatography technology	Huttlin EL (2017)	1
TUBB	3	TUBB4A	3	affinity chromatography technology	Huttlin EL (2017)	1
TUBA1C	1	TUBB	3	biochemical, biochemical, affinity chromatography technology	Kristensen AR (2012), Wan C (2015), Hein MY (2015)	3
RPGR	0	NEK4	5	affinity chromatography technology	Boldt K (2016)	1
RPGR	0	SMC3	16	affinity chromatography technology, pull down, pull down	Khanna H (2005), Khanna H (2005), Khanna H (2005)	3
NPHP4	10	TUBB	3	bioid	Gupta GD (2015)	1
FAM126A	1	RPGR	0	affinity chromatography technology	Huttlin EL (2017)	1
RPGR	0	TTF2	4	bioid	Gupta GD (2015)	1
RPGR	0	TUBB	3	bioid	Gupta GD (2015)	1
TUBB4B	6	TUBB	3	biochemical, biochemical	Havugimana PC (2012), Kristensen AR (2012)	2
IQCB1	3	TUBB4B	6	affinity chromatography technology	Sang L (2011)	1
RPGR	0	TUBB1	1	affinity chromatography technology	Huttlin EL (2017)	1
COPS6	0	RPGR	0	affinity chromatography technology	Bennett EJ (2010)	1
COPS6	0	TUBB1	1	affinity chromatography technology	Bennett EJ (2010)	1
RPGR	0	LRWD1	1	affinity chromatography technology	Huttlin EL (2017)	1
NPHP1	2	NPHP4	10	affinity chromatography technology, bioid, bioid, affinity chromatography technology	Mollet G (2002), Gupta GD (2015), Gupta GD (2015), Boldt K (2016)	4
NPHP4	10	DNAJC7	2	bioid, affinity chromatography technology	Gupta GD (2015), Huttlin EL (2017)	2
NPHP1	2	TUBB	3	affinity chromatography technology	Otto EA (2003)	1
NR2F2	4	RPGR	0	affinity chromatography technology	Huttlin EL (2017)	1
SMC1A	15	SMC3	16	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, biochemical, affinity chromatography technology, affinity chromatography technology, affinity chromatography technology	Kim ST (2002), Lee J (2003), Lee J (2003), Schmiesing JA (1998), Gregson HC (2001), Kueng S (2006), Schmitz J (2007), Schmitz J (2007), Losada A (2000), Kang H (2011), Havugimana PC (2012), Wan C (2015), Hein MY (2015), Hein MY (2015), Boldt K (2016)	15
RPGR	0	IDE	3	affinity chromatography technology	Huttlin EL (2017)	1
RPGR	0	TUBA1C	1	bioid	Gupta GD (2015)	1
NPHP4	10	RPGRIP1	6	affinity chromatography technology, bioid	Roosing S (2014), Gupta GD (2015)	2
NPHP1	2	UNC45A	1	bioid	Gupta GD (2015)	1
LRWD1	1	ORC2	0	affinity chromatography technology, affinity chromatography technology, biochemical, affinity chromatography technology, biochemical, affinity chromatography technology, affinity chromatography technology	Shen Z (2012), Shen Z (2012), Havugimana PC (2012), Vermeulen M (2010), Wan C (2015), Hein MY (2015), Hein MY (2015)	7
RPGR	0	RPGRIP1	6	two hybrid, affinity chromatography technology, pull down, two hybrid, bioid, affinity chromatography technology	Roepman R (2000), Roepman R (2000), Roepman R (2000), Rolland T (2014), Gupta GD (2015), Boldt K (2016)	6
RPGRIP1	6	NEK4	5	bioid, affinity chromatography technology	Gupta GD (2015), Boldt K (2016)	2
TUBA1A	13	TUBB4B	6	biochemical, biochemical	Havugimana PC (2012), Wan C (2015)	2
RPGRIP1L	2	SMC3	16	bioid	Gupta GD (2015)	1
RPGR	0	ORC3	3	affinity chromatography technology	Huttlin EL (2017)	1
IQCB1	3	TUBA1C	1	affinity chromatography technology	Sang L (2011)	1
COPS6	0	TUBA1C	1	affinity chromatography technology	Bennett EJ (2010)	1
NPHP4	10	TUBB1	1	affinity chromatography technology	Boldt K (2016)	1
RPGR	0	ATP1A4	2	affinity chromatography technology	Huttlin EL (2017)	1
IQCB1	3	RPGR	0	affinity chromatography technology, affinity chromatography technology	Otto EA (2005), Otto EA (2005)	2
RPGRIP1L	2	NPHP4	10	affinity chromatography technology, bioid, affinity chromatography technology	Gupta GD (2015), Gupta GD (2015), Boldt K (2016)	3
TUBB2B	2	TUBA1C	1	biochemical	Wan C (2015)	1
TUBB4A	3	TUBA1C	1	biochemical	Wan C (2015)	1
NPHP4	10	FKBP4	0	bioid	Gupta GD (2015)	1
RPGR	0	NUDCD3	0	bioid	Gupta GD (2015)	1
RPGR	0	RHOA	0	bioid	Gupta GD (2015)	1
NUDC	1	DNAJA1	2	affinity chromatography technology, affinity chromatography technology	Taipale M (2014), Taipale M (2014)	2
LRWD1	1	ORC3	3	biochemical, affinity chromatography technology	Havugimana PC (2012), Hein MY (2015)	2
ORC2	0	ORC3	3	two hybrid, two hybrid, affinity chromatography technology, biochemical, pull down, affinity chromatography technology, affinity chromatography technology, affinity chromatography technology, affinity chromatography technology, pull down, affinity chromatography technology, affinity chromatography technology, affinity chromatography technology, biochemical, affinity chromatography technology, biochemical, affinity chromatography technology	Kneissl M (2003), Kneissl M (2003), Kneissl M (2003), Dhar SK (2001), Dhar SK (2001), Matsuoka S (2007), Pinto S (1999), Pinto S (1999), Vashee S (2001), Vashee S (2001), Sibani S (2005), Sibani S (2005), Keller C (2002), Havugimana PC (2012), Vermeulen M (2010), Wan C (2015), Hein MY (2015)	17
COPS6	0	TUBB	3	affinity chromatography technology	Bennett EJ (2010)	1
DNAJC7	2	LRWD1	1	affinity chromatography technology	Huttlin EL (2017)	1
IQCB1	3	DNAJA1	2	affinity chromatography technology	Sang L (2011)	1
FAM126A	1	NR2F2	4	affinity chromatography technology	Huttlin EL (2017)	1
RPGR	0	TUBB4A	3	bioid	Gupta GD (2015)	1
RPGR	0	MTMR1	0	affinity chromatography technology	Huttlin EL (2017)	1
RPGR	0	TUBB4B	6	bioid	Gupta GD (2015)	1
RPGR	0	NPHP1	2	affinity chromatography technology	Huttlin EL (2017)	1
RPGR	0	NPHP4	10	bioid, affinity chromatography technology, affinity chromatography technology	Gupta GD (2015), Huttlin EL (2017), Boldt K (2016)	3
IQCB1	3	TUBB	3	affinity chromatography technology	Sang L (2011)	1