Identifying novel interactions of the colon-cancer related APC protein with Wnt-pathway nuclear transcription factors

Table 1 List of nuclear protein interactions detected for APC and CTNNB1 using AVA-Seq

Protein1	Protein2	Orient1	Orient2	2 mM	5 mM	Log2FCmax	FDRmin	Library	Unique Pairs	APID
AXIN1	APC	227	64	159	132	8.820432722	0	2	201	1
APC	AXIN2	30	122	77	75	7.520242693	2.10E−97	2	123	1
CTNNB1	CTBP1	2	0	1	1	4.103357711	2.20E−25	1	1	1
CTNNB1	TBL1XR1	1	0	0	1	1.968622264	3.41E−23	1	1	1
CTBP1	APC	73	5	46	32	6.198931965	1.52E−21	2	67	1
AXIN2	CTNNB1	9	2	9	2	6.050628355	6.77E−20	2	9	1
CREBBP	APC	280	79	147	212	5.577882812	3.70E−17	2	307	1
TCF7	APC	34	17	22	29	5.891080664	1.45E−14	2	41	0
DVL3	APC	127	25	62	90	5.171919508	5.19E−11	2	125	0
CTNNB1	CTBP2	5	14	8	11	3.257456516	1.33E−10	2	19	1
DVL1	APC	50	10	31	29	4.154109344	1.12E−09	2	55	1
CTNNB1	AXIN1	7	6	8	5	5.025473084	3.20E−09	2	12	1
APC	JUN	25	0	10	15	5.5769084	5.80E−05	2	19	0
SOX17	APC	99	25	49	75	5.453437899	5.04E−09	2	87	0
DVL2	APC	30	0	15	15	5.102993509	2.17E−07	2	26	1
CTNNB1	CREBBP	12	2	8	6	3.038695645	6.17E−07	2	14	1
CTNNB1	SOX17	7	8	5	10	5.184004171	1.26E−05	2	12	1
FOSL1	APC	13	0	6	7	3.353875751	6.85E−05	2	8	0
DVL1	CTNNB1	3	3	5	1	3.155612862	0.00041615	2	5	1
DVL3	CTNNB1	4	4	5	3	3.966139708	0.00105864	2	8	1
TCF7	CTNNB1	1	2	0	3	2.067171582	0.00728363	1	3	1
CTNNB1	CSNK1A1	1	0	1	0	3.500906308	0.00888600	1	1	1
CTNNB1	DVL2	2	0	1	1	4.682673739	0.00891623	1	1	1

Columns 1 and 2 (Protein 1, 2) list the protein pair tested. Orient 1 and 2, show how often the pair is detected in each orientation (Orient 1 is AD-associated; Orient 2 is DBD-associated); followed by a 3-AT condition to determine the number of pairs detected in 2 mM vs. 5 mM. Significant interactions filtered by Log₂FCmax and FDRmin values. The number of libraries shows if the pairs are captured in a single library or both (with 2 being the maximum). The unique fragment pairs represent the number of unique fragments captured for each protein pair. The APID concludes if the pairs are novel (0) or known [1] previously from Agile Protein Interactomes DataServer (APID; [27])

ISSN: 1475-2867