RNAi screen result	RNAPII IP (MG132)	CSB IP	CSB IP (MG132)	Chrom.	Chrom. (MG132)	Ubi /Phospo	Ubi /Phospho (MG132)
W

Gene name	MGoogle Score	RNAi high	RNAi low	RNAPII-IP (MG132)	CSB-IP	CSB-IP (MG132)	Chrom.	Chrom. (MG132)
ATP6V1H	2	-1.810	2.860				0.325
ATP6V1H	2	-1.810	2.860	-0.409
CLTA	2	-0.050	0.210
CLTA	2	-0.050	0.210		-1.163	-0.046
GGA3	1	1.320	-0.820
GGA3	1	1.320	-0.820
AP3B1	1			0.283			0.568	0.447
ATP6V0D1	1	-0.960	0.640
ATP6V0D1	1	-0.960	0.640	-0.252			-0.493	2.836
GBA	1	-1.380	2.580	0.407			0.357	0.150
AP3M1	1	2.120	-1.010	-0.529			-0.213	-0.553
IGF2R	1	2.250	-1.150				-0.107	0.125
AP4M1	1	1.440	-1.120
M6PR	0	-0.030	-0.320
M6PR	0	-0.030	-0.320				0.170	-0.605
LAMP2	0	-0.040	0.180				0.379	0.711
LAMP2	0	-0.040	0.180	0.164
ATP6V0A1	0	-0.580	0.460				-0.439	0.009
HEXB	0	-0.370	0.060				0.103
CTSA	0	0.050	0.530				0.264
AP3D1	0	-0.770	1.000
AP3D1	0	-0.770	1.000	-3.722			0.111	0.159
LAPTM4A	0	-1.430	1.900
CLTCL1	0	-1.030	1.030
CLTCL1	0	-1.030	1.030	-0.538	-0.243	-0.478	0.375	0.284
AP3M2	0	0.330	-0.600	-0.529			-0.213	-0.553
AP1M1	0	-0.550	0.780				-0.171	-0.095
AP1M1	0	-0.550	0.780	0.192
GGA1	0	1.030	-0.880
AP1B1	0	-0.890	1.670
AP1B1	0	-0.890	1.670	-0.267	0.203	0.287	0.311	0.233
AP1B1	0	-0.890	1.670				-1.575	-0.671
AP1B1	0	-0.890	1.670	0.931	0.543	0.034	0.611	0.276
LGMN	0	-0.120	0.250				0.435	0.710
ASAH1	0	-0.300	0.340
MAN2B1	0	-0.130	-0.550
NAGLU	0	-0.400	0.020
CTSD	0	0.580	-0.790	-0.768		-2.790	-0.655	-1.981
SLC17A5	0	0.440	-0.600
PPT1	0	1.320	-0.730
SORT1	0
ACP2	0	1.070	-0.530				0.434	0.627
CD63	0	-1.190	1.800				1.412	0.887
SCARB2	0	0.220	0.470				0.565	0.756
CLTC	0	0.350	-0.220	-0.538	-0.243	-0.478	0.375	0.284
NPC1	0	0.620	-0.700				0.275	0.103
ABCB9	0	0.020	0.380
AP3S2	0	-0.930	0.720
TPP1	0	-0.540	0.760	0.431			1.429	1.399
AP1G1	0	-0.070	-0.460	-0.071			0.366	0.385
PPT2	0	0.620	-0.280
PPT2	0	1.150	-0.770
GLB1	0	-1.310	1.460				0.469	0.688
CLTB	0
AP3S1	0	1.210	-1.210	-1.064			-0.141
AP1S2	0	1.190	-0.690	-1.049
ATP6V0A2	0	1.190	-0.740				0.137	-0.457
LAMP1	0	-0.830	0.960				0.121	0.196
GM2A	0	1.660	-0.700
ENTPD4	0	-0.780	0.800
NAGA	0	0.830	0.170

Gene name	PTM type	PTM site	UV	UV (MG132)	Sequence
ABCB9	Ubiquitylation	K376		0.179	_ASNTAEETISAMK(gl)TVR_
ACP2	Ubiquitylation	K153		-2.937	_LLK(gl)FPLGPCPR_
AP1B1	Ubiquitylation	K5	0.232	0.554	_(ac)TDSK(gl)YFTTTK_
AP1B1	Ubiquitylation	K12	0.255		_K(gl)GEIFELK_
AP1B1	Ubiquitylation	K117	-0.547		_VDK(gl)ITEYLCEPLRK_
AP1B1	Ubiquitylation	K131	0.324	-0.027	_CLK(gl)DEDPYVRK_
AP1B1	Ubiquitylation	K860		-2.206	_LQSSNIFTVAK(gl)R_
AP1B1	Ubiquitylation	K899	-0.222	-0.751	_IQPGNPSCTLSLK(gl)CR_
AP1G1	Ubiquitylation	K385	1.119	0.748	_DLDVSIK(gl)R_
AP1G1	Ubiquitylation	K595	-0.570	-0.014	_AVEYNALFKK(gl)_
AP1M1	Ubiquitylation	K43		-0.691	_(ac)SASAVYVLDLK(gl)GK_
AP1M1	Ubiquitylation	K45		-0.691	_(ac)SASAVYVLDLK(gl)GK_
AP1M1	Ubiquitylation	K272	-0.542		_SK(gl)SVELEDVK_
AP1M1	Ubiquitylation	K280		-0.292	_SVELEDVK(gl)FHQCVR_
AP1M1	Ubiquitylation	K369	0.791	0.647	_FK(gl)TTVGSVK_
AP3B1	Ubiquitylation	K74		3.486	_IVGM(ox)IAKGK(gl)_
AP3B1	Phosphorylation	S276	0.667	0.762	_NFYES(ph)DDDQKEK_
AP3D1	Ubiquitylation	K7	0.529	0.464	_MVK(gl)GSIDR_
AP3D1	Phosphorylation	S9		0.952	_MVKGS(ph)IDR_
AP3D1	Ubiquitylation	K379	0.803	0.640	_NLMEIVKK(gl)_
AP3D1	Phosphorylation	T735	0.260	-0.981	_NTET(ph)SKSPEKDVPM(ox)VEK_
AP3D1	Phosphorylation	S736	-0.691	-0.892	_NTETS(ph)KSPEKDVPM(ox)VEK_
AP3D1	Phosphorylation	S738	-0.194	-0.008	_NTETSKS(ph)PEKDVPMVEK_
AP3M1	Ubiquitylation	K283	-0.147		_HSISFK(gl)ENSSCGR_
AP3M1	Ubiquitylation	K413	-0.636	-0.807	_AGK(gl)FQVR_
AP3M2	Ubiquitylation	K283	-0.147		_HSISFK(gl)ENSSCGR_
AP3M2	Ubiquitylation	K413	-0.636	-0.807	_AGK(gl)FQVR_
AP3S1	Ubiquitylation	K18	-0.109	0.558	_LSK(gl)FYQPYSEDTQQQIIR_
AP3S1	Ubiquitylation	K166	-0.248		_AVSAVK(gl)NMNLPEIPR_
AP3S1	Ubiquitylation	K193	-0.977		_VPNLPSFK(gl)_
AP3S2	Ubiquitylation	K350		0.204	_LEK(gl)SEGGLSAAPAR_
AP3S2	Ubiquitylation	K367	-1.289	-0.624	_AVSAVK(gl)NINLPEIPR_
AP4M1	Phosphorylation	S128	1.632		_LS(ph)VLIASNGSLLK_
AP4M1	Phosphorylation	S133		1.202	_LSVLIAS(ph)NGSLLK_
ASAH1	Ubiquitylation	K461		0.139	_ESLDVYELDAK(gl)QGR_
ATP6V0A1	Ubiquitylation	K119		0.578	_EINTNQEALK(gl)R_
ATP6V0A1	Ubiquitylation	K235		0.326	_K(gl)ICEGFR_
ATP6V0A1	Ubiquitylation	K255	0.143		_K(gl)EMASGVNTR_
ATP6V0A1	Ubiquitylation	K366		-0.441	_MQTNQTPPTYNK(gl)TNK_
ATP6V0A1	Ubiquitylation	K369	-1.113	-0.322	_MQTNQTPPTYNKTNK(gl)_
ATP6V0A2	Ubiquitylation	K136	0.287		_VTK(gl)TFVKR_
ATP6V0A2	Ubiquitylation	K290	0.039	-0.079	_QVLCK(gl)AAESVYSR_
ATP6V0A2	Phosphorylation	S695	0.705	0.859	_KDS(ph)EEEVSLLGSQDIEEGNHQVEDGCR_
ATP6V0D1	Ubiquitylation	K384	0.065	-0.172	_AK(gl)IDNYIPIF_
ATP6V1H	Ubiquitylation	K176	1.541	0.958	_TQLSSQK(gl)LR_
CLTA	Phosphorylation	S105	1.262	1.599	_LQS(ph)EPESIRK_
CLTA	Ubiquitylation	K223	-0.282	0.457	_LCDFNPK(gl)SSK_
CLTA	Ubiquitylation	K226	-0.199	1.848	_LCDFNPKSSK(gl)_
CLTA	Ubiquitylation	K242	0.149		_SVLISLK(gl)QAPLVH_
CLTB	Ubiquitylation	K204	-0.062	1.007	_VAQLCDFNPK(gl)SSK_
CLTC	Ubiquitylation	K83	0.714		_VIALK(gl)AGK_
CLTC	Ubiquitylation	K86		0.631	_VIALKAGK(gl)_
CLTC	Ubiquitylation	K389	-1.051	-0.085	_VAANAPK(gl)GILR_
CLTC	Phosphorylation	T394	-0.123	0.181	_GILRT(ph)PDTIRR_
CLTC	Ubiquitylation	K506		0.267	_IVLYAK(gl)K_
CLTC	Ubiquitylation	K507	0.050	0.267	_IVLYAKK(gl)_
CLTC	Ubiquitylation	K619	-0.177	0.475	_AHIAQLCEK(gl)AGLLQR_
CLTC	Ubiquitylation	K737	-0.435	-0.298	_YIQAACK(gl)TGQIK_
CLTC	Ubiquitylation	K742	0.005	0.082	_TGQIK(gl)EVER_
CLTC	Ubiquitylation	K851		-0.859	_GQFSTDELVAEVEK(gl)R_
CLTC	Ubiquitylation	K911	-1.282		_YCEK(gl)RDPHLACVAYER_
CLTC	Ubiquitylation	K1118	-0.674	-0.765	_AQLQK(gl)GMVK_
CLTC	Ubiquitylation	K1209		-0.791	_CYDEK(gl)MYDAAK_
CLTC	Ubiquitylation	K1443	-2.089	-0.019	_VK(gl)QLPLVKPYLR_
CLTC	Ubiquitylation	K1449		-2.307	_QLPLVK(gl)PYLR_
CLTC	Ubiquitylation	K1516		-0.990	_IAAYLFK(gl)GNNR_
CLTC	Ubiquitylation	K1609	-0.714		_EYLTK(gl)VDKLDASESLR_
CLTCL1	Ubiquitylation	K83	0.714		_VIALK(gl)AGK_
CLTCL1	Ubiquitylation	K86		0.631	_VIALKAGK(gl)_
CLTCL1	Ubiquitylation	K389	-1.051	-0.085	_VAANAPK(gl)GILR_
CLTCL1	Phosphorylation	T394	-0.123	0.181	_GILRT(ph)PDTIRR_
CLTCL1	Ubiquitylation	K506		0.267	_IVLYAK(gl)K_
CLTCL1	Ubiquitylation	K507	0.050	0.267	_IVLYAKK(gl)_
CLTCL1	Ubiquitylation	K619	-0.177	0.475	_AHIAQLCEK(gl)AGLLQR_
CLTCL1	Ubiquitylation	K737	-0.435	-0.298	_YIQAACK(gl)TGQIK_
CLTCL1	Ubiquitylation	K742	0.005	0.082	_TGQIK(gl)EVER_
CLTCL1	Ubiquitylation	K851		-0.859	_GQFSTDELVAEVEK(gl)R_
CLTCL1	Ubiquitylation	K911	-1.282		_YCEK(gl)RDPHLACVAYER_
CLTCL1	Ubiquitylation	K941		-1.252	_VCNENSLFK(gl)SEAR_
CLTCL1	Ubiquitylation	K1118	-0.674	-0.765	_AQLQK(gl)GMVK_
CLTCL1	Ubiquitylation	K1209		-0.791	_CYDEK(gl)MYDAAK_
CLTCL1	Ubiquitylation	K1443	-2.089	-0.019	_VK(gl)QLPLVKPYLR_
CLTCL1	Ubiquitylation	K1449		-1.977	_AGQLPLVK(gl)PYLR_
CLTCL1	Ubiquitylation	K1449		-2.307	_QLPLVK(gl)PYLR_
CLTCL1	Ubiquitylation	K1516		-0.990	_IAAYLFK(gl)GNNR_
CLTCL1	Ubiquitylation	K1609	-0.714		_EYLTK(gl)VDKLDASESLR_
ENTPD4	Ubiquitylation	K348		-0.267	_IFANTIQK(gl)NR_
ENTPD4	Ubiquitylation	K487		-0.988	_LK(gl)YQCFK_
GGA1	Ubiquitylation	K118	-1.027	0.051	_VVSPK(gl)YLGSR_
GGA1	Ubiquitylation	K191	-0.968		_NVIFEDEEK(gl)SK_
GGA1	Ubiquitylation	K193	-0.968		_NVIFEDEEK(gl)SK_
GGA1	Ubiquitylation	K200	-0.112	-0.638	_LLK(gl)SSHPEDLR_
GGA1	Ubiquitylation	K215	-1.131	-0.524	_LIK(gl)EMVQEDQKR_
GGA1	Ubiquitylation	K223	-0.190	0.412	_EMVQEDQK(gl)R_
GGA3	Ubiquitylation	K100	-0.181	-0.013	_VVSPK(gl)YLGDR_
GGA3	Phosphorylation	S159	-1.676	-1.492	_TLIPS(ph)PPPRPK_
GGA3	Ubiquitylation	K176	-0.101		_NPVFDDEEKSK(gl)LLAK_
GGA3	Ubiquitylation	K180	-0.258	0.226	_LLAK(gl)LLK_
GGA3	Ubiquitylation	K185	-0.073	-0.327	_SK(gl)NPDDLQEANK_
GGA3	Ubiquitylation	K195	0.623	-0.266	_SKNPDDLQEANK(gl)LIK_
GGA3	Ubiquitylation	K198	-0.091	0.421	_LIK(gl)SMVKEDEAR_
GGA3	Ubiquitylation	K202	0.681	2.639	_SMVK(gl)EDEAR_
GGA3	Phosphorylation	S425	-0.079		_EQS(ph)DLDFFSPR_
GLB1	Ubiquitylation	K91		0.224	_DSFLK(gl)DGQPFR_
GM2A	Ubiquitylation	K179		0.422	_IESVLSSSGK(gl)R_
IGF2R	Ubiquitylation	K2352	-0.372	0.420	_SSNVSYK(gl)YSK_
IGF2R	Ubiquitylation	K2394	-0.020	0.221	_EGQENGHITTK(gl)SVK_
IGF2R	Phosphorylation	S2409	0.107	0.119	_ALSSLHGDDQDS(ph)EDEVLTIPEVK_
LAMP2	Ubiquitylation	K355	0.979		_RK(gl)SYAGYQTL_
LAPTM4A	Ubiquitylation	K7	-1.344	-0.149	_VSMSFK(gl)R_
LGMN	Ubiquitylation	K125	0.264	-0.241	_GDAEAVK(gl)GIGSGK_
LGMN	Ubiquitylation	K224	0.675	0.933	_ESSYACYYDEK(gl)R_
LGMN	Ubiquitylation	K287		1.040	_VMQFQGMK(gl)R_
M6PR	Phosphorylation	S267	-0.203	0.348	_GVGDDQLGEES(ph)EERDDHLLPM_
MAN2B1	Ubiquitylation	K740		0.855	_FDTPLETK(gl)GR_
NAGA	Ubiquitylation	K154		-0.505	_VDMLK(gl)LDGCFSTPEER_
NAGLU	Ubiquitylation	K59		-0.842	_ALAAK(gl)PGLDTYSLGGGGAAR_
NPC1	Ubiquitylation	K1191		0.981	_AFTVSMK(gl)GSR_
PPT1	Ubiquitylation	K174		-0.445	_TLNAGAYSK(gl)VVQER_
PPT1	Ubiquitylation	K224		1.077	_NLMALKK(gl)_
PPT1	Ubiquitylation	K253		0.222	_SGQAK(gl)ETIPLQETSLYTQDR_
PPT2	Ubiquitylation	K271		0.664	_DSFGLK(gl)TLLAR_
SLC17A5	Ubiquitylation	K340		-0.681	_NQLSSQK(gl)SVPWVPILK_
SORT1	Ubiquitylation	K294		-0.104	_TSDLGK(gl)SFK_
SORT1	Ubiquitylation	K388	-2.073	-0.343	_GIVYSK(gl)SLDR_