RNAi screen result	RNAPII IP (MG132)	CSB IP	CSB IP (MG132)	Chrom.	Chrom. (MG132)	Ubi /Phospo	Ubi /Phospho (MG132)
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Gene name	MGoogle Score	RNAi high	RNAi low	RNAPII-IP (MG132)	CSB-IP	CSB-IP (MG132)	Chrom.	Chrom. (MG132)
ZFYVE16	1	-1.080	1.970
MTMR2	1	-1.600	3.150
EEA1	1	1.570	-0.620	1.098			0.020	0.177
PML	1	-0.420	0.350		-0.244	0.322
SH3GL3	1	-1.870	3.600
SH3GL1	1	0.960	-1.010
SNX27	1	0.670	-0.240	-0.887			0.166	0.054
HLA-B	1	0.000	-0.310				-0.626
HSD17B6	0	-0.450	0.040
SNX1	0	-0.090	-0.590
ATP9A	0	-1.060	1.330
ATP9B	0	-0.650	0.460
STX7	0	0.300	-0.680				-0.634	0.302
RAB21	0	0.800	0.060	0.539			0.340	0.241
EPS15	0	0.580	-0.640
EPS15	0	0.580	-0.640
KIF16B	0	0.020	0.820
FAM21A	0
FAM21C	0
EHD4	0			0.691			-0.976	-0.173
SNX8	0	0.370	-0.460
EHD1	0	-0.060	0.300
RAB5B	0	-0.270	0.560				0.223	0.256
SNX4	0	-0.190	0.740
PIKFYVE	0	-0.230	0.410
STAM2	0	-0.510	0.650
WLS	0	-0.540	1.290
RAB14	0	0.630	-0.150				0.314	0.321
OCRL	0	0.410	-0.320	0.052			0.039	0.310
OCRL	0	0.410	-0.320
SNX6	0	0.090	-0.550
RBSN	0	-1.000	1.480
LLGL1	0	0.510	-0.650		-0.591	-2.332
TMEM165	0	-1.210	2.320
RAB11FIP5	0	1.040	-0.620					-0.819
APPL2	0	0.480	-0.340
RAB5A	0	-0.440	0.910				0.089	-0.362
RAB5A	0	0.080	0.240				0.089	-0.362
TMEM163	0	-0.450	1.130
EPHB1	0	-0.220	0.000					0.221
EPHB1	0	-0.220	0.000	-0.042
EPHB1	0	-0.220	0.000
ZFYVE9	0	-0.930	0.760
APPL1	0	1.130	-0.340
ZFYVE28	0
HPS6	0	0.100	-0.400
PLEKHF2	0	-1.300	2.220
RUFY1	0	-0.690	0.630
HGS	0	0.020	0.300	-0.211			0.737	0.264
HLA-A	0	0.790	-0.840				-0.626
HLA-C	0						-0.626
HLA-F	0	0.020	-0.190				-0.626
HLA-G	0	0.000	0.140				-0.626
SNX2	0	-0.850	-0.050				-0.347	0.878
WASH4P	0
TICAM2	0						0.641	1.449

Gene name	PTM type	PTM site	UV	UV (MG132)	Sequence
APPL1	Ubiquitylation	K66	-1.174	0.359	_LLK(gl)EYEK_
APPL1	Ubiquitylation	K124		-0.697	_DLK(gl)EILTLK_
APPL1	Ubiquitylation	K289		0.154	_NK(gl)TGLVSSTWDR_
APPL1	Ubiquitylation	K351	-0.236	0.892	_YCFQITSFDGKK(gl)_
APPL1	Phosphorylation	T399	-0.185		_VNQSALEAVT(ph)PSPSFQQR_
APPL1	Phosphorylation	S401	-0.233	-0.423	_VNQSALEAVTPS(ph)PSFQQR_
APPL1	Ubiquitylation	K638	-0.311	0.401	_ASEK(gl)QKEIER_
APPL2	Ubiquitylation	K226		0.352	_GAEMFSK(gl)R_
ATP9A	Ubiquitylation	K48	0.453	0.490	_TVWLGHPEK(gl)R_
ATP9A	Ubiquitylation	K404		0.778	_TGTLTQNEMIFK(gl)R_
ATP9A	Ubiquitylation	K447	-0.234	0.405	_GPTLTTK(gl)VR_
ATP9B	Ubiquitylation	K404		0.778	_TGTLTQNEMIFK(gl)R_
EEA1	Ubiquitylation	K100	0.234	1.002	_QEVQDLQASLK(gl)EEK_
EEA1	Ubiquitylation	K103	-0.344		_QEVQDLQASLKEEK(gl)_
EEA1	Phosphorylation	S354	1.047	1.214	_LS(ph)ASETSLHR_
EEA1	Ubiquitylation	K1029		1.686	_SQETFK(gl)QLQSDFYGR_
EEA1	Ubiquitylation	K1162	0.355		_EITNLK(gl)DAK_
EEA1	Ubiquitylation	K1178	-1.915		_LELQGK(gl)ADSLK_
EEA1	Ubiquitylation	K1225	-1.291		_LHSEIKEK(gl)_
EEA1	Ubiquitylation	K1312	-0.851		_LQTK(gl)VLELQR_
EHD1	Ubiquitylation	K475	-0.521	-0.192	_SK(gl)LPNTVLGK_
EHD4	Ubiquitylation	K165	0.180	-0.366	_SISVIDSPGILSGEK(gl)QR_
EHD4	Ubiquitylation	K291		-1.021	_DIQSLPQK(gl)AAVR_
EPHB1	Ubiquitylation	K578	-0.752	-0.618	_QSPEDVYFSK(gl)SEQLKPLK_
EPHB1	Ubiquitylation	K583	0.445	0.124	_SEQLK(gl)PLK_
EPHB1	Ubiquitylation	K617	0.339		_QK(gl)VIGAGEFGEVYK_
EPHB1	Ubiquitylation	K649	-1.219		_TLK(gl)AGYTEK_
EPHB1	Ubiquitylation	K657	0.533		_LKLPGK(gl)R_
EPHB1	Phosphorylation	S897		0.000	_LPS(ph)TSGSEGVPFR_
EPHB1	Phosphorylation	T898	-0.329	0.424	_LPST(ph)SGSEGVPFR_
EPS15	Phosphorylation	S108	-1.380	-0.251	_FHDTSS(ph)PLLISGTSAAELPWAVKPEDK_
EPS15	Phosphorylation	S324	1.499	1.080	_NIIGSS(ph)PVADFSAIK_
EPS15	Phosphorylation	S428	-0.224	-0.557	_S(ph)SPELLPSGVTDENEVTTAVTEK_
EPS15	Phosphorylation	S429	-0.224	-0.308	_S(ph)SPELLPSGVTDENEVTTAVTEK_
EPS15	Ubiquitylation	K620	0.143	0.541	_SATSSSVSNVVITK(gl)NVFEETSVK_
EPS15	Ubiquitylation	K654	-2.207	-1.253	_IGTPTRPCPLPPGK(gl)R_
EPS15	Phosphorylation	S662	1.046	0.458	_SINKLDS(ph)PDPFK_
EPS15	Phosphorylation	S814	-0.764	-0.870	_LNDPFQPFPGNDS(ph)PKEKDPEIFCDPFTSATTTTNK_
FAM21A	Phosphorylation	T5		-0.594	_T(ph)TPDQELAPASEPVWERPWSVEEIRR_
FAM21A	Phosphorylation	T6		-0.594	_T(ph)TPDQELAPASEPVWERPWSVEEIRR_
FAM21A	Phosphorylation	S288	0.363	0.241	_SRPTS(ph)FADELAAR_
FAM21A	Phosphorylation	T331		-0.774	_RT(ph)PSDDEEDNLFAPPK_
FAM21A	Phosphorylation	S333	-0.945	-0.894	_RTPS(ph)DDEEDNLFAPPK_
FAM21A	Phosphorylation	S352	1.396	1.410	_LTDEDFS(ph)PFGSGGGLFSGGK_
FAM21A	Phosphorylation	S498	0.354	0.400	_AVAS(ph)PEATVSQTDENK_
FAM21A	Phosphorylation	S728	0.212	0.155	_KETVSEAPPLLFS(ph)DEEEKEAQLGVK_
FAM21A	Phosphorylation	S802	0.579	0.140	_TVLS(ph)LFDEEEDKMEDQNIIQAPQK_
FAM21A	Phosphorylation	S1142	-0.646	0.272	_GEADLFDSGDIFSTGTGS(ph)QSVER_
FAM21A	Phosphorylation	S1144	-0.284	-0.045	_GEADLFDSGDIFSTGTGSQS(ph)VER_
FAM21C	Phosphorylation	S288	0.363	0.241	_SRPTS(ph)FADELAAR_
FAM21C	Phosphorylation	T331		-0.774	_RT(ph)PSDDEEDNLFAPPK_
FAM21C	Phosphorylation	S333	-0.945	-0.894	_RTPS(ph)DDEEDNLFAPPK_
FAM21C	Phosphorylation	S352	1.396	1.410	_LTDEDFS(ph)PFGSGGGLFSGGK_
FAM21C	Phosphorylation	S498	0.354	0.400	_AVAS(ph)PEATVSQTDENK_
FAM21C	Phosphorylation	S728	0.212	0.155	_KETVSEAPPLLFS(ph)DEEEKEAQLGVK_
FAM21C	Phosphorylation	S802	0.579	0.140	_TVLS(ph)LFDEEEDKMEDQNIIQAPQK_
FAM21C	Phosphorylation	S1142	-0.646	0.272	_GEADLFDSGDIFSTGTGS(ph)QSVER_
FAM21C	Phosphorylation	S1144	-0.284	-0.045	_GEADLFDSGDIFSTGTGSQS(ph)VER_
HGS	Ubiquitylation	K126	0.088	0.464	_YK(gl)VVQDTYQIMK_
HGS	Ubiquitylation	K192	0.015	0.751	_ACGQIFCGK(gl)CSSK_
HGS	Ubiquitylation	K202	-0.163	0.558	_YSTIPK(gl)FGIEK_
HGS	Ubiquitylation	K207	-0.193	0.798	_FGIEK(gl)EVR_
HGS	Ubiquitylation	K283	-0.826	-0.270	_QK(gl)STYTSYPK_
HGS	Ubiquitylation	K337	0.097		_NYWEK(gl)KQEEAR_
HGS	Ubiquitylation	K473	-0.154		_LYYEGLQDK(gl)LAQIR_
HGS	Ubiquitylation	K513	-0.289		_QIQLAQK(gl)LEIMR_
HGS	Ubiquitylation	K520	0.211	1.230	_QK(gl)KQEYLEVQR_
HGS	Ubiquitylation	K521	-1.344	1.230	_K(gl)QEYLEVQR_
HGS	Ubiquitylation	K551	-0.260	0.554	_LEQQK(gl)QTVQM(ox)R_
HPS6	Ubiquitylation	K239	-1.919	-1.023	_LGLSYSK(gl)SLNPGR_
HPS6	Ubiquitylation	K545		-1.483	_SQAPPDVWK(gl)K_
HPS6	Ubiquitylation	K546		-1.124	_SQAPPDVWKK(gl)_
HSD17B6	Ubiquitylation	K64		0.094	_VLAACLTEK(gl)GAEQLR_
KIF16B	Ubiquitylation	K1181	-1.255		_SLGANPDDLK(gl)DPIK_
LLGL1	Ubiquitylation	K17	0.617		_EK(gl)LKQELFAFNK_
LLGL1	Ubiquitylation	K19	0.826	0.830	_LK(gl)QELFAFNK_
MTMR2	Phosphorylation	S58	0.107	0.436	_SASVVSSDSISTSADNFS(ph)PDLR_
OCRL	Ubiquitylation	K127		-0.129	_AQSQLLVPEQK(gl)DSSSWYQK_
OCRL	Ubiquitylation	K135	-0.111		_DSSSWYQK(gl)LDTK_
OCRL	Ubiquitylation	K391	1.116	0.789	_RNQDYK(gl)DICAR_
PIKFYVE	Phosphorylation	S307	0.463	0.429	_SAS(ph)ITNLSLDR_
PIKFYVE	Phosphorylation	S1714		-0.557	_SSS(ph)PIRLPEMSGGQTNR_
PIKFYVE	Phosphorylation	S1754	-0.097	0.057	_GTAGKS(ph)PDLSSQK_
PLEKHF2	Phosphorylation	S226	0.426	0.190	_SDS(ph)YSQSLK_
PML	Ubiquitylation	K394	0.515	0.360	_LQDLSSCITQGK(gl)DAAVSKK_
PML	Phosphorylation	S403		3.141	_KAS(ph)PEAASTPRDPIDVDLPEEAER_
PML	Ubiquitylation	K476	-0.403	-0.735	_GPSYGEDVSNTTTAQK(gl)R_
PML	Phosphorylation	S504	-0.198	-0.109	_S(ph)SPEQPRPSTSK_
PML	Phosphorylation	S505	-0.198	-0.109	_S(ph)SPEQPRPSTSK_
PML	Phosphorylation	S518	-1.632	-1.605	_AVS(ph)PPHLDGPPS(ph)PR_
PML	Phosphorylation	S527	-1.392	-1.605	_AVS(ph)PPHLDGPPS(ph)PR_
PML	Phosphorylation	S530	0.466	0.093	_S(ph)PVIGSEVFLPNSNHVASGAGEAEER_
PML	Ubiquitylation	K623		-0.784	_IDNETQK(gl)ISQLAAVNR_
RAB11FIP5	Phosphorylation	S188	0.498	-1.279	_DKPRS(ph)PFSK_
RAB11FIP5	Phosphorylation	S307	0.920	0.806	_TYS(ph)DEANQMR_
RAB11FIP5	Phosphorylation	S393		0.820	_S(ph)NSSSEAVLGQEELSAQAK_
RAB11FIP5	Phosphorylation	S395	0.748	0.537	_SNS(ph)SSEAVLGQEELSAQAK_
RAB11FIP5	Phosphorylation	S494		0.084	_GGPILGAS(ph)PHHSSSGEEK_
RAB11FIP5	Ubiquitylation	K560	-0.629		_LK(gl)TVTSGSIQPVTQAPQAGQMVDTKR_
RAB11FIP5	Ubiquitylation	K583	-0.213	-0.841	_TVTSGSIQPVTQAPQAGQMVDTK(gl)R_
RAB11FIP5	Ubiquitylation	K586	0.485	0.189	_LK(gl)DSAVLDQSAK_
RAB14	Ubiquitylation	K170	-1.161		_TGENVEDAFLEAAK(gl)K_
RAB14	Ubiquitylation	K171	-1.161	-0.915	_TGENVEDAFLEAAKK(gl)_
RAB14	Ubiquitylation	K193		-0.640	_IYQNIQDGSLDLNAAESGVQHK(gl)PSAPQGGR_
RAB21	Ubiquitylation	K138	0.255	-0.579	_IDLEK(gl)ER_
RAB5B	Ubiquitylation	K116	0.332	0.600	_TWVK(gl)ELQR_
RBSN	Phosphorylation	S211	0.904	0.349	_ESLS(ph)THTSPSQSPNSVHGSR_
RUFY1	Ubiquitylation	K201		-1.479	_NLPELK(gl)TAVGR_
RUFY1	Ubiquitylation	K587	1.069		_MELQQVEGLKK(gl)_
SH3GL1	Ubiquitylation	K7		-0.268	_(ac)SVAGLK(gl)K_
SH3GL1	Ubiquitylation	K8	-0.654		_(ac)SVAGLKK(gl)_
SH3GL1	Ubiquitylation	K76	-0.032	1.606	_LTMLNTVSK(gl)IR_
SH3GL1	Ubiquitylation	K177	-0.477	0.450	_QGK(gl)IPDEELR_
SH3GL1	Phosphorylation	S287	-0.011	0.143	_IAASS(ph)SFR_
SH3GL1	Phosphorylation	S288	0.348	-0.194	_IAASSS(ph)FR_
SH3GL3	Ubiquitylation	K7		-0.268	_(ac)SVAGLK(gl)K_
SH3GL3	Ubiquitylation	K8	-0.654		_(ac)SVAGLKK(gl)_
SNX1	Ubiquitylation	K179	1.013	0.331	_SK(gl)QFAVK_
SNX1	Ubiquitylation	K223	-0.206		_SLIGMTKVK(gl)_
SNX2	Ubiquitylation	K116	0.089	0.156	_IESK(gl)SMSAPVIFDR_
SNX2	Phosphorylation	S119		0.336	_SMS(ph)APVIFDR_
SNX2	Ubiquitylation	K181	0.631	1.039	_SEFSVK(gl)R_
SNX2	Ubiquitylation	K218		-0.014	_SIVGMTK(gl)VK_
SNX2	Ubiquitylation	K220	-0.305		_VK(gl)VGKEDSSSTEFVEK_
SNX2	Ubiquitylation	K294	-0.176		_AADAVNK(gl)MTIK_
SNX27	Phosphorylation	S51		1.585	_SES(ph)GYGFNVR_
SNX4	Ubiquitylation	K199		-0.191	_ETVNETGFQLK(gl)ADSR_
SNX4	Ubiquitylation	K205		-0.587	_LK(gl)ALNATFR_
SNX4	Ubiquitylation	K356		-0.087	_TFSLK(gl)GMTTK_
SNX4	Ubiquitylation	K361		-0.646	_GMTTK(gl)LFGQETPEQR_
SNX4	Ubiquitylation	K392		-0.896	_VLEEQINEGEQQLKSK(gl)_
SNX6	Ubiquitylation	K119	0.721	0.619	_LGEGEGSMTK(gl)EEFTK_
SNX6	Ubiquitylation	K291	0.222		_VSADEDLK(gl)LSDLLK_
SNX6	Ubiquitylation	K307		0.601	_ESQAAK(gl)DLLYR_
SNX8	Ubiquitylation	K201	0.466	0.439	_ESAQCVGDEFLNCK(gl)LATR_
STAM2	Ubiquitylation	K182	-0.024	-0.067	_AIELSLQEQK(gl)QQHTETK_
STAM2	Ubiquitylation	K189	-0.345	-0.068	_QQHTETK(gl)SLYPSSEIQLNNK_
STAM2	Ubiquitylation	K202	-0.516	-0.231	_SLYPSSEIQLNNK(gl)VAR_
STX7	Phosphorylation	S2	-0.818	0.074	_(ac)S(ph)YTPGVGGDPAQLAQR_
STX7	Phosphorylation	T4		0.208	_(ac)SYT(ph)PGVGGDPAQLAQR_
STX7	Ubiquitylation	K24	0.273	1.149	_ISSNIQK(gl)ITQCSVEIQR_
STX7	Ubiquitylation	K71	-1.063	-0.790	_ETDKYIK(gl)EFGSLPTTPSEQR_
STX7	Phosphorylation	T79	0.275	0.476	_EFGSLPTT(ph)PSEQR_
STX7	Phosphorylation	S125		0.381	_AS(ph)SRVS(ph)GSFPEDSSK_
STX7	Phosphorylation	S126	0.375	0.381	_ASS(ph)RVSGSFPEDSSK_
STX7	Phosphorylation	S129	0.553	0.627	_VS(ph)GSFPEDSSK_
STX7	Phosphorylation	S131		0.946	_VSGS(ph)FPEDSSK_
STX7	Ubiquitylation	K138	0.339	1.363	_VSGSFPEDSSK(gl)ER_
TMEM163	Phosphorylation	S12	-0.959	-1.043	_RSS(ph)QGPTVPPPPR_
TMEM163	Phosphorylation	S37		-1.702	_GHAPPAAAPGPAPLS(ph)SPVREPPQLEEER_
TMEM163	Phosphorylation	S38		-1.702	_GHAPPAAAPGPAPLS(ph)SPVREPPQLEEER_
TMEM163	Ubiquitylation	K77	0.674		_LK(gl)PHEAQNYR_
TMEM165	Ubiquitylation	K198	-1.517		_MSPDEGQEELEEVQAELK(gl)K_
TMEM165	Ubiquitylation	K199	-1.102		_MSPDEGQEELEEVQAELK(gl)K_
TMEM165	Ubiquitylation	K208	-1.496	-0.854	_TK(gl)LLNGPGDVETGTSITVPQKK_
TMEM165	Ubiquitylation	K227		-0.650	_LLNGPGDVETGTSITVPQK(gl)K_
TMEM165	Ubiquitylation	K228	-0.843	-0.650	_LLNGPGDVETGTSITVPQKK(gl)_
WASH4P	Ubiquitylation	K151		-0.522	_ALQEK(gl)LK_
WASH4P	Ubiquitylation	K233		0.527	_LFDAPLSISK(gl)R_
WLS	Ubiquitylation	K13		0.869	_AGAIIENMSTKK(gl)_
WLS	Ubiquitylation	K168		0.058	_CTFTSPK(gl)TPEHEGR_
WLS	Ubiquitylation	K206		-0.013	_LPVNEK(gl)K_
WLS	Ubiquitylation	K207	-2.023		_LPVNEKK(gl)_
WLS	Ubiquitylation	K217	-1.452	0.710	_INVGIGEIK(gl)DIR_
WLS	Ubiquitylation	K410		0.878	_NISGK(gl)QSSLPAMSK_
WLS	Ubiquitylation	K419	-1.101	0.564	_QSSLPAMSK(gl)VR_
ZFYVE16	Ubiquitylation	K86	-0.638		_TLK(gl)GLTSIQNEK_
ZFYVE16	Ubiquitylation	K455	-1.793		_K(gl)IDPDQTVIR_
ZFYVE16	Phosphorylation	S939	1.491	1.197	_NEIIQS(ph)PISQVPSVEK_
ZFYVE16	Ubiquitylation	K1202	-2.966	3.670	_LGAEYK(gl)AYPAPLTSIR_
ZFYVE16	Ubiquitylation	K1257	0.166	0.179	_SCIK(gl)IPR_
ZFYVE16	Ubiquitylation	K1364	-0.812		_LALREQK(gl)DFK_
ZFYVE16	Ubiquitylation	K1367	-1.498		_DFK(gl)ITCGK_
ZFYVE16	Ubiquitylation	K1372		0.291	_ITCGK(gl)VDAVDLR_
ZFYVE28	Ubiquitylation	K87	-0.163	-0.341	_DFCVK(gl)FPEEIR_
ZFYVE9	Ubiquitylation	K543	1.139		_GNEATEGSGLLLNSTGDLMK(gl)K_
ZFYVE9	Ubiquitylation	K544	1.139		_GNEATEGSGLLLNSTGDLMK(gl)K_
ZFYVE9	Ubiquitylation	K622	0.886		_NKNDILGKAK(gl)_