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)
WDR62	2
TACC2	2	0.520	-0.920
PAFAH1B1	1	0.820	-0.330				1.632	0.711
NDE1	1
DICER1	1	-0.810	0.800	1.748			-0.207	-0.634
YWHAE	1	0.440	-0.380		1.095	-0.160
YWHAE	1	0.440	-0.380	1.129			0.621	0.321
BBS2	1	-0.810	0.820
TACC1	1	-0.060	-0.800
TACC3	0	1.030	-0.910
LRP6	0	0.210	0.050
PSEN1	0	0.930	-1.110
NCOA1	0	1.240	-0.460
BAX	0	1.590	-1.170				0.811	0.359
HIF1A	0	-0.480	0.400
PTPRS	0	0.140	0.270				-0.194	0.365
BTBD3	0	1.450	-0.720
ATIC	0	-0.830	0.480				-0.329	0.553
BBS4	0	0.310	0.160
MCPH1	0	-0.270	-0.170
CDK5	0	-1.100	1.740	-0.236			1.063	0.312
TSC1	0	1.100	-0.150
GNG12	0	1.160	-1.150				-1.317
GNG12	0	1.160	-1.150
FOXL1	0	0.560	-0.350	-1.217	-0.424	0.659
SOX2	0	-0.250	0.870
PLCB1	0	-0.300	-0.220
NF1	0	1.000	-0.500				0.444	-0.190
ATG7	0	-0.140	0.720	0.708
CCDC85C	0	0.000	0.220
CCDC85C	0	0.320	-0.860

Gene name	PTM type	PTM site	UV	UV (MG132)	Sequence
ATIC	Ubiquitylation	K195	-0.448		_K(gl)QYSKGVSQMPLR_
ATIC	Ubiquitylation	K199	-0.427	-0.247	_QYSK(gl)GVSQMPLR_
ATIC	Ubiquitylation	K397	0.429		_NNGVVDK(gl)SLFSNVVTK_
ATIC	Ubiquitylation	K406	0.213	0.405	_SLFSNVVTK(gl)NK_
ATIC	Ubiquitylation	K408	0.438	0.468	_SLFSNVVTKNK(gl)_
BAX	Ubiquitylation	K57		-1.174	_MGGEAPELALDPVPQDASTK(gl)K_
BAX	Ubiquitylation	K58	-1.718	-1.174	_MGGEAPELALDPVPQDASTKK(gl)_
BAX	Ubiquitylation	K64	0.708	1.306	_LSECLK(gl)R_
BBS2	Ubiquitylation	K231		-0.482	_FGYALSNGTVGVYDK(gl)TSR_
BBS2	Ubiquitylation	K360		-1.721	_NYEENAK(gl)AELASPLNEADGHR_
BBS2	Phosphorylation	S365		2.366	_AELAS(ph)PLNEADGHR_
BBS2	Ubiquitylation	K659		-0.582	_DLLNGYK(gl)IR_
BBS4	Ubiquitylation	K28		-0.615	_TQFPVSTESQK(gl)PR_
BBS4	Ubiquitylation	K302		-2.331	_YVAAISCLK(gl)R_
BBS4	Ubiquitylation	K408		-2.242	_NALAQYQEMEK(gl)K_
BBS4	Ubiquitylation	K409		-2.242	_NALAQYQEMEK(gl)K_
BTBD3	Ubiquitylation	K352		0.438	_QDLALSIENK(gl)R_
BTBD3	Ubiquitylation	K408		-0.868	_KPELQFVSK(gl)AR_
BTBD3	Ubiquitylation	K446		-1.286	_CDSIQFAVDK(gl)R_
CCDC85C	Phosphorylation	S178	0.042		_S(ph)SIDSQASLSGPLSGGAPGAGAR_
CCDC85C	Phosphorylation	S179	0.042		_S(ph)SIDSQASLSGPLSGGAPGAGAR_
CCDC85C	Ubiquitylation	K285	0.218		_LLEGDK(gl)LLAQQAGSGEFR_
CDK5	Ubiquitylation	K56	0.606	0.237	_EICLLK(gl)ELK_
FOXL1	Phosphorylation	S6	0.325	0.055	_YS(ph)VSSPNSLGVVPYLGGEQSYYR_
FOXL1	Phosphorylation	S235		-1.239	_TENGTCPS(ph)PPQPLS(ph)PAAALGSGSAAAVPK_
FOXL1	Phosphorylation	S241		-1.239	_TENGTCPS(ph)PPQPLS(ph)PAAALGSGSAAAVPK_
FOXL1	Phosphorylation	S259	-0.376	-0.198	_IES(ph)PDSSSSSLSSGSSPPGSLPSAR_
FOXL1	Phosphorylation	S320	0.313	0.178	_GS(ph)PQSAAAELSSGLLASAAASSR_
FOXL1	Phosphorylation	S323		0.347	_GSPQS(ph)AAAELSSGLLASAAASSR_
FOXL1	Ubiquitylation	K554	-0.030	0.013	_TSGAFVYDCSK(gl)F_
GNG12	Ubiquitylation	K4	0.230	0.493	_(ac)SSK(gl)TASTNNIAQAR_
GNG12	Ubiquitylation	K34	0.515	1.067	_VSK(gl)ASADLMSYCEEHAR_
HIF1A	Ubiquitylation	K10		-1.686	_(ac)MEGAGGANDK(gl)K_
HIF1A	Ubiquitylation	K11		-1.686	_(ac)MEGAGGANDK(gl)K_
HIF1A	Ubiquitylation	K173		-0.662	_MK(gl)CTLTSR_
HIF1A	Ubiquitylation	K186		-0.590	_TMNIK(gl)SATWK_
HIF1A	Ubiquitylation	K252		-0.784	_HSLDM(ox)K(gl)FSYCDER_
HIF1A	Ubiquitylation	K371		-0.508	_PVESSDMK(gl)MTQLFTK_
HIF1A	Ubiquitylation	K378		-0.077	_MTQLFTK(gl)VESEDTSSLFDK_
HIF1A	Ubiquitylation	K390		-0.348	_VESEDTSSLFDK(gl)LKK_
HIF1A	Ubiquitylation	K392		-0.546	_VESEDTSSLFDKLK(gl)_
HIF1A	Ubiquitylation	K393		-0.451	_VESEDTSSLFDKLKK(gl)_
HIF1A	Ubiquitylation	K710		-1.696	_TTVPEEELNPK(gl)ILALQNAQR_
LRP6	Ubiquitylation	K1443		-0.221	_GK(gl)SMISSLSIMGGSSGPPYDR_
MCPH1	Phosphorylation	S333	-0.272	0.038	_YRLS(ph)PTLSSTK_
MCPH1	Phosphorylation	T335	-0.306		_YRLSPT(ph)LSSTK_
NCOA1	Phosphorylation	S22	0.503	0.810	_KGS(ph)PCDTLASSTEK_
NDE1	Ubiquitylation	K270	2.830		_VGALESK(gl)LASCR_
NDE1	Phosphorylation	S282	-0.767	-0.382	_NLVYDQS(ph)PNR_
NDE1	Phosphorylation	S306		-2.156	_RPS(ph)STSVPLGDK_
NF1	Ubiquitylation	K471		0.218	_MAPSLTFKEK(gl)_
NF1	Phosphorylation	S864		-0.458	_SNSGLATYS(ph)PPMGPVSER_
NF1	Phosphorylation	T2514		0.076	_GSEGYLAATYPTVGQT(ph)SPR_
NF1	Phosphorylation	S2515	0.071	0.316	_GSEGYLAATYPTVGQTS(ph)PR_
NF1	Phosphorylation	S2543	0.698	0.655	_S(ph)FDHLISDTK_
PAFAH1B1	Ubiquitylation	K76	-0.530		_LNEAK(gl)EEFTSGGPLGQK_
PLCB1	Phosphorylation	S1199	-0.494		_TPS(ph)SEELGGDIPGKEFDTPL_
PLCB1	Phosphorylation	S1200		-0.483	_TPSS(ph)EELGGDIPGKEFDTPL_
PSEN1	Phosphorylation	S313		0.844	_VSKNS(ph)KYNAESTER_
PSEN1	Ubiquitylation	K314	0.016	0.414	_NSK(gl)YNAESTER_
PSEN1	Phosphorylation	S366	-0.340	0.055	_AAVQELSS(ph)SILAGEDPEER_
PSEN1	Phosphorylation	S367	0.005	0.066	_AAVQELSSS(ph)ILAGEDPEER_
PTPRS	Ubiquitylation	K1650	-0.595	-1.027	_LLASSK(gl)AHTSR_
PTPRS	Ubiquitylation	K1665	-0.790		_FISANLPCNK(gl)FK_
SOX2	Phosphorylation	S251	0.157	-0.109	_SEASSS(ph)PPVVTSSSHSR_
TACC1	Phosphorylation	S44	-0.293	-0.032	_GGAAGEDEAGGPEGDPEEEDS(ph)QAETK_
TACC1	Phosphorylation	S91	0.291	1.551	_S(ph)QESQEADEQLVAEVVEK_
TACC1	Phosphorylation	S94		1.530	_SQES(ph)QEADEQLVAEVVEK_
TACC2	Phosphorylation	S2072		0.249	_RKS(ph)TDSVPISK_
TACC2	Phosphorylation	S2226	1.598	2.720	_VQNS(ph)PPVGR_
TACC2	Phosphorylation	S2512	1.543	1.249	_FSS(ph)PTEELDYR_
TACC2	Phosphorylation	S2569	-1.730		_M(ox)SES(ph)PTPCSGSSFEETEALVNTAAK_
TACC3	Phosphorylation	S25	-0.993	-0.186	_NTENCDFLFS(ph)PPEVTGR_
TACC3	Phosphorylation	T59		-2.436	_VTFQT(ph)PLRDPQTHR_
TACC3	Phosphorylation	S71	0.876	1.139	_ILS(ph)PSMASK_
TACC3	Phosphorylation	S175	0.134	0.059	_VS(ph)GSPEQAVEENLSSYSLDR_
TACC3	Phosphorylation	S177	0.248	0.430	_VSGS(ph)PEQAVEENLSSYSLDRR_
TACC3	Phosphorylation	T228		0.779	_AETPHGAEEECKAET(ph)PHGAEEECR_
TACC3	Phosphorylation	T249	-0.679	-0.649	_HGGVCAPAAVAT(ph)SPPGAIPK_
TACC3	Phosphorylation	S250	-0.740	-0.589	_HGGVCAPAAVATS(ph)PPGAIPK_
TACC3	Phosphorylation	T315	1.424		_AM(ox)T(ph)LSPQEEVAAGQMASSSR_
TACC3	Phosphorylation	S317	1.040	1.242	_AM(ox)TLS(ph)PQEEVAAGQM(ox)ASSSR_
TACC3	Phosphorylation	S434	0.179	0.184	_SGCSEAQPPES(ph)PETR_
TACC3	Ubiquitylation	K649		-0.831	_DLDAVVK(gl)ATQEENR_
TACC3	Ubiquitylation	K819	0.067		_TK(gl)ENEELTR_
TSC1	Phosphorylation	S505	0.141	0.350	_GGFDS(ph)PFYR_
WDR62	Phosphorylation	S32	-1.724	-1.340	_RGQS(ph)SPPPAPPICLR_
WDR62	Phosphorylation	S33	-0.818	-1.182	_RGQSS(ph)PPPAPPICLR_
WDR62	Phosphorylation	S49		0.012	_TRLS(ph)TASEETVQNR_
WDR62	Phosphorylation	S1070		0.700	_HHFETLTES(ph)PCR_
WDR62	Phosphorylation	S1123	1.354	1.533	_ATQCLVKS(ph)PEVK_
WDR62	Phosphorylation	T1140	0.715	1.046	_AGT(ph)GYASPDRTHVLAAGK_
WDR62	Phosphorylation	S1144	0.823	1.189	_AGTGYAS(ph)PDRTHVLAAGK_
WDR62	Phosphorylation	S1226	-0.377	-0.367	_S(ph)ISLGDSEGPIVATLAQPLR_
WDR62	Phosphorylation	S1228	-0.358	-0.330	_SIS(ph)LGDSEGPIVATLAQPLR_
WDR62	Phosphorylation	S1248	-1.061	-1.122	_RPS(ph)SVGELASLGQELQAITTATTPSLDSEGQEPALR_
WDR62	Phosphorylation	S1249	-1.023	-1.122	_RPSS(ph)VGELASLGQELQAITTATT(ph)PSLDSEGQEPALR_
WDR62	Phosphorylation	S1255	-1.122		_RPSSVGELAS(ph)LGQELQAITTATTPSLDSEGQEPALR_
WDR62	Phosphorylation	T1268	1.841		_RPS(ph)SVGELASLGQELQAITTATT(ph)PSLDSEGQEPALR_
WDR62	Phosphorylation	S1348		-1.872	_LHGSAFRPSLPAPES(ph)PGLPAHPSNPQLPEAR_
YWHAE	Ubiquitylation	K38	0.710	1.822	_YDEMVESMK(gl)K_
YWHAE	Ubiquitylation	K39		1.734	_YDEMVESMKK(gl)_
YWHAE	Ubiquitylation	K60	0.554	1.732	_NLLSVAYK(gl)NVIGAR_
YWHAE	Ubiquitylation	K83	0.375	0.643	_IISSIEQKEENK(gl)GGEDKLK_
YWHAE	Ubiquitylation	K90	1.103		_GGEDKLK(gl)MIR_
YWHAE	Ubiquitylation	K116	-0.289		_LICCDILDVLDK(gl)HLIPAANTGESK_
YWHAE	Ubiquitylation	K133	0.653	1.264	_VFYYK(gl)M(ox)K_
YWHAE	Ubiquitylation	K152	0.031	0.601	_K(gl)EAAENSLVAYK_
YWHAE	Phosphorylation	S210	0.534	0.506	_AAFDDAIAELDTLS(ph)EESYK_
YWHAE	Phosphorylation	S213		0.541	_AAFDDAIAELDTLSEES(ph)YK_