Table S2. DEGs between lung SCC with and without metastasis.

Gene	Gene ID	FC	FDR
Up-regulated genes
VGF	7425	6.302272	1.90E-06
VSIG10L	147645	5.870895	1.28E-05
MFAP5	8076	5.335057	0.000187
HNF1A	6927	5.184579	0.000382
RPTOR	57521	5.125631	0.000449
F2	2147	5.062773	0.000535
ATF5	22809	4.959337	0.000714
GAL	51083	4.944154	0.000714
ITPKA	3706	4.839489	0.001009
MND1	84057	4.835881	0.001009
TSPAN5	10098	4.772975	0.001176
DRP2	1821	4.672904	0.001748
DHCR7	1717	4.524834	0.003136
C19orf76	199800	4.502532	0.003261
KRT71	112802	4.393386	0.004713
UPK2	7379	4.335088	0.00555
SMARCD2	6603	4.324975	0.005592
C4orf49	84709	4.297849	0.005983
SRP68	6730	4.237439	0.007321
TEX13B	56156	4.221298	0.007491
NDUFC1	4717	4.102	0.009792
PRB3	5544	4.098234	0.009792
PIWIL2	55124	4.084314	0.010104
KRT18	3875	4.064585	0.010387
C9orf70	84850	4.058666	0.010503
TAC3	6866	4.049676	0.010714
NPSR1	387129	4.036762	0.011201
SLC9A2	6549	4.011459	0.011298
GRIK1	2897	4.008088	0.011298
ABCC2	1244	4.007931	0.011298
C4BPB	725	3.986718	0.011558
TCHP	84260	3.966038	0.011919
KCNH6	81033	3.96427	0.011919
TRIM54	57159	3.951173	0.012284
PROCR	10544	3.941815	0.012469
NEB	4703	3.92073	0.013004
ZNF787	126208	3.920271	0.013004
FOXH1	8928	3.920242	0.013004
ZWINT	11130	3.918314	0.013004
GPR155	151556	3.916905	0.013004
SYNPO2L	79933	3.904368	0.01311
FA2H	79152	3.894921	0.01344
NCAPG2	54892	3.873486	0.014273
NBAS	51594	3.86964	0.014273
POLR3G	10622	3.868808	0.014273
COG1	9382	3.868597	0.014273
PRR4	11272	3.856872	0.014627
SFRS9	8683	3.839756	0.015322
SCN3A	6328	3.826201	0.015533
ADI1	55256	3.826146	0.015533
DDX54	79039	3.825855	0.015533
CPS1	1373	3.80012	0.016528
SAPS1	22870	3.77652	0.017456
MAPT	4137	3.766167	0.017892
APOC3	345	3.76264	0.018047
MIPOL1	145282	3.757985	0.018235
HRC	3270	3.752649	0.018276
IL1RAPL1	11141	3.749319	0.018375
PLK4	10733	3.747044	0.018375
SMAGP	57228	3.732997	0.018471
DKK4	27121	3.730844	0.018471
CADPS	8618	3.723286	0.01859
USP32	84669	3.722682	0.01859
NPNT	255743	3.711312	0.019352
SYNGR4	23546	3.708512	0.019391
PSMC5	5705	3.706852	0.019391
USP7	7874	3.694849	0.020068
NR2E1	7101	3.686376	0.020569
ONECUT1	3175	3.683024	0.020731
ASPSCR1	79058	3.669242	0.021581
SAP30BP	29115	3.667889	0.021597
TESK1	7016	3.651205	0.022574
PCDHGB4	8641	3.640394	0.022895
RAD51C	5889	3.63531	0.02311
HES7	84667	3.632468	0.02311
APOA2	336	3.627873	0.023268
C19orf48	84798	3.626093	0.023293
NADSYN1	55191	3.62274	0.023306
NAA15	80155	3.62065	0.023398
GALNT13	114805	3.608216	0.024172
DCXR	51181	3.606123	0.024193
ING2	3622	3.605638	0.024193
C9orf82	79886	3.59792	0.024535
MED13	9969	3.596717	0.024552
FAM104A	84923	3.590437	0.024911
PITPNC1	26207	3.589103	0.024911
SMC6	79677	3.588884	0.024911
CYP3A5	1577	3.581118	0.025177
NTSR1	4923	3.579779	0.025198
TRAP1	10131	3.57807	0.025198
OR51E2	81285	3.575338	0.025228
KPNA2	3838	3.570615	0.025532
MELK	9833	3.565422	0.025758
RRM2	6241	3.539854	0.027316
C4orf41	60684	3.539614	0.027316
FUT6	2528	3.531912	0.028026
HIST1H3H	8357	3.525661	0.0283
C4orf48	401115	3.524516	0.028325
CELA1	1990	3.521018	0.028538
COL25A1	84570	3.519272	0.028538
TSPO2	222642	3.517829	0.028538
MRPL38	64978	3.516225	0.028538
DUSP13	51207	3.499272	0.029593
CLTC	1213	3.49865	0.029593
GAR1	54433	3.489856	0.03009
SLC25A10	1468	3.489392	0.03009
ABCE1	6059	3.488184	0.03009
CCDC124	115098	3.476216	0.031069
XRCC6BP1	91419	3.467209	0.031602
FDXR	2232	3.465684	0.031616
KLC2	64837	3.459955	0.032099
C21orf45	54069	3.45586	0.032196
ARHGDIA	396	3.433486	0.034049
HBQ1	3049	3.428947	0.034321
CIT	11113	3.419155	0.035096
CENPE	1062	3.409378	0.035835
SNX31	169166	3.407213	0.036019
MRPL21	219927	3.404929	0.036117
DCTD	1635	3.399858	0.03628
KRTAP5-7	440050	3.399706	0.03628
C17orf53	78995	3.398381	0.03628
CLTA	1211	3.377629	0.038227
FOXK2	3607	3.368591	0.039039
C14orf80	283643	3.361435	0.039747
PWP2	5822	3.36065	0.039755
FIBCD1	84929	3.358374	0.039889
UBTF	7343	3.356782	0.039896
UCP1	7350	3.354004	0.040174
LOC92659	92659	3.352846	0.040174
FAM84B	157638	3.342063	0.041043
DDN	23109	3.339528	0.041043
MTL5	9633	3.336217	0.041112
CST4	1472	3.335754	0.041112
CENPO	79172	3.33492	0.041132
SLC5A5	6528	3.326312	0.04147
RPS6KB1	6198	3.325852	0.04147
H2AFB1	474382	3.320782	0.042023
VWA5B2	90113	3.319972	0.042044
C16orf75	116028	3.318308	0.042194
LOC127841	127841	3.313993	0.042443
LSM6	11157	3.312778	0.042527
LMBR1	64327	3.30957	0.042815
MUC6	4588	3.307915	0.042882
PGP	283871	3.306565	0.042882
DDX4	54514	3.306498	0.042882
VRK1	7443	3.303783	0.043098
PCGF2	7703	3.302845	0.043105
GINS2	51659	3.302439	0.043105
RWDD4A	201965	3.300758	0.043155
HIST1H2BM	8342	3.298546	0.043306
C9orf140	89958	3.295731	0.043642
C12orf43	64897	3.285002	0.044826
ALDH1A1	216	3.283336	0.04499
DHX8	1659	3.277351	0.045645
UBE2O	63893	3.273996	0.045794
HSPBP1	23640	3.27391	0.045794
NPPC	4880	3.263528	0.047087
THOC4	10189	3.258293	0.047551
AKR7A3	22977	3.255861	0.047642
GGNBP1	449520	3.253542	0.047824
BCAT2	587	3.252302	0.047828
LOC81691	81691	3.251006	0.047944
TLK2	11011	3.247125	0.048489
CLGN	1047	3.24657	0.048489
HSD17B1	3292	3.243008	0.04858
CKM	1158	3.237947	0.049187
LONP1	9361	3.237664	0.049187
GDF11	10220	3.236492	0.049227
FGF3	2248	3.232167	0.049726
Down-regulated genes
ZNF208	7757	−6.99816	5.04E-08
C8orf46	254778	−6.37244	1.81E-06
TNF	7124	−5.93751	1.28E-05
GRIA1	2890	−5.90534	1.28E-05
LINGO4	339398	−5.8607	1.28E-05
S100A7A	338324	−5.42097	0.000144
NDP	4693	−5.33403	0.000187
IL22RA2	116379	−5.12306	0.000449
POU2F3	25833	−5.09145	0.000493
MIA	8190	−5.04813	0.000542
FOXI2	399823	−5.02927	0.000562
PCDHGA4	56111	−5.01861	0.000562
SYCE1	93426	−4.94241	0.000714
FCER1A	2205	−4.88237	0.000926
C7orf16	10842	−4.82702	0.001009
TRIM58	25893	−4.82627	0.001009
C2orf73	129852	−4.82333	0.001009
KLHDC7A	127707	−4.81194	0.001009
SCG3	29106	−4.81048	0.001009
FAM169B	283777	−4.7216	0.001467
LOC283731	283731	−4.68577	0.001693
CCDC42B	387885	−4.6414	0.001977
FAIM2	23017	−4.61988	0.002131
SLC47A2	146802	−4.56176	0.002738
PCDHGA9	56107	−4.52173	0.003136
UPP2	151531	−4.50633	0.003261
PDC	5132	−4.48382	0.003474
C1orf192	257177	−4.4712	0.003598
HTR3A	3359	−4.44092	0.004047
HSD17B2	3294	−4.42747	0.004129
EMID1	129080	−4.4268	0.004129
S100B	6285	−4.38458	0.004789
WBSCR17	64409	−4.38066	0.004789
DPYS	1807	−4.37219	0.004877
CD1A	909	−4.36288	0.004988
HP	3240	−4.32821	0.005592
CDH20	28316	−4.30398	0.005983
TMPRSS5	80975	−4.28326	0.006278
NDN	4692	−4.27326	0.006453
C5orf13	9315	−4.26551	0.006567
OLR1	4973	−4.23143	0.007383
MSTN	2660	−4.22817	0.007383
C1orf186	440712	−4.20012	0.008098
GPR17	2840	−4.18922	0.008366
C9orf44	158314	−4.1585	0.00943
C4orf7	260436	−4.1494	0.009666
HEPACAM2	253012	−4.14051	0.009791
CRLF1	9244	−4.13588	0.009791
LOC284749	284749	−4.12985	0.009791
IGFN1	91156	−4.1266	0.009791
DYNLRB2	83657	−4.12242	0.009791
ART3	419	−4.12232	0.009791
MAGEE2	139599	−4.12076	0.009791
CCDC129	223075	−4.11658	0.009791
G6PC2	57818	−4.11556	0.009791
CORO2B	10391	−4.11263	0.009791
RBM44	375316	−4.11151	0.009791
CNGA3	1261	−4.10112	0.009792
MBL1P	8512	−4.09773	0.009792
HPD	3242	−4.09711	0.009792
OR2W3	343171	−4.08612	0.010104
GRIK4	2900	−4.07796	0.010114
AGTR2	186	−4.07697	0.010114
FAM55D	54827	−4.07446	0.010114
MOGAT2	80168	−4.07341	0.010114
PNMA5	114824	−4.05686	0.010503
CCDC141	285025	−4.0289	0.011298
ACOT12	134526	−4.02808	0.011298
WDR93	56964	−4.02511	0.011298
TPTE2	93492	−4.02483	0.011298
PCDHGA6	56109	−4.01945	0.011298
C13orf15	28984	−4.01794	0.011298
IL1B	3553	−4.01286	0.011298
CTCFL	140690	−4.01208	0.011298
SSTR1	6751	−4.00644	0.011298
HEPHL1	341208	−3.99112	0.011558
WFDC12	128488	−3.9907	0.011558
HTR3C	170572	−3.9881	0.011558
PADI2	11240	−3.98802	0.011558
STAC2	342667	−3.98702	0.011558
ACSL4	2182	−3.98589	0.011558
CLDN2	9075	−3.98299	0.011566
RASD2	23551	−3.98158	0.011566
MYO1H	283446	−3.97564	0.011756
GPIHBP1	338328	−3.97226	0.011822
TRPC2	7221	−3.96666	0.011919
CA4	762	−3.961	0.011984
FOXI1	2299	−3.95747	0.012063
CPB2	1361	−3.94544	0.012448
TEX9	374618	−3.94412	0.012448
SHC4	399694	−3.93515	0.012719
FAM123A	219287	−3.9236	0.013004
PAGE5	90737	−3.91727	0.013004
PSAPL1	768239	−3.91368	0.013026
C1orf150	148823	−3.91293	0.013026
LOC646851	646851	−3.91116	0.013026
ROPN1L	83853	−3.90859	0.013031
CRABP1	1381	−3.90756	0.013031
AMZ1	155185	−3.90189	0.013151
ADAMTS8	11095	−3.88394	0.013963
C1QL2	165257	−3.88144	0.01401
PLD5	200150	−3.87838	0.014089
TCTEX1D4	343521	−3.86347	0.014479
DRGX	644168	−3.8586	0.014627
TMPRSS3	64699	−3.85615	0.014627
CYB561D1	284613	−3.84443	0.015243
CLEC4C	170482	−3.83844	0.015322
FOLR3	2352	−3.83843	0.015322
ACRV1	56	−3.83238	0.015533
TMEM100	55273	−3.83079	0.015533
GPR128	84873	−3.82961	0.015533
FNDC5	252995	−3.82395	0.015558
CLDN23	137075	−3.81787	0.015702
DYDC2	84332	−3.81611	0.015702
KLK7	5650	−3.81601	0.015702
DRD2	1813	−3.81539	0.015702
SLC5A9	200010	−3.81427	0.015702
FAM166B	730112	−3.7975	0.016606
CFP	5199	−3.79313	0.016803
COL9A2	1298	−3.78771	0.016969
ALDH1A3	220	−3.7876	0.016969
SERPINA3	12	−3.78639	0.016969
RYR3	6263	−3.78106	0.017238
IQSEC3	440073	−3.77321	0.017563
HPR	3250	−3.7722	0.017563
RIMS3	9783	−3.75729	0.018235
CYP2B6	1555	−3.75556	0.018261
RNF122	79845	−3.75386	0.018276
DNAH6	1768	−3.74677	0.018375
HAPLN4	404037	−3.74597	0.018375
DENND3	22898	−3.74354	0.018391
FAM183A	440585	−3.74312	0.018391
TRPM5	29850	−3.7399	0.018471
SLC6A13	6540	−3.73831	0.018471
CHIT1	1118	−3.73584	0.018471
FIGF	2277	−3.73417	0.018471
RXRG	6258	−3.73254	0.018471
DBC1	1620	−3.73111	0.018471
MS4A8B	83661	−3.72991	0.018471
TTTY2	60439	−3.72925	0.018471
RHO	6010	−3.72784	0.018478
PTX3	5806	−3.72667	0.018478
CUX2	23316	−3.70606	0.019391
C22orf15	150248	−3.70595	0.019391
SPRR2G	6706	−3.70009	0.019751
CHI3L1	1116	−3.6862	0.020569
TNFRSF19	55504	−3.6782	0.021029
CRTAC1	55118	−3.67011	0.021581
C1orf175	374977	−3.66343	0.021827
ACSBG1	23205	−3.66287	0.021827
KRT31	3881	−3.65343	0.022543
C6orf217	1E+08	−3.6508	0.022574
NEDD9	4739	−3.64821	0.022701
BST1	683	−3.64606	0.022722
C5orf49	134121	−3.64571	0.022722
TSNAXIP1	55815	−3.64271	0.022888
OCA2	4948	−3.64101	0.022895
ARHGAP6	395	−3.63432	0.02311
SCGB3A2	117156	−3.63351	0.02311
NANOS1	340719	−3.63266	0.02311
PCDHB18	54660	−3.62948	0.023268
CACNA1G	8913	−3.62744	0.023268
DRD5	1816	−3.62405	0.023306
BMP3	651	−3.62323	0.023306
TRY6	154754	−3.61309	0.023993
CELF3	11189	−3.60886	0.024172
PSG8	440533	−3.60801	0.024172
ERVFRDE1	405754	−3.60466	0.024193
FBN3	84467	−3.60111	0.02435
PTCHD2	57540	−3.60091	0.02435
CHI3L2	1117	−3.59413	0.0247
PRY2	442862	−3.58729	0.024968
C16orf89	146556	−3.58584	0.025011
FAM151A	338094	−3.58328	0.02516
PDK4	5166	−3.58162	0.025177
C3orf16	389161	−3.57796	0.025198
MMP3	4314	−3.57631	0.025228
PAK3	5063	−3.57472	0.025228
POLB	5423	−3.56716	0.025758
BIRC2	329	−3.56631	0.025758
SCGB3A1	92304	−3.56338	0.025865
TSPAN2	10100	−3.56094	0.026012
C4A	720	−3.55936	0.026075
COL29A1	256076	−3.55698	0.02616
LEP	3952	−3.55605	0.02616
TCTEX1D1	200132	−3.55567	0.02616
TMEM217	221468	−3.55251	0.026382
TMEM232	642987	−3.54522	0.027026
CPAMD8	27151	−3.54242	0.027217
MMP1	4312	−3.53001	0.028088
LOC148824	148824	−3.52948	0.028088
SMYD1	150572	−3.52739	0.028213
PDGFA	5154	−3.51856	0.028538
ADHFE1	137872	−3.51763	0.028538
DCLK1	9201	−3.51695	0.028538
KNDC1	85442	−3.50966	0.028964
C19orf59	199675	−3.5085	0.028964
CCR6	1235	−3.50812	0.028964
NRGN	4900	−3.5079	0.028964
CCL17	6361	−3.50786	0.028964
SPOCK2	9806	−3.50282	0.029391
OBP2B	29989	−3.50221	0.029391
SCN1A	6323	−3.49743	0.029631
PDYN	5173	−3.49134	0.03009
FABP7	2173	−3.48896	0.03009
LMOD3	56203	−3.48822	0.03009
SCTR	6344	−3.4856	0.030285
SNTN	132203	−3.48335	0.030444
SLC25A27	9481	−3.47904	0.030841
GNAO1	2775	−3.47505	0.031107
KCNK17	89822	−3.47269	0.031284
PCDHA9	9752	−3.47128	0.031351
LRP2	4036	−3.46908	0.03151
CCDC157	550631	−3.46663	0.031602
C21orf62	56245	−3.46092	0.032082
KAL1	3730	−3.45759	0.032196
RASGEF1B	153020	−3.45638	0.032196
NPPA	4878	−3.45595	0.032196
LCE3E	353145	−3.45363	0.032366
GAS2	2620	−3.45174	0.032496
FAM92B	339145	−3.44844	0.032797
TDRD6	221400	−3.44545	0.033063
MEGF11	84465	−3.441	0.033388
CX3CR1	1524	−3.44075	0.033388
CYP2D6	1565	−3.44039	0.033388
CLDN19	149461	−3.43628	0.033799
CLLU1	574028	−3.42963	0.034321
CAT	847	−3.42928	0.034321
BOC	91653	−3.42237	0.03506
IRX1	79192	−3.4209	0.035093
TMEM190	147744	−3.42053	0.035093
SLC46A2	57864	−3.41846	0.035096
RASGRF1	5923	−3.41816	0.035096
KANK4	163782	−3.41106	0.035835
KCNE1L	23630	−3.41057	0.035835
BAAT	570	−3.41002	0.035835
KIAA1644	85352	−3.40608	0.036066
OR4N4	283694	−3.40208	0.03628
PCDHA10	56139	−3.40013	0.03628
DNAH5	1767	−3.39858	0.03628
MT1F	4494	−3.39841	0.03628
SH2D7	646892	−3.39276	0.03693
CFTR	1080	−3.3898	0.037229
TAL1	6886	−3.38671	0.037548
IGFALS	3483	−3.38561	0.037597
EFCAB12	90288	−3.38423	0.037683
CTSH	1512	−3.38248	0.037822
ZNF98	148198	−3.37939	0.038146
CCDC65	85478	−3.37732	0.038227
C15orf37	283687	−3.3738	0.038615
CLEC3B	7123	−3.37133	0.03886
RGS13	6003	−3.36932	0.039039
SFTPD	6441	−3.36378	0.03962
TEKT3	64518	−3.36159	0.039747
KLHDC8B	200942	−3.35827	0.039889
ROPN1	54763	−3.35679	0.039896
CRLF2	64109	−3.35271	0.040174
EFCAB6	64800	−3.34864	0.040663
RASL12	51285	−3.34363	0.041043
IL20	50604	−3.3433	0.041043
APOL4	80832	−3.34189	0.041043
CAMK1G	57172	−3.34104	0.041043
DNAI1	27019	−3.3407	0.041043
COL14A1	7373	−3.33932	0.041043
CNTN4	152330	−3.33921	0.041043
PRSS1	5644	−3.339	0.041043
BMF	90427	−3.33803	0.041084
TMEM151B	441151	−3.33632	0.041112
LOC283050	283050	−3.33424	0.041132
KLF17	128209	−3.3305	0.04147
RRAD	6236	−3.32852	0.04147
GP5	2814	−3.32848	0.04147
CLDN25	644672	−3.32741	0.04147
SOX11	6664	−3.32658	0.04147
WDR38	401551	−3.3261	0.04147
SRD5A2	6716	−3.32582	0.04147
C1orf228	339541	−3.32106	0.042023
NAV3	89795	−3.31762	0.042197
SPRR2B	6701	−3.31648	0.042268
C14orf139	79686	−3.31408	0.042443
TKTL1	8277	−3.31158	0.042608
HAND1	9421	−3.30775	0.042882
RICTOR	253260	−3.30458	0.043076
CACNG1	786	−3.30069	0.043155
RDH16	8608	−3.30017	0.043155
PVALB	5816	−3.2924	0.044062
SEC14L3	266629	−3.29154	0.044096
HPCAL4	51440	−3.28873	0.044437
DIRC3	729582	−3.2857	0.044817
AGRP	181	−3.28238	0.045042
FAM81B	153643	−3.27818	0.045613
PLA2G2F	64600	−3.27614	0.04574
CCDC30	728621	−3.27408	0.045794
PF4	5196	−3.27303	0.045836
CSDC2	27254	−3.26912	0.046371
RNF112	7732	−3.26788	0.046472
SLC17A8	246213	−3.26127	0.04736
PURG	29942	−3.25821	0.047551
TG	7038	−3.25766	0.047551
KIT	3815	−3.25764	0.047551
DES	1674	−3.25617	0.047642
TEKT2	27285	−3.25453	0.047762
ZNF474	133923	−3.25294	0.047824
CDX1	1044	−3.24595	0.048491
C6orf165	154313	−3.24447	0.048565
ATP2B3	492	−3.24396	0.048565
WFDC2	10406	−3.2437	0.048565
LPO	4025	−3.24181	0.048682
WDR91	29062	−3.23624	0.049227
SGK223	157285	−3.23513	0.049315
AQP1	358	−3.2312	0.049791
TMEM114	283953	−3.23056	0.049798

Lung SCC, lung squamous cell carcinoma; DEG, differentially expressed genes; FC, fold change; FDR, false discovery rate; ABC, ATP-binding cassette.