Liver Cancer Cell Lines Database

Cell line description

Cell line name	Synonyms	Cellosaurus ID	Tumor type	Reference	Supplier	Culture medium
PLC.PRF5		CVCL_0485	Hepatocellular Carcinoma	Alexander et al. S Afr Med J (1976) [PMID: 63998]	ATCC - USA	DMEM, high glucose pyruvate (#41966-052, Thermo Fisher Scientific) + 10% FBS + 1X penicillin/streptomycin

Age	Gender	Geographic Origin	Ethnicity	HBV	HCV
24	Male	South Africa	African	Yes	No

Transcriptomic subgroup: CL1

Mutations and CNAs (901)

Gene nameFilter by Gene name	Alteration type	Variant class	Annotation transcript	gNomen	cNomen	pNomen	PPH prédiction
PRG4	Mutation	In-Frame	ENST00000445192.2	g.186273966_186273971del g.186273966_186273971del	c.510_515del c.510_515del	p.Ser176_Ser177del p.Ser176_Ser177del	damaging damaging
GBF1	Mutation	In-Frame	ENST00000369983.3	g.104118330_104118332del g.104118330_104118332del	c.855_857del c.855_857del	p.Val286del p.Val286del	damaging damaging
MKI67	Mutation	In-Frame	ENST00000368654.3	g.129905754_129905755insGCTGGG g.129905754_129905755insGCTGGG	c.4349_4350insCCCAGC c.4349_4350insCCCAGC	p.Gly1450_Ser1451insProAla p.Gly1450_Ser1451insProAla	damaging damaging
TMEM200C	Mutation	In-Frame	ENST00000383490.2	g.5891376_5891417del g.5891376_5891417del	c.646_687del c.646_687del	p.Lys216_Ala229del p.Lys216_Ala229del	damaging damaging
ARID1A	Mutation	In-Frame	ENST00000324856.7	g.27023020_27023022dup g.27023020_27023022dup	c.126_128dup c.126_128dup	p.Ala45dup p.Ala45dup	damaging damaging
KCNA10	Mutation	Missense	ENST00000369771.2	g.111059991C>A g.111059991C>A	c.1419G>T c.1419G>T	p.Lys473Asn p.Lys473Asn	possibly damaging possibly damaging
TTLL10	Mutation	Missense	ENST00000379289.1	g.1132937G>C g.1132937G>C	c.1732G>C c.1732G>C	p.Gly578Arg p.Gly578Arg	benign benign
PTCHD2	Mutation	Missense	ENST00000294484.6	g.11589913C>A g.11589913C>A	c.2999C>A c.2999C>A	p.Ala1000Glu p.Ala1000Glu	probably damaging probably damaging
CGN	Mutation	Missense	ENST00000271636.7	g.151497337G>T g.151497337G>T	c.1589G>T c.1589G>T	p.Arg530Leu p.Arg530Leu	probably damaging probably damaging
TUFT1	Mutation	Missense	ENST00000368849.3	g.151537026G>T g.151537026G>T	c.350G>T c.350G>T	p.Arg117Leu p.Arg117Leu	probably damaging probably damaging
FLG	Mutation	Missense	ENST00000368799.1	g.152286256G>T g.152286256G>T	c.1106C>A c.1106C>A	p.Thr369Asn p.Thr369Asn	probably damaging probably damaging
TRIM46	Mutation	Missense	ENST00000334634.4	g.155149501C>A g.155149501C>A	c.763C>A c.763C>A	p.His255Asn p.His255Asn	probably damaging probably damaging
IQGAP3	Mutation	Missense	ENST00000361170.2	g.156536317C>A g.156536317C>A	c.147G>T c.147G>T	p.Lys49Asn p.Lys49Asn	benign benign
TTC24	Mutation	Missense	ENST00000368236.3	g.156555756C>T g.156555756C>T	c.1586C>T c.1586C>T	p.Ala529Val p.Ala529Val	benign benign
INSRR	Mutation	Missense	ENST00000368195.3	g.156810796G>T g.156810796G>T	c.3763C>A c.3763C>A	p.Arg1255Ser p.Arg1255Ser	benign benign
KIRREL	Mutation	Missense	ENST00000359209.6	g.158045942C>T g.158045942C>T	c.92C>T c.92C>T	p.Thr31Met p.Thr31Met	possibly damaging possibly damaging
KIRREL	Mutation	Missense	ENST00000359209.6	g.158063206G>A g.158063206G>A	c.1549G>A c.1549G>A	p.Val517Ile p.Val517Ile	benign benign
CD1C	Mutation	Missense	ENST00000368170.3	g.158262151G>T g.158262151G>T	c.606G>T c.606G>T	p.Arg202Ser p.Arg202Ser	probably damaging probably damaging
CD1E	Mutation	Missense	ENST00000368155.3	g.158324221G>A g.158324221G>A	c.113G>A c.113G>A	p.Arg38His p.Arg38His	benign benign
OR6Y1	Mutation	Missense	ENST00000302617.3	g.158517145T>A g.158517145T>A	c.751A>T c.751A>T	p.Thr251Ser p.Thr251Ser	benign benign
OR6Y1	Mutation	Missense	ENST00000302617.3	g.158517490G>A g.158517490G>A	c.406C>T c.406C>T	p.Arg136Cys p.Arg136Cys	probably damaging probably damaging
OR6P1	Mutation	Missense	ENST00000334632.1	g.158532502T>G g.158532502T>G	c.893A>C c.893A>C	p.Lys298Thr p.Lys298Thr	probably damaging probably damaging
OR10X1	Mutation	Missense	ENST00000368150.1	g.158549273G>T g.158549273G>T	c.417C>A c.417C>A	p.Phe139Leu p.Phe139Leu	probably damaging probably damaging
SPTA1	Mutation	Missense	ENST00000368147.4	g.158612244A>T g.158612244A>T	c.4694T>A c.4694T>A	p.Leu1565Gln p.Leu1565Gln	probably damaging probably damaging
SPTA1	Mutation	Missense	ENST00000368147.4	g.158612618C>G g.158612618C>G	c.4591G>C c.4591G>C	p.Ala1531Pro p.Ala1531Pro	benign benign

Mutational Signature

Fusion transcripts (8)

Fusion Name	Gene (1)	Chr (1)	Genomic position hg19 (1)	Gene (2)	Chr (2)	Genomic position hg19 (2)	Supporting reads	Consistance fusion	Fusion type
ARMC6--SUGP2	SUGP2	chr19	19129917	ARMC6	chr19	19153519	259	straight	INV
ATF1--KRT80	ATF1	chr12	51174020	KRT80	chr12	52581303	15	inverted	DEL
ATF1--LINC00592	ATF1	chr12	51174020	LINC00592	chr12	52617229	54	straight	DEL
GATAD2A--ZNF675	GATAD2A	chr19	19496946	ZNF675	chr19	23730888	83	inverted	DEL
HNF1A--POP5	POP5	chr12	121017725	HNF1A	chr12	121418446	40	inverted	DEL
INSL6--JAK2	JAK2	chr9	4992273	INSL6	chr9	5164178	14	inverted	DEL
LDB2--RP11-446J8.1	RP11-446J8.1	chr4	16428062	LDB2	chr4	16547485	19	inverted	DEL
TVP23C--TVP23C-CDRT4	TVP23C	chr17	15449098	TVP23C-CDRT4	chr17	15341516	15	straight	DEL

HBV RNA fusions (8)

Breakpoint on human genome (hg19)	Affected gene	Breakpoint on HBV genome (X02763)	Nb of paired reads (HG19 HBV)
chr2:21,235,076	APOB (exon 26)	331	3
chr3:131,171,968	intergenic	1,417	50
chr11:64,808,415	SAC3D1 (5' UTR)	230 (+ inserted seq)	186
chr12:110,012,612	MVK (intron 1)	456	311
chr13:33,662,698	intergenic	2,134	136
chr13:33,662,260	intergenic	230 (+ inserted seq)	55
chr17:80,059,744	CCDC57 (intron 16)	456	24
chr17:80,065,502	CCDC57 (intron 16)	2,048 (+12pb)	10

RNA expression (20715)

microRNA expression (2332)

Protein expression (126)

Drugs (35)

DrugFilter by Drug	AUC	GI50
Paclitaxel	0.37	0.012
Bortezomib	0.42	0.038
Alvespimycin	0.44	0.033
Vinblastine	0.49	0.035
Tanespimycin	0.53	0.078
Rapamycin	0.59	10.0
PF.04691502	0.6	0.195
Doxorubicin	0.73	0.795
Tivantinib	0.79	3.34
Trametinib	0.79	10.0
Dasatinib	0.81	10.0
Selumetinib	0.82	10.0
CD532	0.83	2.128
Sorafenib_MK.2206	0.85	4.9
Sorafenib_Trametinib	0.86	9.09

Liver Cancer Cell Lines Database

Cell Line: PLC.PRF5

Transcriptomic subgroup: CL1

Mutational Signature

Liver Cancer Cell Lines
Database