Liver Cancer Cell Lines Database

Cell line description

Cell line name	Synonyms	Cellosaurus ID	Tumor type	Reference	Supplier	Culture medium
HCC.3	AKH13	CVCL_0C57	Hepatocellular Carcinoma	Sagmeister et al. Br J Cancer (2008) [PMID: 18594539]	Gift from Bettina Grasl-Kraupp (Austria)	DMEM, high glucose pyruvate (#41966-052, Thermo Fisher Scientific) + 10% FBS + 1X penicillin/streptomycin

Age	Gender	Geographic Origin	Ethnicity	HBV	HCV
50	Male	Austria	European	No	Yes

Transcriptomic subgroup: CL1

Mutations and CNAs (204)

Gene nameFilter by Gene name	Alteration type	Variant class	Annotation transcript	gNomen	cNomen	pNomen	PPH prédiction
ASCC1	Mutation	In-Frame	ENST00000342444.4	g.73862691_73862692ins33 g.73862691_73862692ins33	c.1075_1076insGCAAAAAAAAGGAAAAAAAAACATAGTATCTAT c.1075_1076insGCAAAAAAAAGGAAAAAAAAACATAGTATCTAT	p.Asp359_Ser400delins8X p.Asp359_Ser400delins8X	damaging damaging
RERGL	Mutation	In-Frame	ENST00000229002.2	g.18234192_18234193ins153 g.18234192_18234193ins153	c.550_551insTGACATGGAGACATAGAATGTTACTGCTAGACCAGACACTCCAAATGAAAGAAGTGCTGCCATAACTGCAGCCCCAGAATTTGGCAATCTCTGGTATCTCAGTCAGGTCAATGATAGGATGACAACAGAGGAAAGAGAACAATTCCCCACAGG c.550_551insTGACATGGAGACATAGAATGTTACTGCTAGACCAGACACTCCAAATGAAAGAAGTGCTGCCATAACTGCAGCCCCAGAATTTGGCAATCTCTGGTATCTCAGTCAGGTCAATGATAGGATGACAACAGAGGAAAGAGAACAATTCCCCACAGG	p.Pro184_Val205delins21X p.Pro184_Val205delins21X	damaging damaging
CYFIP1	Mutation	In-Frame	ENST00000313077.7	g.22954235_22954240del g.22954235_22954240del	c.1385_1390del c.1385_1390del	p.Gln462_Val463del p.Gln462_Val463del	damaging damaging
GZF1	Mutation	In-Frame	ENST00000338121.5	g.23345961_23345963del g.23345961_23345963del	c.941_943del c.941_943del	p.Lys314del p.Lys314del	damaging damaging
SFI1	Mutation	In-Frame	ENST00000400288.2	g.32014362_32014363insCTG g.32014362_32014363insCTG	c.3687_3688insCTG c.3687_3688insCTG	p.Ala1229_Cys1230insLeu p.Ala1229_Cys1230insLeu	damaging damaging
ALDOB	Mutation	In-Frame	ENST00000374855.4	g.104192168_104192170del g.104192168_104192170del	c.191_193del c.191_193del	p.Phe64del p.Phe64del	damaging damaging
TSC1	Mutation	In-Frame	ENST00000298552.3	g.135771988_135771989insGCT g.135771988_135771989insGCT	c.3128_3129insAGC c.3128_3129insAGC	p.Ser1043delinsArgAla p.Ser1043delinsArgAla	damaging damaging
DDX20	Mutation	Missense	ENST00000369702.4	g.112303425G>A g.112303425G>A	c.778G>A c.778G>A	p.Asp260Asn p.Asp260Asn	benign benign
DENND2C	Mutation	Missense	ENST00000393276.3	g.115143469T>C g.115143469T>C	c.1757A>G c.1757A>G	p.Lys643Arg p.Lys643Arg	benign benign
IGSF3	Mutation	Missense	ENST00000318837.6	g.117150851C>T g.117150851C>T	c.935G>A c.935G>A	p.Arg312His p.Arg312His	probably damaging probably damaging
POGZ	Mutation	Missense	ENST00000271715.2	g.151378683T>C g.151378683T>C	c.2828A>G c.2828A>G	p.Asp943Gly p.Asp943Gly	benign benign
SPTA1	Mutation	Missense	ENST00000368147.4	g.158607931C>T g.158607931C>T	c.5081G>A c.5081G>A	p.Arg1694His p.Arg1694His	probably damaging probably damaging
ADAMTS4	Mutation	Missense	ENST00000367995.3	g.161168120A>G g.161168120A>G	c.298T>C c.298T>C	p.Ser100Pro p.Ser100Pro	benign benign
MIR205HG	Mutation	Missense	NM_001104548.1	g.209603789A>T g.209603789A>T	c.131A>T c.131A>T	p.Tyr44Phe p.Tyr44Phe	NA NA
PTPRC	Mutation	Missense	ENST00000367376.2	g.198676028C>A g.198676028C>A	c.845C>A c.845C>A	p.Ser282Tyr p.Ser282Tyr	benign benign
GPATCH2	Mutation	Missense	ENST00000366934.3	g.217793189G>T g.217793189G>T	c.709C>A c.709C>A	p.Gln237Lys p.Gln237Lys	benign benign
OBSCN	Mutation	Missense	ENST00000570156.2	g.228461096A>T g.228461096A>T	c.6110A>T c.6110A>T	p.D2037V p.D2037V	NA NA
PEX10	Mutation	Missense	ENST00000288774.3	g.2339977C>A g.2339977C>A	c.514G>T c.514G>T	p.Ala172Ser p.Ala172Ser	benign benign
HCRTR1	Mutation	Missense	ENST00000373705.1	g.32090716A>G g.32090716A>G	c.1084A>G c.1084A>G	p.Ser362Gly p.Ser362Gly	probably damaging probably damaging
CYP4B1	Mutation	Missense	ENST00000271153.4	g.47280765T>G g.47280765T>G	c.899T>G c.899T>G	p.Leu300Arg p.Leu300Arg	probably damaging probably damaging
SLC35D1	Mutation	Missense	ENST00000235345.5	g.67518477G>A g.67518477G>A	c.301C>T c.301C>T	p.Leu101Phe p.Leu101Phe	benign benign
COL24A1	Mutation	Missense	ENST00000370571.2	g.86334514T>C g.86334514T>C	c.3143A>G c.3143A>G	p.Glu1048Gly p.Glu1048Gly	probably damaging probably damaging
SEP15	Mutation	Missense	ENST00000331835.5	g.87369110A>T g.87369110A>T	c.97T>A c.97T>A	p.F33I p.F33I	benign benign
NOC2L	Mutation	Missense	ENST00000327044.6	g.880159G>C g.880159G>C	c.2165C>G c.2165C>G	p.Ala722Gly p.Ala722Gly	possibly damaging possibly damaging
COL17A1	Mutation	Missense	ENST00000353479.5	g.105797412C>T g.105797412C>T	c.3190G>A c.3190G>A	p.Val1064Ile p.Val1064Ile	probably damaging probably damaging

Mutational Signature

Fusion transcripts (12)

Fusion Name	Gene (1)	Chr (1)	Genomic position hg19 (1)	Gene (2)	Chr (2)	Genomic position hg19 (2)	Supporting reads	Consistance fusion	Fusion type
ATF2--CHN1	ATF2	chr2	175945387	CHN1	chr2	175816929	12	straight	DEL
CDH7--RP11-775G23.1	RP11-775G23.1	chr18	63310004	CDH7	chr18	63429882	51	straight	DEL
DYNLT3--RPS6KA3	RPS6KA3	chrX	20252875	DYNLT3	chrX	37701157	696	straight	DUP
ESPNP--RCC2	ESPNP	chr1	17022376	RCC2	chr1	17735559	289	inverted	INV
GOLGA5--RIN3	GOLGA5	chr14	93286180	RIN3	chr14	93142819	15	straight	DUP
KRT28--PTGES3L-AARSD1	PTGES3L-AARSD1	chr17	41116122	KRT28	chr17	38955208	180	straight	DEL
LINC01226--LOC101927895	LOC101927895	chr1	19537052	LINC01226	chr1	31987625	18	NA	DEL
LINC02027--LINC02050	LINC02050	chr3	80820105	LINC02027	chr3	81144262	33	NA	DEL
LSAMP--RP11-384F7.2	RP11-384F7.2	chr3	117716028	LSAMP	chr3	115805402	29	straight	DEL
LUC7L--SDHB	SDHB	chr1	17380442	LUC7L	chr16	258186	152	straight	TRANS
PREX1--RP5-906C1.1	RP5-906C1.1	chr20	47465971	PREX1	chr20	47364416	34	NA	DEL
SBF2--SWAP70	SBF2	chr11	9917489	SWAP70	chr11	9715692	26	straight	INV

HBV RNA fusions (0)

Breakpoint on human genome (hg19)	Affected gene	Breakpoint on HBV genome (X02763)	Nb of paired reads (HG19 HBV)
No records found.

RNA expression (20715)

microRNA expression (2332)

Protein expression (126)

Drugs (35)

DrugFilter by Drug	AUC	GI50
Bortezomib	0.27	0.009
Doxorubicin	0.55	0.13
PF.04691502	0.61	0.165
Alvespimycin	0.66	0.75
Paclitaxel	0.68	0.423
Cabozantinib	0.68	0.5439
Sorafenib_Trametinib	0.69	2.22
Rapamycin	0.7	5.72
Vinblastine	0.73	1.034
Tivantinib	0.77	0.9
PHA.665752	0.77	1.158
Sorafenib_MK.2206	0.77	1.45
Navitoclax	0.78	1.575
CD532	0.78	1.228
Linsitinib	0.79	2.465

Liver Cancer Cell Lines Database

Cell Line: HCC.3

Transcriptomic subgroup: CL1

Mutational Signature

Liver Cancer Cell Lines
Database