Patient Derived Xenografts (PDXs)

PDXs, ending in an “x”, are patient direct and have never been in vitro. Xenografts ending in “m” are established from a cell line.

The defination for the abbreviation are given below the table. Please scroll all the way down.

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Childhood Cancer Data Initiative (CCDI): Pediatric In Vivo Testing Program - Neuroblastoma
dbGaP Study Accession: phs003163.v1.p1

Childhood Cancer Data Initiative (CCDI): CCDI Pediatric In Vivo Testing Program - Leukemia
dbGaP Study Accession: phs003164.v2.p1

PDXs in our Childhood Cancer Repository which can be found in the CCDI PIVOT data are marked with a dbGaP info icon in the table below.

PDX		Phase of Therapy	Sample Type	Stage	MYCN*	ALK	TERT mRNA	TMM	Tp53	WES	RNA Seq	Cell Line (CL)	Cyclo + Topo	Injection Type
COG-N-415x		PD-PM	Blood	4	397	F1174L	+	TERT	WT	✓	✓	COG-N-415	✓	SQ
COG-N-421x		PD-PM	Blood	4	220	WT	+	TERT	WT	✓	✓	COG-N-421	✓	SQ
COG-N-424x		Dx	Tumor	4	198	WT	+	TERT	WT	✓	✓	-	✓	SQ
COG-N-440x		PD-PM	Blood	4	300	WT	+	TERT	WT	✓	✓	COG-N-440	✓	SQ & TV
COG-N-452x	«	PD-PM	Blood	4	156	F1174L	+	TERT	WT		✓	COG-N-452	✓	SQ
COG-N-453x	«	PD-PM	Tumor	4		WT	+	TERT	WT		✓	COG-N-453		SQ
COG-N-470x		PD-PM	Blood	4	2	F1174L	+	TERT			✓	COG-N-470	✓	SQ
COG-N-471x		PD-PM	Blood	4	228	WT	+	TERT	WT	✓	✓	COG-N-471	✓	SQ
COG-N-480x		Dx	BM	4	159	WT	-	EST	WT	✓	✓	COG-N-480h2	✓	SQ & TV
COG-N-496x		Dx	BM	4	104	WT	+	TERT	WT	✓	✓	COG-N-496	✓	SQ
COG-N-518x		Dx	BM	4	5			EST			✓	COG-N-518h		SQ
COG-N-519x		PD-PM	Blood	4	775	WT	+	TERT	WT	✓	✓	COG-N-519	✓	SQ
COG-N-546x		Dx	BM	4	334						✓	COG-N-546		SQ
COG-N-549x		PD	Tumor	4	2	F1174L	+	TERT	WT	✓	✓	COG-N-549	✓	SQ
COG-N-557x		Dx	Tumor	4		F1245L	+	TERT	WT	✓	✓	COG-N-557	✓	SQ
COG-N-560x		Dx	Tumor	4		WT	+	TERT	WT	✓	✓	-	✓	SQ
COG-N-561x		PD-PM	Blood	4		F1245I	+	TERT	WT	✓	✓	COG-N-561	✓	SQ & TV
COG-N-564x		PD-PM	Blood	4		WT	+	TERT	WT	✓	✓	COG-N-564h		SQ
COG-N-573x		Dx	BM	4			+	TERT			✓	COG-N-573	✓	SQ & TV
COG-N-579x		PD	BM	4							✓	COG-N-579	✓	SQ
COG-N-589x		Dx	Tumor	4		WT	-	ALT	WT	✓	✓	COG-N-589		SQ
COG-N-590x		Dx	Tumor	4		WT	+	TERT	WT	✓	✓	COG-N-590	✓	SQ
COG-N-603x	«	Dx	Tumor	4		WT	+	TERT	WT	✓	✓	COG-N-603	✓	SQ
COG-N-615x		PD-PM	Blood	4			+	TERT			✓	COG-N-615		SQ
COG-N-618x	«	PD	BM	4		WT	+	TERT	WT	✓	✓	COG-N-618	✓	SQ
COG-N-619x	«	PD	BM	4		WT	+	TERT	WT	✓	✓	COG-N-619		SQ
COG-N-620x		PD	Tumor	4		WT	-	ALT	WT	✓	✓	-		SQ
COG-N-623x	«	PD	Tumor	4		WT	+	TERT	WT	✓	✓	COG-N-623		SQ
COG-N-624x		PD	Tumor	4		WT	+	TERT	WT	✓	✓	-		SQ
COG-N-625x		PD	Tumor	4		WT	-	ALT	WT	✓	✓	COG-N-625hnb	✓	SQ
COG-N-627x		Dx	Tumor	4							✓	COG-N-627hnb		SQ
COG-N-628x		Dx	BM	4		WT	+	TERT	WT	✓	✓	COG-N-628	✓	SQ
COG-N-636x		Dx	Tumor	4			+	TERT			✓	COG-N-636	✓	SQ
COG-N-649x		Dx	Tumor	4			-	EST		✓	✓	-		SQ
COG-N-653x		Dx	Tumor	4							✓	COG-N-652h	✓	SQ
COG-N-660x		PD-PM	Blood	4							✓	COG-N-660hnb		SQ
COG-N-669x		PD-PM	Blood	4				ALT			✓	-		SQ
COG-N-672x		PD-PM	Blood	4							✓	COG-N-672	✓	SQ
COG-N-676x		PD	Tumor	4							✓	-		SQ
COG-N-677x		PD	BM	4							✓	-		SQ
COG-N-682x		Dx	BM	4							✓	COG-N-682		SQ
COG-N-683x		DX	BM	4							✓	COG-N-683	✓	SQ
COG-N-685x		PD-PM	Blood	4							✓	COG-N-685		SQ
COG-N-695x		Dx	Tumor	4							✓	-		SQ
COG-N-697x		Dx	Tumor	4							✓	COG-N-697h		SQ
COG-N-699x		Dx	Tumor	4				ALT			✓	-		SQ
COG-N-700x		Dx	Tumor	4				ALT			✓	COG-N-700		SQ
Felix-PDX		PD-PM	Blood	4	3	F1245C	+		R342	✓	✓	Felix		S

¹ - Phase of therapy for the patient at the time the specimen used to derive the cell line was obtained
Dx (Diagnosis): cell lines derived from samples of patients prior to treatment
PD (Progressive Disease): cell lines derived from samples of patients who relapsed after chemotherapy
PD-BMT: cell lines derived from samples of patients who relapsed after chemotherapy and bone marrow transplantation
PD-PM: cell lines derived from samples of post-mortem patients who relapsed after chemotherapy

BM- Bone Marrow

² -MYCN oncogene amplification
N: MYCN Non-Amplified
A: MYCN Amplified

³ - TP53 gene function
F: Functional
N: Non-Functional

⁴ - EWS/FLI1 Status
FLI1: friend leukemia insertion - chromosome 11, t(11;22)
ERG: ets-related gene - chromosome 21, t(21;22)

ALK mutation

WT: Wild Type

TMM:Telomere Maintenance mechanism

✓ = Available/available upon request

SQ- subcutaneous injection

TV- intravenous (tail vein)

EST- ever shorter telomeres, i.e. telomerase and ALT negative

TERT+- telomerase positive

ALT - alternate lengthening of telomeres, C-circle positive

Cyclo + Topo - PDX was assessed for response in mice to cyclophosphamide + topotecan.

WES - Whole Exome Secovencing

CHILDHOOD CANCER REPOSITORY

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Patient Derived Xenografts (PDXs)