NanOnCT Panel

Catalog Number:

#1001902 (16 rxn)
#1001901 (96 rxn)

NanOnCT Panel v1.0 is a compactable panel designed for analysis of solid tumors and liquid biopsy. This panel involves a total number of 69 genes with selected regions covered. With an optimized probe design, this panel offers a highly uniform coverage over targeted regions for both FFPE and cell-free DNA.

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Gene List

Genes with coding regions covered

AKT1	ALK	*APC*	AR	ARAF	*ATM*	*BRAF*	*BRCA1*	*BRCA2*	*CCND1*
*CDH1*	*CDK12*	*CDK4*	*CDK6*	*CDKN2A*	CTNNB1	DDR2	*EGFR*	*ERBB2*	ERCC2
ESR1	EZH2	*FGFR1*	*FGFR2*	FGFR3	GNA11	GNAQ	GNAS	HRAS	IDH1
IDH2	JAK2	JAK3	KDM6A	*KIT*	*KRAS*	MAP2K1	MAP2K2	*MDM2*	*MET*
*MLH1*	MPL	*MSH2*	*MSH6*	MTOR	*MYC*	*NF1*	NPM1	NRAS	NTRK1
NTRK2	NTRK3	*PDGFRA*	*PIK3CA*	*PMS2*	PTCH1	*PTEN*	*PTPN11*	*RAF1*	*RB1*
RET	ROS1	SMARCB1	*SMO*	*STK11*	TERT	*TP53*	TSC1	TSC2

Genes with full coding regions shown in bold.

Genes with selected introns covered

ALK

BRAF

EGFR

FGFR2

FGFR3

MET

NTRK1

NTRK2

PDGFRA

RET

ROS1

Microsatellite Markers

BAT-25	BAT-26	BAT-40	BAT-RII	NR-21	NR-22	NR-24	NR-27	MONO-27
D2S123	D5S346	D17S261	D17S520	D18S34

Performance

Table 1. On-target rate for gDNA and cfDNA samples

Platforms

gDNA

On-target rate (%)

cfDNA

On-target rate (%)

HiSeq X Ten, PE150

87.02

87.35

DNBSEQ-G400, PE100

85.47

87.00

The DNA libraries were prepared using NadPrep library kits with 50 ng of human genomic DNA (Promega, G1512) and 10 ng of plasma cfDNA from a healthy donor, respectively. 1 M read pairs were subsampled for the analysis. On-target rates were calculated as the percentage of mapped read pairs that overlap with probe regions.

Coverage Uniformity

Fig 1. Improved design cfDNA capture. The optimized design of NanOnCT Panel v1.0 showed improved coverage uniformity for cfDNA libraries on both Illumina^®️ and MGI platforms.

Variant Analysis

Fig 2. Evaluation of NanOnCT Panel v1.0 on the analysis of SNVs and indels. DNA libraries were prepared from Onco SNV Multiplex 1-25% gDNA (Genewell, GW-OGTM004) using NadPrep library kits. The enriched libraries were sequenced either on HiSeq X Ten (PE150) or DNBSEQ-G400 (PE100).

Fig 3. Evaluation of NanOnCT Panel v1.0 on the analysis of structural variations. A. & B. Gene amplification; C. SNVs with regions of high or low GC content and long insertion / deletion. The DNA libraries were prepared from Onco Structural Multiplex 5% gDNA (GeneWell, GW- OGTM001) using NadPrep library kits. The libraries were enriched using the NanOnCT Panel v1.0. The enriched libraries were sequenced either on HiSeq X Ten (PE150) or DNBSEQ-G400 (PE100).

Coverage Over Selected Microsatellite Markers

Fig 4. Effective coverage over microsatellite markers. The enriched libraries were sequenced on a HiSeq X Ten platform (PE150). Only reads spanning full-length of microsatellite markers were counted as effective reads.

Fig 5. Length distribution of microsatellite site in a sample with microsatellite instability (MSI) for A. BAT-25 and B. NR-27.

For research use only. Not for use in diagnostic procedures.

Catalog#	Color Of Tube Cap	Item	Volume	Package/Storage
1001902		NanOnCT Panel v1.0, 16 rxn	70 μl×1	–20℃
1001901		NanOnCT Panel v1.0, 96 rxn	415 μl×1	–20℃