OncoFu Elite (for RNA) Panel v1.0

Catalog Number:

#1001511
#1001512

OncoFu Elite (for RNA) Panel v1.0 targets 105 genes which are the most common or relevant to clinically significant fusions in solid tumor studies. The probes cover all transcript coding regions and some UTR regions involved in the occurrence of fus- ions which are officially included in RefSeq 109. The panel supports the enrichment of fusion, mutation, and gene expression information at the RNA level.

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Gene List
ABL1*†	ABL2	AKT3	ALK	ARHGAP26	AXL	BCL2†	BCOR*	BRAF	BRD3*	BRD4*	CAMTA1
CCNB3*	CCND1	CIC†	COL6A3	CSF1R	DNAJB1	EGFR	EML4	EPC1*	ERBB2†	ERG*	ESR1
ETS1	ETV1*	ETV4	ETV5*	ETV6*	EWSR1	FGFR1	FGFR2	FGFR3	FGR*	FLI1	FLT3
FOSB	FOXO1	FUS	GLI1	HMGA2	INSR	JAK2*	JAK3	JAZF1	KIF5B†	KIT†	KMT2A
MAML2	MAST1	MAST2	MEAF6	MET*	MLLT3	MSH2	MSMB†	MUSK	MYB	MYC	NCOA1*
NCOA2*	NOTCH1	NOTCH2	NOTCH3†	NR4A3*	NRG1	NTRK1	NTRK2	NTRK3	NUMBL	NUTM1	PAX3
PAX7	PDGFB	PDGFRA	PDGFRB†	PHF1*	PIK3CA*	PKN1	PLAG1*	PPARG*	PRKACA	PRKCA	PRKCB
RAF1	RARA*	RELA	RET	ROS1	RSPO2*	RSPO3	SS18	STAT6*	TAF15	TCF12†	TCF3
TERT	TFE3	TFEB	TFG	THADA	TMPRSS2*†	TP53*	USP6*	YWHAE*

* Covers all 5'-UTRs; †Covers all 3'-UTRs

Performance

Capture Performance

Figure 1. Capture performance of OncoFu Elite (for RNA) Panel v1.0 (OncoFu E) A. Typical capture sequencing data; B. Comparison of the relative abundan- ce of target genes between capture sequencing and RNAseq. Libraries of Human Brain Total RNA Standards (Clontech, 636530) were prepared using NadPrep Total RNA-To-DNA Module with NadPrep DNA Universal Library Preparation Kit Series, and separately carried out the direct sequencing (RNAseq) and OncoFu E capture sequencing (OncoFu E).

Gene Fusion Detection

Figure 2. Fusion detection of FFPE fusion RNA standards by OncoFu Elite (for RNA) Panel v1.0.A. Comparison of OncoFu E targeted enrichment and RNAseq;B. Targeted enrichment performance of OncoFu E after multiple dilution of the standards. Libraries of 100 ng Seraseq® FFPE Tumor Fusion RNA v4 Reference Material were prepared using NadPrep Total RNA-To-DNA Module with NadPrep DNA Universal Library Preparation Kit Series, separately carried out the direct sequencing (RNAseq), rRNA-depleted RNAseq (NEBNext rRNA Depletion Kit v2), and RNA capture sequencing (OncoFu E). 1 Gb data of each library was used for fusion analysis (FusionCatcher v1.10).

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

Catalog

Color of Tube Cap

Item

Volume

Package/Storage

1001512

OncoFu Elite (for RNA) Panel v1.0, 16 rxn

70 μL

-20℃

1001511

OncoFu Elite (for RNA) Panel v1.0, 96 rxn

415 μL

-20℃

Can RNA samples be directly used for library preparation with this kit?

No. This kit is compatible only with gDNA or cDNA as initial samples. For RNA samples, reverse transcription to generate cDNA is required prior to library preparation.

What is the recommended input range? How to handle inputs exceeding this range?

This kit supports 50-2,000 ng of gDNA or cDNA. For input amount exceeds 2,000 ng, split the sample into multiple reactions to maintain amplification efficiency.

What is the insert size of this kit? How to select sequencing read length?

The main peak of PCR products by using this kit is ~270 bp. PE150 sequencing is recommended for high-quality coverage.

What is the recommended sequencing data volume for IGTR immune repertoire analysis?

A minimum of 0.3 Gb is recommended to detect clones at 0.01% abundance with an input of 200 ng. Increase data volume to enhance sensitivity for low-frequency clones.

Is this kit suitable for minimal residual disease (MRD) monitoring?

Yes. This kit includes IG Primer Mix and TR Primer Mix with gene-specific primers provided in separate tubes, allowing flexible combination in a single amplification reaction. With its high sensitivity, the kit meets the requirements for MRD monitoring technology development and clinical applications, making it ideal for low-frequency variant detection scenarios.