Processing
xGen™ Oncology & Inherited Diseases Amplicon Panels
xGen™ 56G Oncology Amplicon Panel
The xGen 56G Oncology Amplicon Panel v2 offers comprehensive and hotspot coverage of 56 oncology-related genes. The panel contains a 263-amplicon design to generate multiplex libraries compatible with Illumina® sequencing platforms, and 104 exonic and gender Sample_ID amplicons for gender identification for tracking tumor-normal pairs and samples in longitudinal studies.
| xGen 56G Oncology Amplicon Panel | |
|---|---|
| Amplicons | 263 |
| Amplicon Size | 92–183 (Average 139 bp) |
| Number of Genes | 56 |
| Genes List | ABL1, AKT1, ALK, APC, ATM, BRAF, CDH1, CDKN2A, CSF1R, CTNNB1, DDR2, DNMT3A, EGFR, ERBB2, ERBB4, EZH2, FBXW7, FGFR1, FGFR2, FGFR3, FLT3, FOXL2, GNA11, GNAQ, GNAS, HNF1A, HRAS, IDH1, IDH2, JAK2, JAK3, KDR, KIT, KRAS, MAP2K1, MET, MLH1, MPL, MSH6, NOTCH1, NPM1, NRAS, PDGFRA, PIK3CA, PTEN, PTPN11, RB1, RET, SMAD4, SMARCB1, SMO, SRC, STK11, TP53, TSC1, VHL (Bold indicates whole CDS coverage) |
| Total Target | 23.7 kb |
| Input Recommended | ~10 ng DNA |
| Time Required | 2.5 hours from DNA-to-libraries |
| Limit of Detection | >1% |
| Sample Compatibility | Cell line, whole blood, cfDNA, FFPE |
| Multiplexing on MiSeq® v3 at 5000X depth (50 M PE reads) | 34 samples |
xGen 57G Pan-Cancer Amplicon Panel
The xGen 57G Pan-Cancer Amplicon Panel offers comprehensive and hotspot coverage of 57 oncology-related genes. The panel generates amplicons that cover over 16,000 COSMIC and 6,000 ClinVar mutations, as well as 104 exonic and gender markers for sample identification. In addition, the panel includes full exon coverage of TP53.
| xGen Amplicon 57G Pan-Cancer Amplicon Panel | |
|---|---|
| Amplicons | 286 |
| Amplicon Size | 92–183 (Average 139 bp) |
| Number of Genes | 57 |
| Genes List | ABL1, AKT1, ALK, APC, ATM, BRAF, CDH1, CDKN2A, CSF1R, CTNNB1, DDR2, DNMT3A, EGFR, ERBB2, ERBB4, EZH2, FBXW7, FGFR1, FGFR2, FGFR3, FLT3, FOXL2, GNA11, GNAQ, GNAS, HNF1A, HRAS, IDH1, IDH2, JAK2, JAK3, KDR, KIT, KRAS, MAP2K1, MET, MLH1, MPL, MSH6, NOTCH1, NPM1, NRAS, PDGFRA, PIK3CA, PTEN, PTPN11, RB1, RET, SMAD4, SMARCB1, SMO, SRC, STK11, TP53, TSC1, TSC2, VHL (Bold indicates whole CDS coverage) |
| Total Target | 25.9 kb |
| Input Recommended | ~10 ng DNA |
| Time Required | 2.5 hours from DNA-to-libraries |
| Limit of Detection | > 1% |
| Sample Compatibility | Cell line, whole blood, cfDNA, FFPE |
| Multiplexing on MiSeq® v3 at 5000X depth (50 M PE reads) | 34 samples |
xGen TP53 Amplicon Panel
The xGen™ TP53 Panel offers comprehensive coverage of all coding regions of the TP53 gene, using a 21-amplicon design to generate multiplex libraries compatible with Illumina sequencing platforms and is compatible with short DNA fragments from both FFPE and cfDNA samples.
| Feature | xGen TP53 Amplicon Panel |
|---|---|
| Amplicons | 21 |
| Amplicon Size | 106–154 (Average 140 bp) |
| Number of Genes | 1 |
| Genes List | TP53 (full CDS) |
| Total Target | 1.8 kb |
| Input Recommended | ~10 ng |
| Time Required | 2.5 hours from DNA-to-libraries |
| Limit of Detection | >1% |
| Sample Compatibility | Cell line, whole blood, cfDNA, FFPE |
| Multiplexing on MiSeq® v2 at 5000X Depth | 285 Samples |
xGen EGFR Pathway Amplicon Panel
The xGen EGFR Pathway Amplicon Panel generates 17 amplicons with an average size of 136 bp that cover hotspots in 4 key genes in the EGFR pathway─BRAF, KRAS, NRAS, and contiguous regions of EGFR.
| Feature | xGen EGFR Pathway Amplicon Panel |
|---|---|
| Amplicons | 17 |
| Amplicon Size | 107–155 (Average 136 bp) |
| Number of Genes | 4 |
| Genes List | EGFR, BRAF, KRAS, NRAS |
| Total Target | 1.5 kb |
| Input Recommended | ~10 ng |
| Time Required | 2.5 hours from DNA-to-libraries |
| Limit of Detection | >1% |
| Sample Compatibility | Cell line, whole blood, cfDNA, FFPE |
| Multiplexing on MiSeq® v2 at 5000X Depth | 350 |
xGen BRCA1 BRCA2 Amplicon Panel
The xGen BRCA1 BRCA2 Amplicon Panel generates 246 amplicons with an average size of 148 bp that covers the entire coding sequence of BRCA1 and BRCA2 genes.
| Feature | xGen BCRA1/2 Amplicon Panel |
|---|---|
| Amplicons | 246 |
| Amplicon Size | 107–208 (Average 146 bp) |
| Number of Genes | 2 |
| Genes List | BRCA1, BRCA2 |
| Total Target | 23.0 kb |
| Input Recommended | ~10 ng |
| Time Required | 2.5 hours from DNA-to-libraries |
| Limit of Detection | > 1% |
| Sample Compatibility | FFPE, fresh frozen, genomic DNA |
| Multiplexing on MiSeq® v2 at 500X Depth (germline) | 243 |
xGen BRCA1 BRCA2 PALB2 Amplicon Panel
The xGen BRCA1 BRCA2 PALB2 Amplicon Panel generates 302 amplicons with an average size of 149 bp that covers the entire coding sequence of BRCA1 and BRCA2 genes, as well as all coding exons and 5’ and 3’ UTR regions of PALB2.
| Feature | xGen BRCA1 BRCA2 PALB2 Amplicon Panel |
|---|---|
| Amplicons | 302 |
| Amplicon Size | 107–235 (Average 149 bp) |
| Number of Genes | 3 |
| Genes List | BRCA1, BRCA2, PALB2 |
| Total Target | 29.0 kb |
| Input Recommended | ~10 ng |
| Time Required | 2.5 hours from DNA-to-libraries |
| Limit of Detection | > 1% |
| Sample Compatibility | FFPE, fresh frozen, genomic DNA |
| Multiplexing on MiSeq® v2 at 500X Depth (germline) | 198 |
xGen CFTR Amplicon Panel
The xGen™ CFTR Amplicon Panel offers a comprehensive approach to investigate disease-relevant mutations and variants in the Cystic Fibrosis Transmembrane Conductance Regulator (CFTR) gene. This simple, rapid panel is used to research, discover, and confirm common and rare mutations in the CFTR gene. This unique panel utilizes 87 amplicons covering all exons, including 5’ and 3’ UTRs and regions of interest in introns 1, 12, 22, and 25. It also captures all ACMG‑recommended mutations, as well as offers a standardized solution to identify additional variants. The CFTR panel requires sample input as low as 10 ng per sample and is compatible with multiple sample types.
| Feature | xGen CFTR Amplicon Panel |
|---|---|
| Amplicons | 87 |
| Amplicon Size | 120–250 (Average 172 bp) |
| Number of Genes | 1 |
| Genes List | CFTR (All exons including 5’ and 3’ UTRs, select intronic regions (1, 12, 22, and 25)) |
| Total Target | 10.0 kb |
| Input Recommended | ~10 ng |
| Time Required | 2.5 hours from DNA-to-libraries |
| Limit of Detection | > 1% |
| Sample Compatibility | FFPE, fresh frozen, genomic DNA |
| Multiplexing on MiSeq® v2 at 500X Depth (germline) | 384 |
xGen Colorectal Amplicon Panel
xGen™ Colorectal Cancer Panel offers comprehensive and exon-level hotspot coverage of 16 clinically relevant colorectal genes. The panel covers over 11,000 COSMIC and 3,500 ClinVar mutations and generates targeted libraries compatible with Illumina® sequencing platforms. In addition, the panel includes full exon coverage of TP53 and enables validated CNV detection in the ERBB2 gene. Our customization allows you to add focused content to achieve your most optimal design. Either combine pre-validated content such as our Lynch Syndrome content or add your own targets.
| Feature | xGen Colorectal Amplicon Panel |
|---|---|
| Amplicons | 186 |
| Amplicon Size | 103–183 (Average 143 bp) |
| Number of Genes | 16 |
| Genes List | AKT1, APC, BRAF, ERBB2, ERBB4, KIT, KRAS, NOTCH1, NRAS, PDGFRA, PIK3CA, POLE, PTEN, SMAD4, STK11, TP53 (Bold indicates whole CDS coverage) |
| Total Target | 17.0 kb |
| Input Recommended | ~10 ng |
| Time Required | 2.5 hours from DNA-to-libraries |
| Limit of Detection | >1% |
| Sample Compatibility | Cell line, whole blood, cfDNA, FFPE |
| Multiplexing on MiSeq® v2 at 5000X Depth | 32 |
xGen Lung Amplicon Panel
The xGen Lung Amplicon Panel offers comprehensive and exon-level hotspot coverage of 17 key genes for studying both small cell lung cancer (SCLC) and non-small lung cancer (NSCLC). The panel covers over 11,000 COSMIC and 2,500 ClinVar mutations and generates targeted libraries compatible with Illumina® sequencing platforms.
| Feature | xGen Lung Amplicon Panel |
|---|---|
| Amplicons | 208 |
| Amplicon Size | 106–165 (Average 142 bp) |
| Number of Genes | 17 |
| Genes List | AKT1, ALK, ARAF, BRAF, EGFR, ERBB2, ERBB4, FGFR1, FGFR2, FGFR3, KRAS, MAP2K1, MET, NRAS, PIK3CA, PTEN, TP53 (Bold indicates whole CDS coverage) |
| Total Target | 18.0 kb |
| Input Recommended | ~10 ng |
| Time Required | 2.5 hours from DNA-to-libraries |
| Limit of Detection | >1% |
| Sample Compatibility | Cell line, whole blood, cfDNA, FFPE |
| Multiplexing on MiSeq® v2 at 5000X Depth | 28 |
xGen Lynch Syndrome Amplicon Panel
A multigene panel to identify mutations in DNA Mismatch Repair (MMR) genes with comprehensive and exon-level hotspot coverage of 4 clinically-relevant genes: MLH1, MSH2, MSH6, and PMS2. And with sensitivity down to 1% allele frequency to identify both germline and somatic mutations in the same panel.
| Feature | xGen Lynch Syndrome Amplicon Panel |
|---|---|
| Amplicons | 180 |
| Amplicon Size | 116–150 (Average 139 bp) |
| Number of Genes | 4 |
| Genes List | MLH1, MSH2, MSH6, PMS2 |
| Total Target | 15 kb |
| Input Recommended | ~10 ng |
| Time Required | 2.5 hours from DNA-to-libraries |
| Limit of Detection | >1% |
| Sample Compatibility | Cell line, whole blood, cfDNA, FFPE |
| Multiplexing on MiSeq® v2 at 5000X Depth | 33 |
xGen Myeloid Amplicon Panel
The xGen Myeloid Amplicon Panel offers comprehensive and exon-level hotspot coverage of 23 myeloid disease related genes. The panel covers over 12,000 COSMIC and 1,900 ClinVar mutations and generates targeted libraries compatible with Illumina® sequencing platforms.
| Feature | xGen Myeloid Amplicon Panel |
|---|---|
| Amplicons | 478 |
| Amplicon Size | 106–199 (Average 142 bp) |
| Number of Genes | 23 |
| Genes List | ASXL1, CALR, CEBPA, CSF3R, DNMT3A, EZH2, FLT3, HRAS, IDH1, IDH2, JAK2, JAK3, KDM6A, KIT, MPL, NPM1, RUNX1, SETBP1, SF3B1, SRSF2, TET2, TP53, U2AF1 (Bold indicates whole CDS coverage) |
| Total Target | 42.0 kb |
| Input Recommended | ~10 ng |
| Time Required | 2.5 hours from DNA-to-libraries |
| Limit of Detection | >1% |
| Sample Compatibility | Cell line, whole blood, gDNA, FFPE |
| Multiplexing on MiSeq® v2 at 5000X Depth | 12 |
RUO22-1276_002