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Models:
Wanda Brown
WandaB/
CancerSEEKv1
0
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[b8d756]: / aar3247_Suppl. Excel_seq3_v1.xlsx

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# Table S1. Primer sequences for multiplex PCR assays. Unnamed: 1 Unnamed: 2 Unnamed: 3 Unnamed: 4 Unnamed: 5 Unnamed: 6
1 nan nan nan nan nan nan nan
2 Amplicon Name Amplicon-specific forward primer sequence Amplicon-specific reverse primer sequence Gene Genomic coordinates of amplified region* Region of interest length (bp) Amplicon length (bp)
3 NRAS_0055_0062 TGGTCTCTCATGGCACTGTACT ATGGTGAAACCTGTTTGTTGG NRAS chr1:115256502-115256571 27 70
4 NRAS_4_14 TTGCTGGTGTGAAATGACTGA GATTGTCAGTGCGCTTTTCC NRAS chr1:115258719-115258794 35 76
5 CTNNB1_0032_0039 ACTGGCAGCAACAGTCTTACCT ACTCAGAGAAGGAGCTGTGGTAGT CTNNB1 chr3:41266074-41266144 25 71
6 CTNNB1_0039_0046 CTGGACTCTGGAATCCATTCTG TTCCTCAGGATTGCCTTTACC CTNNB1 chr3:41266094-41266165 29 72
7 PIK3CA_80_89 TTGAAAAAGCCGAAGGTCAC GTAAGTGTTACTCAAGAAGCAGAAAGG PIK3CA chr3:178916824-178916901 31 78
8 PIK3CA_0345 CAGAATAAAAATTCTTTGTGCAACC TGACTTTACCTTATCAATGTCTCGAA PIK3CA chr3:178921520-178921586 16 67
9 PIK3CA_0542_0551 TTTTAGCACTTACCTGTGACTCCA CAATTTCTACACGAGATCCTCTCTC PIK3CA chr3:178936056-178936135 31 80
10 PIK3CA_1039_1050 CCAATCCATTTTTGTTGTCCA TGAGCAAGAGGCTTTGGAGT PIK3CA chr3:178952038-178952116 38 79
11 FBXW7_505 ACCCTCCTGCCATCATATTG GGCCAGTGTTTACATGTTTTGA FBXW7 chr4:153247261-153247331 29 71
12 FBXW7_474_482 TGTCTCAATATCCCAAACCCTAA TTGTTTTTCTGTTTCTCCCTCTG FBXW7 chr4:153247332-153247409 32 78
13 FBXW7_464_472A CCATGACAAGATTTTCCCTTACC CACCTTATATGGGCATACTTCCACT FBXW7 chr4:153249338-153249413 28 76
14 FBXW7_361_371 TGCAGAGTTCAGTTACCTTAGGAGA TGCATACATCAGACAGCACAGA FBXW7 chr4:153251868-153251947 33 80
15 APC_1304_1310 GATCTTCAGCTGACCTAGTTCCAA CAGATTCTGCTAATACCCTGCAA APC chr5:112175178-112175246 22 69
16 APC_1450_1458 GTCCACTCTCTCTCTTTTCAGCA CCTCAAACAGCTCAAACCAAG APC chr5:112175618-112175690 29 73
17 EGFR_856_867 GCAGCATGTCAAGATCACAGAT TGCCTCCTTCTGCATGGTAT EGFR chr7:55259486-55259565 38 80
18 BRAF_594_602 TGGGACCCACTCCATCG ATATTTCTTCATGAAGACCTCACAGTAA BRAF chr7:140453112-140453191 35 80
19 CDKN2A_7_88 CAACTGCGCCGACCCC CAGCGTGTCCAGGAAGCC CDKN2A chr9:21971076-21971148 39 73
20 CDKN2A_051_057 ACCCTGGCTCTGACCATTC CAGCAGCTCCGCCACTC CDKN2A chr9:21971169-21971241 37 73
21 PTEN_91_98 ACCACAGTTGCACAATATCCTTT TCTTCACAAAAGGGTTTGATAAGTTC PTEN chr10:89692763-89692836 25 74
22 PTEN_130 CATGTTGCAGCAATTCACTGT CCGATGTAATAAATATGCACATATCATTAC PTEN chr10:89692868-89692942 24 75
23 PTEN_136 GGAAAGGGACGAACTGGTG TAGGGCCTCTTGTGCCTTTA PTEN chr10:89692895-89692972 39 78
24 PTEN_145_153 CTCTGGTCCTTACTTCCCCATAG CATATTTATTACATCGGGGCAAA PTEN chr10:89692926-89693000 29 75
25 FGFR2_252 AGTCCGGCTTGGAGGATG TCCCCACTCCTCCTTTCTTC FGFR2 chr10:123279647-123279717 33 71
26 HRAS_007_018 GCGATGACGGAATATAAGCTG CTGGATCAGCTGGATGGTCA HRAS chr11:534248-534325 37 78
27 KRAS_144_147A CAAGAAGTTATGGAATTCCTTTTATTGA TTTATTTCAGTGTTACTTACCTGTCTTG KRAS chr12:25378528-25378597 14 70
28 KRAS_0057_0064 GAGAAACCTGTCTCTTGGATATTCTC TGTACTGGTCCCTCATTGCAC KRAS chr12:25380244-25380315 25 72
29 KRAS_012_+13_-4 CGTCAAGGCACTCTTGCC TGCTGAAAATGACTGAATATAAACTTGT KRAS chr12:25398259-25398326 22 68
30 AKT1_0016_0017 GCCGCCAGGTCTTGATGT GGGTCTGACGGGTAGAGTGTG AKT1 chr14:105246530-105246603 35 74
31 TP53_374_385 TGAGTCAGGCCCTTCTGTCT GCCACCTGAAGTCCAAAAAG TP53 chr17:7572933-7573009 37 77
32 TP53_368_to_374 TTTTATGGCGGGAGGTAGACT TCATCTCTCCTCCCTGCTTCT TP53 chr17:7572965-7573040 34 76
33 TP53_345 CCCTGGCTCCTTCCCAG CTTCGAGATGTTCCGAGAGC TP53 chr17:7573947-7574016 33 70
34 TP53_342 TCCTCTGTTGCTGCAGATCC TGAGTTCCAAGGCCTCATTC TP53 chr17:7573976-7574049 34 74
35 TP53_323 CACTTGATAAGAGGTCCCAAGACTTA CCCAGCCAAAGAAGAAACCA TP53 chr17:7576823-7576899 31 77
36 TP53_307 TCTTCTTTGGCTGGGGAGA TTTTATCACCTTTCCTTGCCTCT TP53 chr17:7576885-7576956 30 72
37 TP53_298_306 AAAGGGGAGCCTCACCAC ACCGCTTCTTGTCCTGCTT TP53 chr17:7576994-7577064 34 71
38 TP53_0280_0289 GTGAGGCTCCCCTTTCTTG CGTGTTTGTGCCTGTCCTG TP53 chr17:7577050-7577121 34 72
39 TP53_0272_0283 GGGACGGAACAGCTTTGAG GCGGAGATTCTCTTCCTCTGT TP53 chr17:7577068-7577143 36 76
40 TP53_262_267 AACACGCACCTCAAAGCTG TGCCTCTTGCTTCTCTTTTCCT TP53 chr17:7577116-7577188 32 73
41 TP53_0248_0261 GTGGCAAGTGGCTCCTGA CATGGGCGGCATGAAC TP53 chr17:7577480-7577555 42 76
42 TP53_233_245 TGGCTCTGACTGTACCACCA ATGGGCCTCCGGTTCAT TP53 chr17:7577529-7577606 41 78
43 TP53_0227_0236 CCCATGCAGGAACTGTTACAC GGCCTGTGTTATCTCCTAGGTTG TP53 chr17:7577550-7577627 34 78
44 TP53_219_224 TAACCCCTCCTCCCAGAGAC TTTTCGACATAGTGTGGTGGTG TP53 chr17:7578139-7578216 36 78
45 TP53_208_218 TTGCGTGTGGAGTATTTGGA AGACCTCAGGCGGCTCATAG TP53 chr17:7578173-7578248 36 76
46 TP53_0196_0205 CGAAAAGTGTTTCTGTCATCCA GCCCCTCCTCAGCATCTTAT TP53 chr17:7578211-7578284 32 74
47 TP53_188_195 CGCAAATTTCCTTCCACTCG CTGATTCCTCACTGATTGCTCTT TP53 chr17:7578244-7578314 28 71
48 TP53_172A AGCCCCAGCTGCTCACC ACATGACGGAGGTTGTGAGG TP53 chr17:7578355-7578427 36 73
49 TP53_167_177 TGGCCATCTACAAGCAGTCA GAGCAGCGCTCATGGTG TP53 chr17:7578382-7578451 33 70
50 TP53_151_163 CGTCATGTGCTGTGACTGCTT CAGCTGTGGGTTGATTCCA TP53 chr17:7578420-7578500 41 81
51 TP53_132_142 GAATCAACCCACAGCTGCAC AGTACTCCCCTGCCCTCAAC TP53 chr17:7578484-7578556 33 73
52 TP53_126_131 GGCCAGTTGGCAAAACATCT GCCCTGACTTTCAACTCTGTCT TP53 chr17:7578516-7578593 36 78
53 TP53_122 ATACGGCCAGGCATTGAAGT GGGACAGCCAAGTCTGTGA TP53 chr17:7579260-7579338 40 79
54 TP53_113_125 CCCCTCAGGGCAACTGAC AGCTACGGTTTCCGTCTGG TP53 chr17:7579294-7579371 41 78
55 TP53_098_109 GGCCCCTGTCATCTTCTGT CAGAATGCAAGAAGCCCAGA TP53 chr17:7579338-7579415 39 78
56 TP53_083_94 TTCTGGGAAGGGACAGAAGA TGCACCAGCAGCTCCTACAC TP53 chr17:7579385-7579462 38 78
57 TP53_053 GAGCAGCCTCTGGCATTCT GTCCCCGGACGATATTGAAC TP53 chr17:7579476-7579552 38 77
58 TP53_041_052 CCTGGGTCTTCAGTGAACCA CTTGCCGTCCCAAGCAAT TP53 chr17:7579511-7579585 37 75
59 TP53_033_040 GGGGACAGCATCAAATCATC TGACTGCTCTTTTCACCCATC TP53 chr17:7579547-7579616 29 70
60 TP53_026 AGCCCAACCCTTGTCCTTAC CCATGGGACTGACTTTCTGC TP53 chr17:7579680-7579754 35 75
61 TP53_010_022 TGGATCCACTCACAGTTTCCA GCCGCAGTCAGATCCTAGC TP53 chr17:7579826-7579904 39 79
62 PPP2R1A_176_187 TACTTCCGGAACCTGTGCTC GGCAAACTCCCCCAGCTT PPP2R1A chr19:52715940-52716014 37 75
63 GNAS_201 TGTTTCAGGACCTGCTTCG TCCACCTGGAACTTGGTCTC GNAS chr20:57484397-57484463 28 67
64 nan nan nan nan nan nan nan
65 *Coordinates refer to the human reference genome hg19 release (Genome Reference Consortium GRCh37, Feb 2009). nan nan nan nan nan nan