aar3247_cohen_sm_tables-s1-s11.xlsx

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1	Table S1. Primer sequences for multiplex PCR assays.
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3	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)

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