Table 1 Genes examined
Gene symbol | Gene name | GenBank accession no. | Primer sequences (5'→ 3') | Amplicon size (bp) | qPCR efficiency (%) |
|---|---|---|---|---|---|
Control gene (assessment of RT-qPCR inhibitors) | |||||
CAB | A. thaliana chlorophyll a/b-binding protein | X56062 | F: CCATTGCATTTGTTGAGCAC R: CAATTCCTCGAGCTTCTTGG | 119 | 100 |
Target genes – training set | |||||
18S | 18S ribosomal RNA | X03205 | F: GGCGCCCCCTCGATGCTCTTAG R: GCTCGGGCCTGCTTTGAACACTCT | 89 | 98 |
ACTB | Beta-actin | NM_001101 | F: CTGTGGCATCCACGAAACTA R: AGTACTTGCGCTCAGGAGGA | 200 | 100 |
ATUB | Alpha tubulin | NM_006082 | F: TTACCTCGACTCTTAGCTTGTCG R: GGATGGAGATGCACTCACG | 107 | 92 |
B2M | Beta-2-microglobulin | NM_004048 | F: CACCCCCACTGAAAAAGATG R: ATATTAAAAAGCAAGCAAGCAGAA | 167 | 93 |
GAPDH | Glyceraldehyde-3-phosphate dehydrogenase | NM_002046 | F: TGCACCACCAACTGCTTAGC R: GGCATGGACTGTGGTCATGAG | 87 | 100 |
HPRT | Hypoxanthine phosphoribosyl transferase 1 | NM_000194 | F: TGATAGATCCATTCCTATGACTGTAGA R: AAGACATTCTTTCCAGTTAAAGTTGAG | 126 | 94 |
POLR2L | Polymerase RNA II polypeptide L | NM_021128 | F: CAACAAGTGGGAGGCTTACCT R: AGCTTCTCGATCAGGTCCAC | 132 | 98 |
PSMB6 | Proteasome subunit Y | NM_002798 | F: GATACCGGGAAGACCTGATG R: AATGGCAAAGGACTGCCTTA | 116 | 99 |
RPLP0 | Ribosomal protein, large, P0 | NM_001002 | F: CACTGAGATCAGGGACATGTTG R: CTTCACATGGGGCAATGG | 113 | 100 |
Target genes – validation set | |||||
EGFR | Epidermal growth factor receptor | NM_005228 | F: CTGGATCCCAGAAGGTGAGA R: GCCATCACGTAGGCTTCATC | 111 | 100 |
HER2 | v-erb-b2 erythroblastic leukemia viral oncogene homolog 2 | NM_004448 | F: CTCCTCCTCGCCCTCTTG R: AGCATGTCCAGGTGGGTCT | 107 | 90 |
HER3 | v-erb-b2 erythroblastic leukemia viral oncogene homolog 3 | NM_001982 | F: GTGGACTCGAGCAACATTGA R: CCGTACTGTCCGGAAGACAT | 147 | 97 |