Table 1 Reagents utilized for verification of gene expression
From: Rhabdoid tumor: gene expression clues to pathogenesis and potential therapeutic targets
(A) Primers and probes for quantitative RT–PCR | |||
Gene name | Taqman probe | Forward primer | Reverse primer |
SMARCB1 | ACCATGACCCAGCTGTGATCCATGAGA | CCTTCCCCCTTTGCTTTGA | GCACCTCGGGCTGAGATG |
PTN | CCAAGCCCAAACCTCAAGCAGAATCTAAGA | CAAGCCCTGTGGCAAACTG | TGTTTCTTGCCTTCCTTTTTCTTC |
FYN | TTCCCAGCAATTATGTGGCTCCAGTTGA | GGAAGCCCGCTCCTTGAC | AAAGTACCACTCTTCTGCCTGGATAG |
PTPRK | TCAGATCACGACCCTGGAGAAAAAGCC | AGATGCCCCAAGGTTCCTATATG | GTGAGTGTCGTTCTCCTTCATTGTAG |
NQO1 | TGGTCAGAAGGGAATTGCTCAGAGAAGGTAA | TCCAATGTTCTATTAATCACCTCTCTGTA | CTTGTGCTAGGCATATTAGTAACTGCTT |
TFRC | ATCCCAGCAGTTTCTTTCTGTTTTTGCGA | GCTTTCCCTTTCCTTGCATATTC | CATGGTGGTACCCAAATAAGGATAA |
CCND1 | CGGCGCTTCCCAGCACCAAC | TGGGTCTGTGCATTTCTGGTT | CTTTCATGTTTGTCTTTTTGTCTTCTG |
β-actin | ATGCCCTCCCCCATGCCATCCTGCGT | TCACCCACACTGTGCCCATCTACGA | CAGCGGAACCGCTCATTGCCAATGG |
GAPDH | AACAGCGACACCCACTCCTCCACCTT | AGAAAAACCTGCCAAATATGATGAC | GTGGTCGTTGAGGGCAATG |
(B) Antibodies for immunohistochemistry and immunoblotting | |||
Antibody | Company (city) | Dilution | |
BAF47 (SMARCB1) | BD Transduction Lab (San Jose, CA, USA) | 1/500 | |
NQO1 | SigmaAldrich (St Louis, MO, USA) | 1/50 | |
CTNNB1 | Zymed/Invitrogen | 1/200 | |
ID3 | Abcam Inc (Cambridge, MA, USA) | 1/2 | |
SOX10 | SantaCruz (Santa Cruz, CA, USA) | 1/50 | |
Musashi | R&D Systems (Minneapolis, MN, USA) | 1/200 | |
CD133 | Miltenyi Biotec (Auburn, CA, USA) | 1/10 | |
Nestin | SantaCruz (Santa Cruz, CA, USA) | 1/500 | |
p53 | Dako (Carpenteria, CA, USA) | 1/100 | |
p21 | Dako (Carpenteria, CA, USA) | 1/50 | |
p27 | Dako (Carpenteria, CA, USA) | 1/200 | |
cyclin E | NeoMarkers (Fremont, CA, USA) | 1/25 | |
cyclin D1 | Dako (Carpenteria, CA, USA) | 1/300 | |
PEDF | SantaCruz (Santa Cruz, CA, USA) | 1/50 | |
SPP1 | Novocastra (Newcastle upon Tyne, UK) | 1/100 | |
CDH2 | Invitrogen (Carlsbad, CA, USA) | 1/100 | |
NCAM | SantaCruz (Santa Cruz, CA, USA) | 1/200 | |
LGALS1 | Vector Labs (Burlingame, CA, USA) | 1/200 | |
CMYC | SantaCruz (Santa Cruz, CA, USA) | 1/100 | |
TFRC | Invitrogen (Carlsbad, CA, USA) | 1/500 | |
