Table 2-.
Gene Symbols and TaqMan Primers for mRNAs Assayed
| Primer Probe Gene Symbol | Taqman Assay Gene Expression | Gene Name |
|---|---|---|
| ACTB | Hs01060665_g1 | Actin beta |
| DNMT1(custom, cus) | Hs00945875_m1 AIFAT65 | DNA (cytosine-5-)-methyltransferase 1 DNMT1 based on primer sequence F: 5′-CGTCTAGAAAACGGGAACCAAGCAAG-3′ R: 5′-TCTAATCCCAGTTACTTGGGAGGCTG-3′ |
| DNMT1(original, or) | Hs00154749_m1 | DNA (cytosine-5-)-methyltransferase 1 Transcript variant 1 (DNMT1b), 2 (DNMT1a), and variants 3,4 |
| DNMT3A | Hs01027166_m1 | DNA methyltransferase 3 alpha |
| GAD1 | Hs01065893_m1 | glutamate decarboxylase 1 (full length, multiple transcripts) |
| GAD1 (variant GAD67) | Hs01065886_m1 | glutamate decarboxylase 1 (truncated form GAD67) |
| GAD1 (variant GAD25) | Hs00247564_m1 | glutamate decarboxylase 1 (truncated form GAD25) |
| TET1 | Hs00286756_m1 | tet methylcytosine dioxygenase 1 |
| TET2 | Hs00325999_m1 | tet methylcytosine dioxygenase 1 |
| TET3 | Hs00379125_m1 | tet methylcytosine dioxygenase 1 |
| BDNF (broad spectrum-bs) | Hs02718934_s1 | brain derived neurotrophic factor (Taqman Best Coverage) BDNF transcript variants 1–11,12,13,14,17,16,18,x1 |
| BDNFIX (variant 1) | Hs04186202_s1 | brain derived neurotrophic factor BDNF, transcript variant 1 (BDNFIX) |
| Glucocorticoid (NR3C1-best coverage- bc) | Hs00353740_m1 | nuclear receptor subfamily 3 group C member 1 (Taqman Best Coverage) Transcript Variants 1,2,3,4,5,6,7,8,x1,x2,x3,x5,x6,x7 |
| Glucocorticoid (NR3C1)-(custom,cus) |
AIY90ZY custom | nuclear receptor subfamily 3 group C member 1 (NR3C1)-based on primer sequence: F: 5′-CAGCTCCTCAACAGCAACAACA-3′ R: 5′-GTGCTGTCCTTCCACTGCTCT-3 Transcript Variants 1,2,3,4,5,6, x5,x6,x7 |
| MBD4 | AID1VOX | methyl-CpG binding domain 4, DNA glycosylase |
| IMPA2 | Hs00274110_m1 | inositol monophosphatase 2 |
| APBB2 | Hs00921383_m1 | amyloid beta precursor protein binding family B member 2 |
| CPT1A | Hs00912671_m1 | carnitine palmitoyltransferase 1A |
| APOBEC3A | AICXUP | apolipoprotein B mRNA editing enzyme catalytic subunit 3A |
| CCR1 | Hs00928897_s1 | C-C motif chemokine receptor 1 |
| FPRL2 | Hs00266666_s1 | formyl peptide receptor 3 |
| CNTNAP2 | Hs04975510_cn | contactin associated protein-like 2 |
| CD4 | Hs01058407_m1 | CD4 molecule |
Some of the duplicate or custom made probes - DNMT1(cus), (NR3C1-cus)-were chosen so sequences would more closely resemble the primer sequences used in our previous published results (Auta et al, 2013) which used a different method than the TaqMan probes utilized in this report. The differing portions of the gene covered in the original and these duplicate TaqMan probes for the same main gene are further specified in the information under the Gene Name column in the table. The GAD1 full length TaqMan probe contains the transcripts for the variants GAD67, GAD25, and multiple other transcripts (see supplementary data for complete content of all variants).