Table 1.
Gene names, symbol, AB assay ID, context sequence, and NCBI gene reference information of genes included on the Taqman qRT-PCR card. The microarray signal intensity of a representative probe set is also shown.
| Gene Symbol | Gene Name | Function of encoded protein | Ref Seq | ABI assay ID | Array Signal | ||
|---|---|---|---|---|---|---|---|
| DNA Repair | Ovx | E | EP | ||||
| Increased | |||||||
| 1. NBN [NBS1 ] | nibrin | part of double strand break repair complex | XM_001085033.1 | RhO1039845 | 21 | 340 | 369 |
| 2. NTHL1* | Nth endonuclease Ill-like 1 | DNA N-glycosylase of the endonuclease III family that has apurinic/ apyrimidinic lyase activity | XM_001082772.2 | Rh00959765-m1 | 33 | 220 | 79 |
| 3. LIG4* | ligase IV, DNA, ATP-dependent | DNA ligase essential for DNA double-strand break (DSB) repair through nonhomologous end joining | XM_001084107 | Rh04269856 | 55 | 188 | 225 |
| 4. GTF2H5 | General transcription factor IIH, polypeptide5 | catalytic subunit of transcription/repair factor TFIIH, which functions in gene transcription and DNA repair | NM_001190969.1 | Rh02792678_m1 | 562 | 1240 | 1009 |
| 5. POLG2* | polymerase DNA directed γ2 | mitochondrial DNA polymerase; performs base excision repair (BER) | XM_001109823.2 | Rh00945165_m1 | 57 | 164 | 269 |
| 6. PCNA | proliferating cell nuclear antigen | BER gap filling | XM_001115746.2 | Rh02806147_m1 | 185 | 631 | 449 |
| 7. DSS1 (SHFMl)* | Split hand/foot malformation | homologus recombination double strand break | XM_001091523.2 | Rh02860294_m1 | 658 | 2137 | 1421 |
| 8. RAD23A | RAD23 homolog A | Involved in nucleotide excision repair (NER) | XM_001110103.2 | Rh00908422_m1 | 337 | 701 | 319 |
| 9. APEX1 (REFl)* | apurinic/apyrimidinic endonuclease 1 | multifunctional DNA repair enzyme | XM_001090240.2 | Rh02793202_m1 | 588 | 1356 | 928 |
| 10. PARP2* | poly(ADP-ribosyl)transferase-like 2 | capable of catalyzing a poly(ADP-ribosyl)ation reaction | XM_001088314.2 | Rh02857777_m1 | 13 | 172 | 39 |
| 11. XRCCl* | X-ray repair complementing | efficient repair of DNA single-strand breaks formed by exposure to Ionizing radiation and alkylating agents | XM_001100256.2 | Rh02860275_m1 | 79 | 305 | 115 |
| 12. SHPRH* | SNF2 histone linker | contains motifs characteristics of several DNA repair proteins, transcription factors, and helicases | XM_001086512.2 | Rh02797744_m1 | 188 | 568 | 425 |
| Decreased | |||||||
| 13. GADD45 | growth arrest-DNA-damage-inducible γ | Increases with treatment of DNA-damaging agents; activates p38/JNK pathway | XM_001095413.2 | RhOI 071483_m1 | 179 | 116 | 87 |
| Chaperones | |||||||
| 14. HSPCB (HSP90) | heat shock protein 90kD | molecular chaperone with key roles In signal transduction, protein folding, protein degradation | NM_001195524.1 | Rh02790147_m1 | 890 | 9712 | 2563 |
| 15. HSPA8 (HSP70) | heat shock 70kD protein 8 (?constitutive) | binds to nascent polypeptides to facilitate correct folding; ATPase in the disassembly of clathrin-coated | XM_002799828.1 | Rh04269846_g1 | 238 | 2390 | 425 |
| 16. HSPD1 (HSP60) | heat shock 60kD protein 1 | (chaperonin)essentlal for the folding and assembly of newly imported proteins in the mitochondria | NM_002156.4 | Hs01036753_g1 | 629 | 2657 | 1392 |
| 17. HSPB1 (HSP27) | heat shock 27kD protein 1 | stress resistance and actin organization;stress induced translocation from cytoplasm to nucleus | XM_001109274.2 | Rh02980144_s1 | 823 | 2680 | 1136 |
| Ubiquinases | |||||||
| 18. UBE1 [UBA5 ] | Ubiquitin-like modifier activating enzyme 1 | catalyzes the first step in ubiquitin conjugation to mark cellular proteins for degradation | NM_024818.3 | Hs01566989_m1 | 73 | 148 | 211 |
| 19. UBE2D3 | Ublquitin-conjugating enzyme E2D 3 | conjugating enzyme: functions in the ubiquitination of the tumor-suppressor protein p53 | NM_181892.2 | Hs01518517_m1 | 1089 | 4720 | 3063 |
| 20 UBE3A | ubiquitin protein ligase E3A | part of the ubiquitin protein degradation system; maternally expressed In brain | XM_002804686.1 | Rh00963674_m1 | 77 | 311 | 391 |
| Transport | |||||||
| 21. KIF5B | kinesin family member 5B | forward transport; axonal function | XM_002805607.1 | RhO1037194_m1 | 999 | 7049 | 4581 |
| 22. DCTN4 | dynactin 4 (p62) | retrograde microtubule-mediated trafficking | XM_001109230.2 | RhOI092757 | 296 | 1003 | 579 |
| 23. DNCLC1 | Dynein, light chain, LC8-type 1 | major molecular motor in retrograde axonal transport | NM_001037495.1 | Hs00867659_g1 | 4431 | 10043 | 7009 |
| 24. Tau (MAPT) | microtubule-associated protein tau | binds to microtubules and regulate the stability of these cytoskeletal structures | XM_001115803.2 | Rh04269822_m1 | 690 | 1906 | 854 |
| Disease | |||||||
| 25. APP | amyloid beta (A4) precursor protein | fragments promote transcriptional activation, or basis of amyloid plaques | XM_002803170.1 | Rh01552279_m1 | 15596 | 4570 | 8352 |
| 26. ADAM 10 | ADAM metallopeptidase domain 10 | alpha secretase cleavage of APP precludes amyloid beta formation | XM_001097016.2 | Rh01109565_m1 | 508 | 1338 | 911 |
| 27. PSEN1 | presenile 1 | fragments form gamma-secretase transmembrane protease that produces toxic a-beta 40-42 | XM_001088635.2 | Rh02826228_m1 | 431 | 1437 | 632 |
| 28. SNCA | alpha-synudein | Integrate presynaptic signaling and membrane trafficking; defects implicated in Parkinson's, Alzheimer's | XM_001095402.2 | Rhl103386_m1 | 528 | 2220 | 920 |