Table 2.
Differential expression of CLEAR network genes in PSdko, PS1ko, and WT ES cells
| Gene symbol | WT | AVG SKO | AVG DKO | ALR SKO-WT | ALR DKO-WT |
|---|---|---|---|---|---|
| Abca2 | 5.31 | 5.23 | 5.12 | −0.07 | −0.19 |
| Abcb9 | 5.08 | 4.96 | 4.87 | −0.13 | −0.21 |
| Cd68 | 6.71 | 6.65 | 6.37 | −0.06 | −0.33 |
| Cln3 | 8.71 | 8.66 | 8.73 | −0.05 | 0.03 |
| Laptm4a | 12.49 | 12.41 | 12.48 | −0.08 | −0.01 |
| Lamp3/Ppid | 11.76 | 11.66 | 11.89 | −0.10 | 0.13 |
| Litaf | 11.54 | 11.47 | 11.84 | −0.07 | 0.29 |
| Lamp1 | 12.72 | 12.55 | 12.39 | −0.17 | −0.33 |
| Lamp2 | 11.32 | 11.08 | 10.46 | −0.23 | −0.86 |
| Mfsd8 | 6.88 | 6.74 | 6.89 | −0.14 | 0.01 |
| Mcoln2 | 4.86 | 4.18 | 4.12 | −0.67 | −0.73 |
| Mcoln1 | 10.03 | 10.39 | 9.81 | 0.36 | −0.22 |
| Mcoln3 | 4.33 | 4.37 | 4.37 | 0.04 | 0.04 |
| Ncstn | 9.44 | 9.43 | 9.26 | −0.01 | −0.18 |
| Npc1 | 8.56 | 8.21 | 7.81 | −0.36 | −0.75 |
| Npc1l1 | 4.88 | 4.52 | 4.69 | −0.36 | −0.19 |
| Cenpc1 | 9.38 | 9.32 | 9.54 | −0.06 | 0.16 |
| Slc17a2 | 4.42 | 4.84 | 4.68 | 0.42 | 0.26 |
| Slc17a6 | 4.55 | 4.41 | 4.36 | −0.14 | −0.19 |
| Slc17a1 | 4.41 | 4.06 | 4.31 | −0.35 | −0.11 |
| Slc17a7 | 4.02 | 4.01 | 3.96 | −0.01 | −0.06 |
| Slc17a5 | 8.80 | 8.88 | 8.39 | 0.08 | −0.40 |
| Slc17a3 | 4.24 | 4.40 | 4.16 | 0.17 | −0.08 |
| Slc17a9 | 5.89 | 5.83 | 6.21 | −0.06 | 0.32 |
| Lipa | 10.02 | 8.85 | 8.28 | −1.17 | −1.73 |
| Gla | 9.29 | 9.29 | 9.00 | 0.00 | −0.29 |
| Naglu | 8.23 | 9.05 | 8.22 | 0.82 | 0.00 |
| Arsb | 6.81 | 9.05 | 4.99 | 2.24 | −1.82 |
| Arsa | 9.61 | 9.67 | 9.18 | 0.07 | −0.43 |
| Glb1 | 9.74 | 9.52 | 9.14 | −0.22 | −0.61 |
| Gusb | 7.09 | 4.32 | 8.76 | −2.77 | 1.68 |
| Hexb | 9.98 | 9.72 | 9.18 | −0.26 | −0.80 |
| Manba | 9.54 | 9.73 | 9.69 | 0.19 | 0.15 |
| Cpvl | 5.12 | 5.06 | 5.31 | −0.06 | 0.19 |
| Ctsb | 12.24 | 12.21 | 12.23 | −0.03 | −0.01 |
| Ctsd | 11.92 | 11.66 | 11.31 | −0.26 | −0.60 |
| Ctsf | 9.42 | 9.00 | 8.00 | −0.42 | −1.42 |
| Ctsh | 12.06 | 11.52 | 10.31 | −0.55 | −1.75 |
| Ctsk | 5.98 | 6.10 | 5.88 | 0.13 | −0.09 |
| Ctsl | 13.05 | 12.87 | 12.82 | −0.18 | −0.23 |
| Ctso | 4.85 | 4.79 | 4.97 | −0.06 | 0.12 |
| Ctss | 4.06 | 4.71 | 4.60 | 0.65 | 0.54 |
| Ctsz | 11.34 | 11.63 | 11.50 | 0.29 | 0.16 |
| Cln5 | 9.49 | 9.65 | 9.45 | 0.17 | −0.03 |
| Dnase2a | 6.00 | 6.10 | 6.30 | 0.09 | 0.29 |
| Ggh | 9.02 | 8.47 | 6.34 | −0.54 | −2.67 |
| Gm2a | 9.46 | 9.75 | 8.80 | 0.29 | −0.66 |
| Mgea5 | 11.12 | 11.42 | 10.83 | 0.30 | −0.29 |
| Ids | 9.76 | 9.65 | 9.47 | −0.11 | −0.29 |
| Ifi30 | 11.46 | 11.74 | 11.93 | 0.27 | 0.46 |
| Lgmn | 12.88 | 12.65 | 12.26 | −0.23 | −0.61 |
| Ganab | 11.08 | 10.86 | 10.45 | −0.22 | −0.63 |
| Ctsa | 11.45 | 10.76 | 10.71 | −0.69 | −0.74 |
| Mpo | 4.28 | 4.13 | 4.29 | −0.15 | 0.01 |
| Galns | 8.46 | 8.42 | 8.32 | −0.04 | −0.14 |
| Gns | 11.66 | 11.09 | 11.21 | −0.57 | −0.45 |
| Npc2 | 12.57 | 12.37 | 12.46 | −0.20 | −0.11 |
| Npc1 | 8.56 | 8.21 | 7.81 | −0.36 | −0.75 |
| Ppt1 | 9.74 | 9.60 | 9.24 | −0.14 | −0.50 |
| Ppt2 | 9.56 | 9.33 | 9.77 | −0.23 | 0.21 |
| Psap | 11.58 | 11.51 | 11.39 | −0.07 | −0.19 |
| Siae | 8.21 | 8.33 | 8.18 | 0.12 | −0.03 |
| Neu1 | 10.59 | 10.50 | 9.69 | −0.10 | −0.91 |
| Smpd1 | 6.75 | 6.05 | 9.70 | −0.70 | 2.95 |
| Fuca1 | 9.33 | 10.07 | 9.54 | 0.75 | 0.21 |
| Tpp1 | 11.80 | 11.63 | 11.28 | −0.17 | −0.52 |
| Acp2 | 8.99 | 8.42 | 8.59 | −0.57 | −0.41 |
| Acp5 | 9.26 | 7.66 | 6.96 | −1.60 | −2.30 |
| Average ALR | −0.10 | −0.24 | |||
| p value | 0.10170167 | 0.00012541 |