Table 1 Top 20 differentially expressed genes between normal phenotype siblings and rx3 -/- mutants selected by Q-value
From: Genes and signaling networks regulated during zebrafish optic vesicle morphogenesis
Gene Symbol | Description | Chromosome location | RPKM of normal siblings | RPKM of rx3-/- | Log2 (FC) | Q-value | Adhesion | Death | Development | Metabolism | Regulation | Response to stress/stimulus | Signal transduction | Transcription | Transport | Vision and light stimulus |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
rx2 | Retinal homeobox gene 2 | chr2:56043918-56074494 | 4.76 | 0.02 | 8.01 | 2.57E-264 | Â | Â | + | + | + | Â | Â | Â | Â | Â |
vsx2 | Visual system homeobox 2 | chr17:31709934-31718872 | 2.90 | 0.11 | 4.72 | 2.81E-122 | Â | Â | + | Â | + | + | Â | Â | Â | + |
hmx1 | H6 homeo box 1 | chr1:41290725-41295809 | 1.91 | 0.37 | 2.36 | 4.45E-55 | Â | Â | + | Â | + | Â | Â | Â | Â | Â |
ccdc90b | Coiled-coil domain containing 90B | chr21:22003868-22007106 | 4.96 | 1.43 | 1.80 | 7.73E-32 | Â | Â | Â | Â | Â | Â | Â | Â | Â | Â |
rorab | RAR-related orphan receptor A, paralog b | chr7:30875138-30908102 | 5.26 | 1.78 | 1.56 | 1.06E-82 | Â | Â | Â | + | + | + | + | + | Â | Â |
bcr | Breakpoint cluster region | chr8:31348750-31443924 | 6.22 | 3.00 | 1.05 | 4.46E-90 | Â | Â | Â | + | + | + | + | Â | Â | Â |
mab21l2 | Mab-21-like 2 | chr1:22850233-22852357 | 19.26 | 9.88 | 0.96 | 9.99E-72 | Â | Â | + | Â | Â | Â | Â | Â | Â | Â |
six7 | Sine oculis homeobox homolog 7 | chr7:8229741-8248372 | 9.84 | 5.22 | 0.92 | 8.85E-65 | Â | Â | + | Â | + | Â | Â | Â | Â | Â |
traf4a | Tnf receptor-associated factor 4a | chr15:14535600-14612424 | 13.88 | 8.15 | 0.77 | 1.22E-53 | Â | Â | Â | + | + | + | + | Â | Â | Â |
pou3f3a | POU class 3 homeobox 3a | chr9:6696999-6702825 | 3.86 | 5.89 | -0.61 | 6.89E-32 | Â | Â | + | + | + | Â | Â | Â | Â | Â |
dmrta2 | DMRT-like family A2 | chr8:16775899-16778945 | 10.97 | 18.97 | -0.79 | 4.71E-62 | Â | Â | + | Â | + | Â | Â | Â | Â | Â |
fezf2 | FEZ family zinc finger 2 | chr11:20477076-20479907 | 10.53 | 18.38 | -0.80 | 8.49E-73 | Â | Â | + | + | + | + | Â | Â | Â | Â |
crtac1 | Cartilage acidic protein 1 | chr1:55473931-55487036 | 61.86 | 108.31 | -0.81 | 0.00E + 00 |  |  |  |  |  |  |  |  |  |  |
wnt7ba | Wingless-type MMTV integration site family, member 7Ba | chr4:17770167-17784191 | 4.56 | 8.34 | -0.87 | 6.57E-39 | Â | Â | + | + | + | + | + | Â | Â | Â |
ntn1b | netrin 1b | chr3:25810033-25915079 | 3.95 | 7.37 | -0.90 | 3.47E-62 | Â | Â | + | Â | Â | Â | Â | Â | Â | Â |
sox1b | SRY-box containing gene 1b | chr1:46690904-46693589 | 7.71 | 16.24 | -1.07 | 8.19E-82 | Â | Â | + | + | + | Â | Â | Â | Â | Â |
foxg1a | Forkhead box G1a | chr17:29175718-29178733 | 7.43 | 17.41 | -1.23 | 8.14E-139 | Â | Â | + | + | + | + | Â | + | Â | Â |
fezf1 | FEZ family zinc finger 1 | chr25:29139552-29143219 | 5.09 | 12.80 | -1.33 | 5.51E-97 | Â | Â | + | + | + | Â | Â | Â | Â | Â |
zgc:165461 | zgc:165461 | chr17:23128496-23132150 | 4.44 | 11.97 | -1.43 | 9.20E-71 | Â | Â | Â | Â | Â | Â | Â | Â | Â | Â |
nr2e1 | Nuclear receptor subfamily 2, group E, member 1 | chr20:32476129-32485397 | 4.71 | 13.33 | -1.50 | 4.42E-142 | Â | Â | Â | + | + | + | + | Â | Â | Â |