Table 1 |
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List of candidates |
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|
Name |
Fold-change |
ID |
|
|
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Group 1: repressors in RPCs |
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|
AATF |
0.21 ± 0.02 |
Rb-binding protein Che-1 |
|
ARG1 |
0.27 ± 0.02 |
Liver-type arginase |
|
ATP-synthase |
0.28 ± 0.04 |
ATP synthase beta chain |
|
Cnot10 |
0.15 ± 0.01 |
CCR4-NOT transcription complex, subunit 10 |
|
DuS4L |
0.28 ± 0.01 |
tRNA-dihydrouridine synthase 4-like |
|
KPNA4 |
0.25 ± 0.04 |
Importin alpha-4 subunit |
|
MCM2 |
0.27 ± 0.00 |
DNA replication licensing factor 2 |
|
USP25 |
0.28 ± 0.05 |
Ubiquitin carboxyl-terminal hydrolase 25 |
|
WDR43 |
0.29 ± 0.04 |
WD repeat protein 43, unknown function |
|
Group 2: activators in RPCs |
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|
Bcat2 |
2.93 ± 0.27 |
Mitochondrial branched chain aminotransferase 2 |
|
Cbx7 |
2.96 ± 0.14 |
Polycomb group gene |
|
CEB55 |
4.70 ± 0.39 |
Centrosomal protein of 55 kDa |
|
GPI deacetylase |
15.00 ± 0.81 |
Vesicular transport |
|
PTPN2 |
3.65 ± 0.59 |
Tyrosine-protein phosphatase non-receptor |
|
Rb1 |
3.50 ± 0.46 |
Cell cycle exit, transcription factor |
|
SRP40 |
2.88 ± 0.10 |
Splicing factor |
|
Sterol demethylase |
3.33 ± 0.33 |
Sterols and steroids biosynthesis, oocyte maturation |
|
Thiolase |
4.98 ± 0.32 |
Trifunctional enzyme, acetyl-CoA transferase |
|
TMEM79 |
3.01 ± 0.30 |
Transmembrane protein, function unclear |
|
TMP49 |
3.92 ± 0.42 |
Transmembrane protein, function unknown |
|
Transferase |
3.39 ± 0.58 |
Arginine n-methyl-transferase |
|
Bub3 |
4.85 ± 0.00 |
Mitotic checkpoint protein |
|
FAN |
3.28 ± 0.28 |
Associated with N-SMase activation |
|
Hsp1 |
11.02 ± 1.36 |
Heat shock protein 1 |
|
KPNA2 |
3.65 ± 0.36 |
Importin alpha-2 subunit, |
|
MCM3 |
3.00 ± 0.00 |
DNA replication licensing factor 3 |
|
MRPL47 |
3.33 ± 0.00 |
Mitochondrial ribosomal protein L47 isoform b |
|
NHL-domain II |
3.36 ± 0.59 |
NHL-domain containing, unknown function |
|
Ribonuclease |
4.15 ± 0.09 |
Ribonuclease HI large subunit |
|
sFRP-1 |
2.97 ± 0.55 |
Wnt-signal regulator |
|
TARBP2 |
3.05 ± 0.18 |
TAR RNA-binding protein 2 |
|
Tetraspanin-9 |
3.29 ± 0.00 |
Transmembrane protein, interacts with integrins |
|
USP1 |
3.25 ± 0.34 |
Ubiquitin carboxyl-terminal hydrolase 1 |
|
Group 3: activators in RGCs |
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|
Ndrg3a |
3.73 ± 0.00 |
N-myc downstream regulated 3, function unknown |
|
Islet2 |
5.11 ± 0.22 |
Insulin gene enhancer, transcription factor |
|
Tetraspanin-31 |
3.00 ± 0.38 |
Transmembrane protein, unknown function |
|
Group 4: repressors in RGCs |
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|
ELG protein |
0.27 ± 0.00 |
mRNP complex, unknown function |
|
Idax |
0.16 ± 0.01 |
Negative regulation of Wnt signaling |
|
NHL-protein |
0.27 ± 0.00 |
NHL-domain containing, unknown function |
|
RBM4L |
0.23 ± 0.01 |
RRM-class RNA-binding protein |
|
RBPMS2 |
0.20 ± 0.06 |
RNA-binding protein RNP-1, unknown function |
|
Zfp 161 |
0.23 ± 0.01 |
Zinc finger, function unclear |
|
Ubiquitously expressed regulators |
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|
HMG |
2.93 ± 0.49 |
HMG box DNA-binding domain |
|
p65 TF |
6.16 ± 0.81 |
NF-κB transcription factor p65 |
|
Beta-actin |
0.27 ± 0.03 |
Cytoskeleton |
|
Tubulin alpha-1B chain |
3.28 ± 0.59 |
Cytoskeleton |
|
UBR2 |
3.18 ± .0.36 |
Ubiquitin-protein ligase E3 component N-recognin-2 |
|
Uncharacterized1 |
0.22 ± 0.01 |
Unknown function |
|
Coiled-coil domain |
3.25 ± 0.43 |
Unknown function |
|
EF-1-alpha |
3.31 ± 0.26 |
Elongation factor |
|
Nfkbia |
2.99 ± 0.44 |
NF-kappaB inhibitor |
|
Ankrd39 |
5.40 ± 0.71 |
Ankyrin repeat domain-containing protein 39, unknown function |
|
|
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|
Candidate clones were selected based on their relative effect on the reporter construct. Out of this list, clones with a specific spatio-termporal expression in the eye were grouped into four categories (groups 1 to 4). An additional category contains clones expressed ubiquitously. For each clone the fold-change of reporter activity with standard deviation and a short description of the gene are shown. |
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Souren et al. Genome Biology 2009 10:R92 doi:10.1186/gb-2009-10-9-r92 |
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