Table 2 of Zhu, Mol Vis 2010; 16:740-755.

Table 2. Known genes and ncRNAs differentially regulated by hyperoxia between inferior and superior retina.

Symbol Description RefSeq P-value
Treat*Site FR
Inf FR
Sup FM
Edn2 endothelin 2 NM_007902 0.00001 7.02 1.62 5.40
Gfap glial fibrillary acidic protein, mRNA NM_010277 0.00303 5.36 2.37 2.99
C1qb complement component 1, beta polypeptide NM_009777 0.00085 4.20 1.45 2.75
Bcl3 B-cell leukemia/lymphoma 3 NM_033601 0.00846 3.89 1.48 2.42
C1qc complement component 1, subcomponent, C chain NM_007574 0.00468 4.21 1.93 2.28
Mpeg1 macrophage expressed gene 1 NM_010821 0.00848 3.83 1.57 2.27
C1qa complement component 1, subcomponent, alpha polypeptide NM_007572 0.01737 3.69 1.68 2.01
Cd68 CD68 antigen NM_009853 0.01188 3.27 1.45 1.83
Ly86 lymphocyte antigen 86 NM_010745 0.00329 3.95 2.16 1.78
Fgf2 fibroblast growth factor 2 NM_008006 0.00038 3.10 1.45 1.64
Timp1 tissue inhibitor of metalloproteinase 1 NM_001044384 0.00172 2.74 1.14 1.61
Fcrls Fc receptor-like S, scavenger receptor NM_030707 0.00557 2.55 1.02 1.53
Laptm5 lysosomal-associated protein transmembrane 5 NM_010686 0.00863 3.03 1.58 1.45
Ccl3 chemokine (C-C motif) ligand 3 NM_011337 0.01929 2.46 1.06 1.40
Ctss cathepsin S NM_021281 0.00330 3.03 1.68 1.35
Lrrc2 leucine rich repeat containing 2 NM_028838 0.00324 2.71 1.48 1.23
Crym crystallin, mu NM_016669 0.02834 2.74 1.52 1.22
Slc25a37 solute carrier family 25, member 37 NM_026331 0.00087 2.43 1.21 1.22
Prtg protogenin homolog (Gallus gallus) NM_175485 0.00036 2.35 1.19 1.16
Lad1 ladinin NM_133664 0.00227 2.36 1.20 1.16
Cst7 cystatin F (leukocystatin) NM_009977 0.03019 2.07 0.95 1.12
Fcer1g Fc receptor, IgE, high affinity I, gamma polypeptide NM_010185 0.00232 2.44 1.33 1.11
Gadd45b growth arrest and DNA-damage-inducible 45 beta NM_008655 0.01173 2.74 1.65 1.09
Chi3l1 chitinase 3-like 1 NM_007695 0.02641 2.88 1.84 1.04
Cd180 CD180 antigen NM_008533 0.02177 2.10 1.07 1.02
Mt2 metallothionein 2 NM_008630 0.03497 2.41 1.39 1.02
Klhl29 kelch-like 29 (Drosophila) BC145748 0.00162 2.20 1.18 1.02
Socs3 suppressor of cytokine signaling 3 NM_007707 0.00892 2.12 1.13 1.00
Cd53 CD53 antigen NM_007651 0.01901 2.35 1.36 0.99
Olfr43 olfactory receptor 43 NM_146711 0.03715 1.77 0.79 0.99
S100a6 S100 calcium binding protein A6 (calcyclin) NM_011313 0.03199 2.06 1.08 0.98
Tyrobp TYRO protein tyrosine kinase binding protein NM_011662 0.00115 2.25 1.27 0.98
Ctla2a cytotoxic T lymphocyte-associated protein 2 alpha NM_007796 0.04101 1.88 0.91 0.97
Csf1r colony stimulating factor 1 receptor NM_001037859 0.00009 2.37 1.40 0.97
Stat3 signal transducer and activator of transcription 3 NM_213659 0.00102 2.40 1.44 0.96
Antxr2 anthrax toxin receptor 2 NM_133738 0.00279 2.23 1.28 0.95
C3ar1 complement component 3a receptor 1 NM_009779 0.01664 1.96 1.02 0.95
Kremen1 kringle containing transmembrane protein 1 NM_032396 0.00444 2.02 1.07 0.95
C3 complement component 3 NM_009778 0.03059 2.23 1.28 0.94
B2m beta-2 microglobulin NM_009735 0.00093 2.38 1.44 0.94
Lcn2 lipocalin 2 NM_008491 0.00238 2.13 1.19 0.94
Irgm1 immunity-related GTPase family M member 1 NM_008326 0.02159 2.04 1.12 0.93
Khdc1a KH domain containing 1A NM_183322 0.02946 1.73 0.87 0.86
Chl1 cell adhesion molecule with homology to L1CAM NM_007697 0.01079 1.78 0.92 0.86
H2-D1 (HLA-C) histocompatibility 2, D region locus 1 NM_010380 0.00124 2.00 1.16 0.84
H2-K1 histocompatibility 2, K1, K region NM_001001892 0.00681 2.05 1.22 0.83
Osmr oncostatin M receptor NM_011019 0.01265 2.70 1.91 0.79
Fcgr3 (Fcrg2a) Fc receptor, IgG, low affinity III NM_010188 0.01391 1.79 1.01 0.78
Rbm17 RNA binding motif protein 17 NM_152824 0.00686 1.88 1.10 0.78
H2-Q7 histocompatibility 2, Q region locus 7 NM_010394 0.00093 1.89 1.14 0.75
Lin7b lin-7 homolog B (C. elegans) NM_011698 0.00908 1.83 1.11 0.72
Irf9 interferon regulatory factor 9 NM_008394 0.00479 2.21 1.50 0.70
Gnb3 guanine nucleotide binding protein, beta 3 NM_013530 0.00035 1.83 1.14 0.69
Spp1 secreted phosphoprotein 1 NM_009263 0.00216 1.77 1.10 0.68
Moxd2 monooxygenase, DBH-like 2 NM_139296 0.01505 1.58 0.94 0.65
Agtpbp1 ATP/GTP binding protein 1 NM_023328 0.00242 1.76 1.12 0.64
Olfr652 olfactory receptor 652 NM_147048 0.02679 1.38 0.74 0.64
Ly9 lymphocyte antigen 9 NM_008534 0.02946 1.59 0.95 0.64
Myo10 myosin X NM_019472 0.00714 1.94 1.31 0.63
V1rb8 vomeronasal 1 receptor, B8 NM_053229 0.04461 1.42 0.80 0.62
Sec22c SEC22 vesicle trafficking protein-like C (S. cerevisiae) NM_178677 0.01512 1.65 1.04 0.61
Sulf2 sulfatase 2 NM_028072 0.03293 1.58 0.97 0.61
Cd33 CD33 antigen NM_001111058 0.00293 1.63 1.03 0.60
Hexb hexosaminidase B NM_010422 0.00341 1.88 1.30 0.58
Pld4 phospholipase D family, member 4 NM_178911 0.01563 1.84 1.27 0.57
Skap2 src family associated phosphoprotein 2 NM_018773 0.00550 1.84 1.27 0.57
Usp18 ubiquitin specific peptidase 18 NM_011909 0.02940 1.58 1.02 0.56
Vmn2r68 vomeronasal 2, receptor 68 NM_001105181 0.00628 1.47 0.92 0.56
Bst2 bone marrow stromal cell antigen 2 NM_198095 0.00535 1.60 1.05 0.55
Wfs1 Wolfram syndrome 1 homolog (human) NM_011716 0.02286 1.54 0.99 0.54
Rdh16 retinol dehydrogenase 16 NM_009040 0.00992 1.25 0.72 0.53
V1rd6 vomeronasal 1 receptor, D6 NM_030738 0.04247 1.30 0.77 0.53
Shbg sex hormone binding globulin NM_011367 0.01306 1.47 0.94 0.53
H2-Q2 (HLA-F) histocompatibility 2, Q region locus 2 AB359227 0.00277 1.71 1.18 0.53
Sulf1 sulfatase 1 NM_172294 0.00558 1.68 1.16 0.52
Atf3 activating transcription factor 3 NM_007498 0.02131 1.63 1.11 0.52
Mt1 metallothionein 1 NM_013602 0.00379 1.57 1.06 0.51
V1re6 vomeronasal 1 receptor, E6 NM_134195 0.01502 1.37 0.86 0.51
Dcps decapping enzyme, scavenger NM_027030 0.02157 1.56 1.06 0.50
Tead3 TEA domain family member 3 NM_011566 0.01222 1.66 1.16 0.50
Bmp2 bone morphogenetic protein 2 NM_007553 0.03978 0.71 1.21 −0.50
Defb9 defensin beta 9 NM_139219 0.01100 0.81 1.32 −0.51
Slc6a13 solute carrier family 6 (neurotransmitter transporter, G protein), member a13 NM_144512 0.02354 0.92 1.43 −0.51
Ankrd44 ankyrin repeat domain 44 NM_001081433 0.02845 0.91 1.42 −0.51
Clec14a C-type lectin domain family 14, member a NM_025809 0.01571 0.88 1.40 −0.52
Colec12 collectin sub-family member 12 NM_130449 0.00944 0.85 1.37 −0.52
Wnt8a wingless-related MMTV integration site 8A NM_009290 0.00618 0.86 1.39 −0.53
Kcnq5 potassium voltage-gated channel, subfamily Q, member 5 NM_023872 0.01549 0.82 1.36 −0.54
Suclg2 succinate-CoA ligase, GDP-forming, beta subunit NM_011507 0.04602 0.86 1.42 −0.55
Slc16a12 solute carrier family 16 member a12 NM_172838 0.01174 0.77 1.33 −0.56
Snhg1 small nucleolar RNA host gene 1 AK051045 0.00764 0.52 1.08 −0.56
Vcan versican NM_001081249 0.00164 0.91 1.48 −0.57
Abpb androgen binding protein beta NM_001100464 0.02420 0.79 1.36 −0.57
Mitf microphthalmia-associated transcription factor NM_001113198 0.00183 0.79 1.38 −0.58
Nr2e3 nuclear receptor subfamily 2, group E, member 3 NM_013708 0.00803 0.84 1.45 −0.61
Josd3 Josephin domain containing 3 BC056964 0.01926 0.64 1.28 −0.64
Slc26a4 solute carrier family 26, member 4 NM_011867 0.00514 0.71 1.48 −0.77
OTTMUSG00000007392
ENSMUST00000068009 0.02400 2.63 1.11 1.52
ENSMUST00000105041
ENSMUST00000105041 0.00238 2.31 1.20 1.11
LOC546230
ENSMUST00000103543 0.04064 2.04 1.06 0.99
OTTMUSG00000001136
XM_001005073 0.01136 1.33 0.63 0.71
A530032D15Rik
BC094285 0.00291 1.32 0.64 0.69
BC094916
NM_001024721 0.04309 1.09 0.46 0.64
A630098G03Rik
EU099309 0.03236 1.34 0.74 0.60
LOC544737
AK143218 0.02940 1.33 0.79 0.54
1110054P19Rik
NM_026834 0.01399 1.36 0.85 0.51
EG668103
XM_994312 0.01637 1.37 0.87 0.50
ENSMUSG00000071362
ENSMUST00000072014 0.01789 0.73 1.23 −0.50
ENSMUST00000054825
ENSMUST00000054825 0.01130 0.66 1.23 −0.56
ENSMUSG00000073593
ENSMUST00000097611 0.03139 0.73 1.30 −0.57
EG435337
NM_001013824 0.04833 0.66 1.26 −0.60
E430024C06Rik
AK149411 0.04984 0.45 1.32 −0.87

The selection of genes was made using the criteria p<0.05 and abs(FM) > 0.5. They are sorted by the value of fold margin. Unknown sequences were listed separately, following the known genes. Abbreviations: FR represents fold ratio; FM represents fold margin; inf represents inferior; sup represents superior; RefSeq represents NCBIreference sequence.

Zhu, Mol Vis 2010; 16:740-755. http://www.molvis.org/molvis/v16/a84

©2010 Molecular Vision http://www.molvis.org/molvis/

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