Microarray analysis of bone marrow-derived macrophage cells treated with Kdo2-lipid A (KLA) and ATP

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Kdo2-Lipid A / ATP gene array data - treatment:control ratios

KEGG pathway: Base excision repair (mmu03410)

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Gene symbol    Time course plot Accession Description Treatment 15min 30min 1hr 2hr 4hr 8hr 20hr
94408448
KLA  ATP  ATP+KLA
 94408448 Unknown KLA .78 .87 .71 .72 .59 .48 .60
ATP .86 .92 1.12 1.34 1.04 .66 .53
KLA/ATP .69 .86 .96 1.24 1.01 .60 .59
Apex1
KLA  ATP  ATP+KLA
 NM_009687 apurinic/apyrimidinic endonuclease 1 (Apex1), mRNA [NM_009687] KLA .65 .65 .66 .57 .49 .38 .51
ATP 1.12 1.14 .95 1.34 .88 .47 .60
KLA/ATP .78 .73 .59 .77 .61 .36 .27
Apex2
KLA  ATP  ATP+KLA
 AK080916 4 days neonate male adipose cDNA, RIKEN full-length enriched library, clone:B430208C09 product:AP ENDONUCLEASE XTH2 (APURINIC [AK080916] KLA .96 .96 .89 .91 .97 1.17 1.06
ATP 1.01 1.08 .95 .90 .94 1.00 1.00
KLA/ATP .96 1.00 .92 .93 .93 .93 .98
Apex2
KLA  ATP  ATP+KLA
 NM_029943 apurinic/apyrimidinic endonuclease 2 (Apex2), mRNA [NM_029943] KLA 1.13 1.09 1.08 1.10 .98 .88 .87
ATP 1.07 1.12 1.20 1.22 .98 1.26 .96
KLA/ATP 1.04 1.12 1.22 1.23 1.01 1.03 .98
EG385454
KLA  ATP  ATP+KLA
 XM_358238 ref|PREDICTED: Mus musculus predicted gene, EG385454 (EG385454), mRNA [XM_358238] KLA .65 .69 .63 .61 .48 .41 .55
ATP .99 1.01 1.09 1.25 .98 .62 .53
KLA/ATP .64 .72 .80 .85 .78 .55 .55
Fen1
KLA  ATP  ATP+KLA
 NM_007999 flap structure specific endonuclease 1 (Fen1), mRNA [NM_007999] KLA .37 .38 .37 .34 .41 .57 .44
ATP .98 1.04 .81 .78 .74 .72 .53
KLA/ATP .42 .37 .33 .38 .60 1.03 .43
Hmg1l1
KLA  ATP  ATP+KLA
 NM_001111282 high-mobility group (nonhistone chromosomal) protein 1-like 1 (Hmg1l1), mRNA [NM_001111282] KLA .64 .60 .51 .49 .36 .27 .47
ATP .93 .90 1.12 1.15 .84 .50 .38
KLA/ATP .55 .54 .65 .66 .58 .31 .28
Hmgb1
KLA  ATP  ATP+KLA
 BC064790 high mobility group box 1, mRNA (cDNA clone MGC:76709 IMAGE:30019980), complete cds [BC064790] KLA .46 .44 .36 .36 .26 .31 .37
ATP 1.02 .90 1.18 .85 .57 .33 .30
KLA/ATP .45 .44 .59 .32 .30 .20 .11
Lig1
KLA  ATP  ATP+KLA
 NM_010715 ligase I, DNA, ATP-dependent (Lig1), transcript variant 2, mRNA [NM_010715] KLA .53 .54 .51 .42 .30 .28 .27
ATP .97 .93 1.02 .96 .73 .29 .30
KLA/ATP .55 .50 .57 .48 .43 .26 .20
Lig3
KLA  ATP  ATP+KLA
 NM_010716 ligase III, DNA, ATP-dependent (Lig3), nuclear gene encoding mitochondrial protein, mRNA [NM_010716] KLA 1.44 1.40 1.44 1.38 1.21 1.19 1.49
ATP 1.11 1.08 1.13 .98 .74 1.07 1.39
KLA/ATP 1.49 1.61 1.46 1.20 .93 .76 1.20
Mbd4
KLA  ATP  ATP+KLA
 AK020623 adult male urinary bladder cDNA, RIKEN full-length enriched library, clone:9530064M07 product:unclassifiable, full insert sequence. [AK020623] KLA .84 .84 .82 .87 .80 .84 .79
ATP 1.03 1.06 .87 .90 .78 .76 .81
KLA/ATP .90 .81 .79 .83 .84 .87 .86
Mbd4
KLA  ATP  ATP+KLA
 NM_010774 methyl-CpG binding domain protein 4 (Mbd4), mRNA [NM_010774] KLA .64 .64 .61 .69 .73 .80 .59
ATP 1.04 .91 .86 .74 .73 .84 .71
KLA/ATP .62 .63 .68 .68 .86 1.18 1.02
Mm.28148
2
KLA  ATP  ATP+KLA
 42475961 Unknown KLA .74 .77 .69 .79 .80 1.04 .82
ATP .90 .79 .89 .64 .37 .70 .88
KLA/ATP .67 .64 .73 .58 .52 .85 .96
Mm.42112
9
KLA  ATP  ATP+KLA
 133892806 Unknown KLA .56 .53 .50 .43 .25 .23 .19
ATP .91 .89 1.16 .93 .74 .27 .22
KLA/ATP .52 .48 .64 .47 .43 .21 .14
Mm.46344
5
KLA  ATP  ATP+KLA
 133892229 Unknown KLA .73 .77 .76 .87 .89 1.05 .94
ATP .97 .84 .52 .27 .53 1.08 1.04
KLA/ATP .71 .67 .45 .34 .55 .92 .93
Mpg
KLA  ATP  ATP+KLA
 NM_010822 N-methylpurine-DNA glycosylase (Mpg), mRNA [NM_010822] KLA .72 .76 .76 .84 .88 .99 .96
ATP .96 .90 1.04 .99 .72 .54 .84
KLA/ATP .70 .74 .79 .72 .66 .60 .82
Mutyh
KLA  ATP  ATP+KLA
 NM_133250 mutY homolog (E. coli) (Mutyh), nuclear gene encoding mitochondrial protein, mRNA [NM_133250] KLA .74 .75 .69 .73 .71 .75 .72
ATP 1.04 1.03 .91 .93 .70 .78 .69
KLA/ATP .78 .70 .79 .81 .78 .92 .65
Neil1
KLA  ATP  ATP+KLA
 BC043297 nei endonuclease VIII-like 1 (E. coli), mRNA (cDNA clone MGC:49102 IMAGE:5320651), complete cds [BC043297] KLA .78 .76 .84 .91 .90 .59 .80
ATP 1.11 1.17 1.07 1.03 .64 .77 1.32
KLA/ATP .91 .95 .83 .87 .64 .73 1.09
Neil1
KLA  ATP  ATP+KLA
 NM_028347 nei endonuclease VIII-like 1 (E. coli) (Neil1), mRNA [NM_028347] KLA .91 .87 .87 .94 .88 .73 .87
ATP .97 1.05 1.03 1.03 .70 .86 1.21
KLA/ATP .92 .93 .92 .94 .80 .88 1.01
Neil2
KLA  ATP  ATP+KLA
 NM_201610 nei like 2 (E. coli) (Neil2), mRNA [NM_201610] KLA .83 .91 .89 .91 .90 .86 .97
ATP .99 1.05 .88 .88 .85 .85 .87
KLA/ATP .85 .91 .91 .86 .87 .81 .89
Neil3
KLA  ATP  ATP+KLA
 AK042059 3 days neonate thymus cDNA, RIKEN full-length enriched library, clone:A630055A13 product:similar to CDNA FLJ10858 FIS, CLONE NT2RP4001555 [Homo sapiens], full insert sequence. [AK042059] KLA .44 .47 .53 .60 .62 .56 .37
ATP 1.03 .82 .75 .66 .69 .54 .34
KLA/ATP .44 .44 .60 .58 .66 .55 .37
Neil3
KLA  ATP  ATP+KLA
 NM_146208 nei like 3 (E. coli) (Neil3), mRNA [NM_146208] KLA .27 .24 .24 .27 .19 .17 .11
ATP 1.00 .98 1.08 1.02 .39 .24 .09
KLA/ATP .27 .24 .33 .34 .27 .17 .09
Nthl1
KLA  ATP  ATP+KLA
 NM_008743 nth (endonuclease III)-like 1 (E.coli) (Nthl1), mRNA [NM_008743] KLA .77 .77 .64 .66 .56 .59 .80
ATP .99 .99 1.09 1.17 .74 .48 .75
KLA/ATP .72 .74 .74 .79 .68 .49 .45
Ogg1
KLA  ATP  ATP+KLA
 NM_010957 8-oxoguanine DNA-glycosylase 1 (Ogg1), nuclear gene encoding mitochondrial protein, mRNA [NM_010957] KLA .67 .57 .51 .59 .57 1.12 1.32
ATP .88 .84 1.12 1.05 .76 1.01 1.23
KLA/ATP .55 .57 .71 .63 .61 .94 1.36
Parp1
KLA  ATP  ATP+KLA
 NM_007415 poly (ADP-ribose) polymerase family, member 1 (Parp1), mRNA [NM_007415] KLA .56 .58 .56 .44 .45 .46 .49
ATP 1.03 1.11 .93 .92 .66 .20 .46
KLA/ATP .65 .55 .46 .54 .33 .24 .22
Parp1
KLA  ATP  ATP+KLA
 X14206 gb|Mouse mRNA for poly (ADP-ribose) polymerase (EC 2.4.2.30). [X14206] KLA .57 .56 .54 .43 .40 .42 .47
ATP 1.01 1.09 .95 .95 .59 .19 .43
KLA/ATP .59 .55 .46 .49 .32 .20 .20
Parp2
KLA  ATP  ATP+KLA
 NM_009632 poly (ADP-ribose) polymerase family, member 2 (Parp2), mRNA [NM_009632] KLA .85 .87 .98 .94 .97 1.14 .94
ATP 1.13 1.07 .96 .86 .47 .61 1.03
KLA/ATP .91 .89 .86 .74 .55 .82 1.05
Parp3
KLA  ATP  ATP+KLA
 AY046317 poly(ADP-ribose) polymerase 3 (Adprt3) mRNA, partial cds, alternatively spliced. [AY046317] KLA 1.12 1.12 1.24 1.13 1.51 1.56 1.73
ATP 1.05 1.09 1.04 1.03 .81 .77 1.68
KLA/ATP 1.20 1.25 1.04 1.09 .87 .88 1.71
Parp3
KLA  ATP  ATP+KLA
 NM_145619 poly (ADP-ribose) polymerase family, member 3 (Parp3), mRNA [NM_145619] KLA 1.77 1.82 2.02 1.68 2.02 2.21 2.10
ATP .99 1.05 1.00 1.20 .78 .67 2.46
KLA/ATP 1.80 1.90 1.67 1.87 1.21 1.10 3.49
Parp4
KLA  ATP  ATP+KLA
 XM_994286 gb|PREDICTED: Mus musculus poly (ADP-ribose) polymerase family, member 4 (Parp4), mRNA [XM_994286] KLA 2.36 2.27 2.27 2.62 2.10 1.60 1.09
ATP 1.00 1.04 .92 .90 .89 1.59 1.12
KLA/ATP 2.20 2.23 2.36 1.80 1.40 1.69 1.74
Pcna
KLA  ATP  ATP+KLA
 NM_011045 proliferating cell nuclear antigen (Pcna), mRNA [NM_011045] KLA .70 .69 .73 .56 .46 .66 .55
ATP .98 .95 1.12 .81 .74 .49 .92
KLA/ATP .69 .66 .78 .60 .63 .59 .62
Polb
KLA  ATP  ATP+KLA
 BC006681 polymerase (DNA directed), beta, mRNA (cDNA clone IMAGE:3581916), complete cds [BC006681] KLA 1.62 1.31 1.52 1.37 1.57 1.35 1.17
ATP 1.04 1.03 .82 .63 .73 1.00 1.07
KLA/ATP 1.63 1.37 1.02 .72 .89 1.20 1.19
Polb
KLA  ATP  ATP+KLA
 NM_011130 polymerase (DNA directed), beta (Polb), mRNA [NM_011130] KLA 1.81 1.86 2.02 2.10 2.36 2.05 1.64
ATP .99 .99 1.19 1.34 1.16 1.04 1.62
KLA/ATP 1.80 1.83 2.05 2.17 2.03 1.73 2.49
Pold1
KLA  ATP  ATP+KLA
 NM_011131 polymerase (DNA directed), delta 1, catalytic subunit (Pold1), mRNA [NM_011131] KLA .24 .21 .20 .18 .18 .29 .36
ATP 1.05 1.05 .96 .99 .52 .26 .32
KLA/ATP .26 .22 .21 .22 .16 .17 .18
Pold2
KLA  ATP  ATP+KLA
 NM_008894 polymerase (DNA directed), delta 2, regulatory subunit (Pold2), mRNA [NM_008894] KLA .77 .83 .69 .68 .59 .49 .57
ATP 1.05 1.09 .97 1.24 .89 .44 .43
KLA/ATP .79 .78 .70 .84 .60 .41 .30
Pold3
KLA  ATP  ATP+KLA
 NM_133692 polymerase (DNA-directed), delta 3, accessory subunit (Pold3), mRNA [NM_133692] KLA 1.14 1.07 1.22 1.22 1.12 1.40 1.10
ATP .99 .95 1.17 .89 1.46 1.74 1.55
KLA/ATP 1.01 1.08 1.54 1.28 1.86 2.34 2.11
Pold4
KLA  ATP  ATP+KLA
 NM_027196 polymerase (DNA-directed), delta 4 (Pold4), mRNA [NM_027196] KLA .81 .88 .80 .78 .85 1.04 1.40
ATP .97 1.07 1.12 1.37 1.19 .86 1.27
KLA/ATP .85 .90 .89 1.07 .90 .94 1.62
Pole
KLA  ATP  ATP+KLA
 AK086490 15 days embryo head cDNA, RIKEN full-length enriched library, clone:D930032B21 product:DNA polymerase epsilon, full insert sequence. [AK086490] KLA 1.00 1.00 1.04 .96 .94 .99 1.04
ATP .97 .95 .91 .95 .97 1.06 .95
KLA/ATP .96 .93 1.00 1.01 1.08 1.02 1.01
Pole
KLA  ATP  ATP+KLA
 NM_011132 polymerase (DNA directed), epsilon (Pole), mRNA [NM_011132] KLA .50 .44 .38 .31 .25 .21 .17
ATP 1.12 1.03 1.28 .89 .68 .30 .16
KLA/ATP .45 .44 .56 .38 .30 .21 .14
Pole2
KLA  ATP  ATP+KLA
 NM_011133 polymerase (DNA directed), epsilon 2 (p59 subunit) (Pole2), mRNA [NM_011133] KLA .25 .24 .22 .21 .21 .37 .34
ATP .93 .98 1.11 1.00 .36 .30 .35
KLA/ATP .22 .22 .29 .30 .26 .28 .19
Pole3
KLA  ATP  ATP+KLA
 BC034004 polymerase (DNA directed), epsilon 3 (p17 subunit), mRNA (cDNA clone IMAGE:5117478) [BC034004] KLA .69 .72 .63 .69 .68 .81 .61
ATP .91 .86 1.29 .96 .81 .94 .51
KLA/ATP .62 .54 .85 .64 .70 .75 .44
Pole3
KLA  ATP  ATP+KLA
 NM_021498 polymerase (DNA directed), epsilon 3 (p17 subunit) (Pole3), mRNA [NM_021498] KLA 1.14 1.14 1.23 1.36 1.18 1.15 1.01
ATP 1.02 .98 1.17 1.44 1.40 1.27 1.25
KLA/ATP 1.20 1.24 1.58 1.57 1.60 1.25 1.23
Pole4
KLA  ATP  ATP+KLA
 NM_025882 polymerase (DNA-directed), epsilon 4 (p12 subunit) (Pole4), mRNA [NM_025882] KLA 1.11 1.15 1.15 1.22 1.19 1.31 1.26
ATP 1.00 .99 1.36 1.32 1.34 1.19 .98
KLA/ATP 1.02 1.15 1.58 1.47 1.52 1.10 .85
Poll
KLA  ATP  ATP+KLA
 NM_020032 polymerase (DNA directed), lambda (Poll), mRNA [NM_020032] KLA 1.12 1.16 1.24 1.46 1.53 1.42 .89
ATP 1.00 .85 .72 .66 .56 1.50 1.20
KLA/ATP 1.05 1.02 .99 .84 1.14 2.30 1.69
Smug1
KLA  ATP  ATP+KLA
 NM_027885 single-strand selective monofunctional uracil DNA glycosylase (Smug1), mRNA [NM_027885] KLA .75 .78 .87 .81 .93 .97 .98
ATP 1.04 .96 .53 .30 .56 .97 1.05
KLA/ATP .77 .78 .48 .36 .51 .86 .90
Tdg
KLA  ATP  ATP+KLA
 NM_011561 thymine DNA glycosylase (Tdg), transcript variant 1, mRNA [NM_011561] KLA 2.16 2.24 2.39 2.23 2.24 1.61 1.52
ATP 1.21 1.29 .91 1.14 1.16 1.45 1.04
KLA/ATP 2.43 2.69 1.58 2.11 1.51 1.80 1.27
Tdg
KLA  ATP  ATP+KLA
 NM_172552 thymine DNA glycosylase (Tdg), transcript variant 2, mRNA [NM_172552] KLA 2.16 2.17 2.09 2.28 1.80 1.76 1.23
ATP .88 .81 1.10 .89 1.15 2.07 .88
KLA/ATP 1.76 1.84 2.31 1.68 2.14 2.19 1.02
Ung
KLA  ATP  ATP+KLA
 NM_001040691 uracil DNA glycosylase (Ung), transcript variant 1, mRNA [NM_001040691] KLA .19 .17 .17 .16 .16 .24 .18
ATP .87 .83 1.06 .77 .42 .23 .26
KLA/ATP .16 .17 .23 .22 .27 .25 .15
Xrcc1
KLA  ATP  ATP+KLA
 NM_009532 X-ray repair complementing defective repair in Chinese hamster cells 1 (Xrcc1), mRNA [NM_009532] KLA .65 .62 .58 .55 .55 .68 .79
ATP 1.21 1.19 .96 1.11 .85 .66 .70
KLA/ATP .65 .66 .59 .65 .54 .65 .61