. Author manuscript; available in PMC: 2015 Mar 16.

Published in final edited form as: Proteomics. 2011 Jun 17;11(14):2763–2776. doi: 10.1002/pmic.201000202

Table 4b.

List of down-regulated proteins identified by both methods.

Protein Name	Mice at 6 weeks APOE −/− vs WT	Mice at 12 weeks APOE −/− vs WT
Apolipoprotein A-I precursor	^a0.37	^a0.31
Apolipoprotein A-I precursor	^d0.39	^d0.32
Apolipoprotein C-II precursor	^c0.36	^c0.31
Apolipoprotein C-II precursor	^d0.28	^d0.25
Apolipoprotein E precursor	^a0.12	^a0.059
Apolipoprotein E precursor	^d0.09	^d0.07
Beta-2-microglobulin precursor		^a0.54
Beta-2-microglobulin precursor		^d0.50
Carbonic anhydrase 2	^a0.61	^a0.35
Carbonic anhydrase 2		^d0.43
Hemoglobin subunit alpha	^a0.55	^a0.32
Hemoglobin subunit alpha	^d0.40	^d0.21
Peroxiredoxin-2	^c0.55	^c0.34
Peroxiredoxin-2		^d0.44
Serum amyloid A-4 protein precursor	^a0.46	^a0.49
Serum amyloid A-4 protein precursor	^d0.40
Serum paraoxonase/arylesterase1	^c0.57	^b0.51
Serum paraoxonase/arylesterase1	^d0.41	^d0.45

Protein identified and quantified by using 2D-LC-MALDI-TOF/TOF (P<0.001).

Protein identified and quantified by using 2D-LC-MALDI-TOF/TOF (0.001P<0.01).

Protein identified and quantified by using 2D-LC-MALDI-TOF/TOF (0.01<P<0.05).

Protein quantified by using 2D-LC-ESI-LTQ(PQD)-Orbitrap (0.5 cut-off).