Extended Data Fig. 1: Peaks for unique E2 and unique E4 peptides look similar in TR mice and APOE4s2 and APOE4s2G mice. | Nature Neuroscience

Extended Data Fig. 1: Peaks for unique E2 and unique E4 peptides look similar in TR mice and APOE4s2 and APOE4s2G mice.

From: APOE4 to APOE2 allelic switching in mice improves Alzheimer’s disease-related metabolic signatures, neuropathology and cognition

Extended Data Fig. 1: Peaks for unique E2 and unique E4 peptides look similar in TR mice and APOE4s2 and APOE4s2G mice.

a,d,g,j, Extracted-ion chromatogram (XIC) of peaks from unique E4 peptide LGADMEDVR in an E4-TR control sample (a) and an APOE4s2 sample expressing E4 protein (d) or peaks from unique E2 peptide LGADMEDVRGC in and E2-TR control sample (g) or an APOE4s2G sample (j) expressing E2 protein. b,e,h,k, Mass spectra (MS) showing peaks with similar mass to charge ratios of unique E4 peptide LGADMEDVR in an E4-TR control sample (b) and an APOE4s2 sample expressing E4 protein (e) or peaks from unique E2 peptide LGADMEDVRGC in and E2-TR control sample (h) or an APOE4s2G sample (k) expressing E2 protein. c,f,i,l, Tandem mass spectra (MS/MS) showing ion fragment peaks with similar mass to charge ratios of unique E4 peptide LGADMEDVR in an E4-TR control sample (c) and an APOE4s2 sample expressing E4 protein (f) or peaks from unique E2 peptide LGADMEDVRGC in and E2-TR control sample (i) or an APOE4s2G sample (l) expressing E2 protein. m, Peptide sequences unique to ApoE2 or ApoE4 at amino acid residues 112 and 159 following trypsin digestion. Sequences were used to create a custom database of hApoE2 and hApoE4 peptides. LC-MS/MS data sets generated from plasma and brain samples were searched in against these sequences at both amino acid residues to generate a semi-quantitative ratio of E2:E4 in APOE4s2 and APOE4s2G samples.

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