Table I Top most overexpressed MIPs in WT relative to dKO DCs
No.m/zChargeMascot scoreMHC I allelePeptide sequenceGene IDGene symbolGene NameWT/dKO ratio
1520.22266H2DbGGVVNMYHM16913Psmb8Proteasome subunit, beta type 8 (LMP7)≥1181,3
2460.25240H2KbATRSFPQL11750Anxa7Annexin A7≥380,8
3624.83244H2DbHAIRNSFQYL170749Mtmr4Myotubularin related protein 4≥207,3
4472.28255H2KbTIIIFHSL14050Eya3Eyes absent 3 homolog (Dm)160,5
5497.27243H2KbVVYIYHSL67014MinaMyc induced nuclear antigen≥159,3
6467.28247H2KbSALRFLNL71728Stk11ipSer/Thr kinase 11 interacting protein120,8
7479.28239H2KbKNVLFSHL19084Prkar1aProtein kinase, cAMP dependent regulatory, type I, alpha≥109,8
8524.27265H2DbRQILNADAM661851110037F02RikRIKEN cDNA 1110037F02 gene≥96,8
9496.78242H2DbSGLLNMTKI216445Arhgap9Rho GTPase activating protein 9≥93,9
10525.26229H2KbHVYYFAHL74558Gvin1GTPase, very large interferon inducible 1≥93,4
11510.80256H2KbVITNFSARI685051110014N23RikRIKEN cDNA 1110014N23 gene≥83,3
12507.26249H2KbSTLIYRNM75660Lin37Lin-37 homolog (C. elegans)≥82,1
13597.28227H2DbSAIHNFYDNI68652Map3k7ip2MAPKKK 7 interacting protein 2≥80,5
14523.75234H2DbSQVYNDAHI66923Pbrm1Polybromo 1≥76,9
15537.27240H2KbLVYQFKEM56501Elf4E74-like factor 4 (ets domain transcription factor)≥76,2
16461.76262H2DbGAVQNIAHL74125Armc8Armadillo repeat containing 868,5
17496.28232H2KbISLEFRNL14137Fdft1Farnesyl diphosphate farnesyl transferase 168,1
18506.30243H2KbKSYLFQLL12566Cdk2Cyclin-dependent kinase 2≥66,4
19447.74253H2DbGGIQNVGHI23918Impdh2Inosine 5′-phosphate dehydrogenase 254,8
20493.24241H2KbSNYRFEGL319955Ercc6Excision repair cross-complementing rodent repair deficiency, complementation group 6≥46,4
21479.75237Qa2GLMTTVHAI640374LOC640374Similar to GAPDH42,0
22645.34233H2DbAQYGNILKHVM69482Nup35Nucleoporin 35≥40,3
23486.78248H2DbKAPLNIAVM667214RP23–269N23.3Similar to immunity-related GTPase family, cinema 139,8
24510.81254H2DbYGLLNVTKI75415Arhgap12Rho GTPase activating protein 12≥37,6
25501.27242H2DbSALANYIHL58245Gpr180G protein-coupled receptor 180≥37,4
  • MIPs that were not detected on dKO cells were attributed the intensity value 15,000, which represents the threshold for limit of detection. Ratios with the symbol ≥ indicate peptides for which the exact fold change could not be measured because they were detected only in WT DCs. See supplemental Table S1 for a complete list of MIPs detected on DCs.