Table 2. Conserved beta cell marker genes identified in rat beta cells, alpha cells, liver and brain tissue using quantitative proteomics.
| Accession | Symbol | Alpha | Beta | Brain | Liver | Protein full name | mRNA | protein | mRNA | protein |
| relative molar abundance (fmolr) | AvFC | fold of LLQ | Rank | Rank | ||||||
| O35165 | Gosr2 | - | 0.00527 | - | - | Golgi SNAP receptor complex member 2 | 1.8 | 105 | 1 | 1 |
| Q7M0E3 | Dstn | - | 0.00329 | - | - | Destrin | 2.8 | 66 | 1 | 1 |
| O35142 | Copb2 | - | 0.00223 | - | - | Coatomer subunit beta | 1.9 | 45 | 1 | 1 |
| P19103 | Ppp1r1a | - | 0.00219 | - | - | Protein phosphatase 1, regulatory (inhibitor) subunit 1A | 10.0 | 44 | 1 | 1 |
| P28840 | Pcsk1 | - | 0.00195 | - | - | proprotein convertase subtilisin/kexin type 1 | 22.3 | 39 | 1 | 1 |
| P0C5H9 | Armet | - | 0.00168 | - | - | Protein ARMET | 3.5 | 34 | 1 | 1 |
| Q6AYG5 | Echdc1 | - | 0.00166 | - | - | Enoyl CoA hydratase domain containing protein 1 | 1.7 | 33 | 2 | 1 |
| P35571 | Gpd2 | - | 0.00149 | - | - | Glycerol 3 phosphate dehydrogenase mitochondrial | 1.4 | 30 | 3 | 1 |
| Q920J4 | Txnl1 | - | 0.00120 | - | - | Thioredoxin like protein 1 | 1.5 | 24 | 2 | 1 |
| P12336 | Slc2a2 | - | 0.00091 | - | - | Solute carrier family 2 facilitated glucose transporter member 2 | 28.6 | 18 | 1 | 1 |
| Q9R064 | Gorasp2 | - | 0.00079 | - | - | Golgi reassembly stacking protein 2 | 1.5 | 16 | 1 | 1 |
| Q9ESI7 | Dcx | - | 0.00067 | - | - | Neuronal migration protein doublecortin | 12.0 | 13 | 1 | 1 |
| Q9WVK7 | Hadh | 0.00162 | 0.01151 | - | - | Hydroxyacyl coenzyme A dehydrogenase mitochondrial | 6.0 | 230 | 1 | 1 |
| P12969 | Iapp | 0.00252 | 0.00809 | - | - | Islet amyloid polypeptide | 105.6 | 162 | 1 | 1 |
| P15087 | Cpe | 0.00809 | 0.00641 | - | - | Carboxypeptidase E | 12.3 | 128 | 1 | 2 |
| P10362 | Scg2 | 0.01099 | 0.00295 | - | - | Secretogranin 2 | 67.3 | 59 | 2 | 2 |
| P10354 | Chga | 0.00401 | 0.00254 | - | - | Chromogranin A | 14.3 | 51 | 2 | 2 |
| P27682 | Scg5 | 0.01081 | 0.00242 | - | - | Neuroendocrine protein 7B2 | 19.4 | 48 | 2 | 2 |
| Q4AEF8 | Copg | 0.00099 | 0.00228 | - | - | Coatomer subunit gamma | 2.1 | 46 | 1 | 1 |
| P28841 | Pcsk2 | 0.00901 | 0.00222 | - | - | Neuroendocrine convertase 2 | 15.5 | 44 | 2 | 2 |
| P47868 | Scg3 | 0.00583 | 0.00104 | - | - | Secretogranin 3 | 31.6 | 21 | 2 | 2 |
| P61765 | Stxbp1 | - | 0.00136 | 0.00420 | - | Syntaxin binding protein 1 | 4.2 | 27 | 2 | 1 |
| O35303 | Dnm1l | - | 0.00075 | 0.00089 | - | Dynamin 1 like protein | 1.4 | 15 | 3 | 2 |
| O88600 | Hspa4 | 0.00111 | 0.00169 | 0.00072 | - | Heat shock 70 kDa protein 4 | 1.6 | 34 | 1 | 1 |
| P61751 | Arf4 | 0.00125 | 0.00106 | 0.00104 | - | ADP ribosylation factor 4 | 2.0 | 21 | 1 | 2 |
| Q62902 | Lman1 | - | 0.00354 | - | 0.00227 | Protein ERGIC 53 | 3.9 | 71 | 1 | 1 |
| Q66HD0 | Hsp90b1 | 0.00547 | 0.01348 | - | 0.00500 | Endoplasmin | 2.7 | 270 | 1 | 1 |
| Q63081 | Pdia6 | 0.00410 | 0.01173 | - | 0.00382 | Protein disulfide isomerase A6 | 2.8 | 235 | 1 | 1 |
| Q63617 | Hyou1 | 0.00251 | 0.00836 | - | 0.00098 | Hypoxia up regulated protein 1 | 4.5 | 167 | 1 | 1 |
| Q9JI85 | Nucb2 | 0.00155 | 0.00272 | - | 0.00057 | Nucleobindin 2 | 6.8 | 54 | 1 | 1 |
| Q66X93 | Snd1 | 0.00090 | 0.00146 | - | 0.00148 | Staphylococcal nuclease domain containing protein 1 | 2.1 | 29 | 1 | 2 |
| P06761 | Hspa5 | 0.00656 | 0.02272 | 0.00109 | 0.00913 | 78 kDa glucose regulated protein | 2.9 | 454 | 1 | 1 |
| P11598 | Pdia3 | 0.00643 | 0.01311 | 0.00059 | 0.00631 | Protein disulfide isomerase A3 | 2.7 | 262 | 1 | 1 |
| Q6NYB7 | Rab1A | 0.00345 | 0.00347 | 0.00123 | 0.00129 | Ras related protein Rab 1A | 1.6 | 69 | 1 | 1 |
| P18596 | Atp2a3 | 0.00085 | 0.00307 | 0.00031 | 0.00051 | Sarcoplasmic endoplasmic reticulum calcium ATPase 3 | 10.1 | 61 | 1 | 1 |
| P05712 | Rab2a | 0.00221 | 0.00236 | 0.00127 | 0.00026 | Ras related protein Rab 2A | 1.4 | 47 | 1 | 1 |
| P11507 | Atp2a2 | 0.00109 | 0.00201 | 0.00131 | 0.00083 | Sarcoplasmic endoplasmic reticulum calcium ATPase 2 | 2.4 | 40 | 2 | 1 |
| Q63941 | Rab3b | 0.00186 | 0.00092 | 0.00050 | <LLQ | Ras related protein Rab 3B | 1.9 | 18 | 2 | 2 |
| Lower Limit of Quantification (LLQ) = 0.00005 | ||||||||||
Data represent relative molar amounts of proteins coded by beta cell marker genes that could be detected in label-free alternate-scanning LC-MS proteomics of unfractionated cells and tissues (mean of triplicate injections of 3 biological replicates, total CV%<20% [9]). For comparison avFC and rank of mRNA transcript (array) are compared to protein abundance (fold above lower limit of quantification, LLQ) and rank (see Methods and reference [9] for details).