Table II Coverage of dynamic proteomic experiments. For a given species, the MS/MS data were searched against either mouse or the species-specific database as indicated. “PSM” indicates the number of peptide spectral matches. “Unique peptides” indicates the number of unique peptide sequences. “Protein Groups” indicates the number of homologous protein groups. The reported number of quantified Protein Groups is limited to those for which heavy to light ratios (H/L) could be quantified by two peptide spectra. The reported number of kdegradation values measured for Protein Groups is limited to those where two distinct peptides could be measured in two or more time-points
ExperimentSearched databaseTime-pointDetectedH/L quantifiedkdegradation analyzed
PSMsUnique peptidesProtein groupsUnique peptidesProtein groupsaUnique peptidesProtein groupsb
MouseMouse2d93418384495350256623086
4d105193438035165266802775416823401
6d94460420985130245822676
RatMouse2d85626252903727182132243
4d55709205273517124221682227132037
6d55589186952931113661470
HamsterMouse2d90671259324122178702339
4d55242194863430120571732217952262
6d75347247554003144872013
Guinea PigMouse2d56881167122916124381845
4d54505163682888113171690161691887
6d4726314240271498691516
Blind Mole RatMouse2d80676214723575156182190
4d62582195243380133851880202302228
6d80652223793835137831939
ChinchillaMouse2d54698161523104121891983
4d51188151533027115381908159752042
6d49061144992962109071857
BeaverMouse2d51467160312698118101721
4d44979147582602111161638154981825
6d42644138742554103071528
Naked Mole RatMouse2d63613201503194147361979
4d54968175383212112971667202462050
6d59707206793380127701674
RatRat2d114368346824345239252633
4d73573273533988158341957299022315
6d76736263263525151481763
HamsterHamster2d122553364345068242772906
4d78198281744309163192117298872467
6d104367355944973195102492
Guinea PigGuinea Pig2d100119303563908217322583
4d95432295813952196602350287322268
6d88322276353823178982210
Naked Mole RatNaked Mole Rat2d111471372614665257242875
4d95305317194507191342337330512212
6d4575416739326793451531
  • a Based on at least two quantified peptides.

  • b Limited to proteins for which at least two unique peptide sequences were quantified at two or more time-points.