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Table 1 Plasma experiments performed.

From: A high confidence, manually validated human blood plasma protein reference set

Experiment Designated name Plasma treatment [Protein]
(μg) applied
Plasma
separation
method
MS LC-MS run
time/sample
(minutes)
Comment
Plasma_01 01_MS2 none 450 1-D PAGE MS/MS2 100  
Plasma_04 04_MS2_prec none 750 1-D PAGE MS/MS2 100 Precursor selection
within certain mass
ranges only
Plasma_05 05 none 750 1-D PAGE MS/MS2/MS3 100  
Plasma_06 06_Alb_depl Albumin-depletion 1800 1-D PAGE MS/MS2/MS3 100  
Plasma_10 10_Alb_depl _NL Albumin depletion,
Protease inhibitors
1800 1-D PAGE MS/MS2/MS3 100 Neutral loss
dependent MS3
Plasma_08 08_OGE none 1800 OGE MS/MS2/MS3 140  
Plasma_09 09_OGE_6_depl Depletion of albumin,
transferrin, haptoglobin,
alpha-1-antitrypsin,
IgA and IgG
650 OGE MS/MS2/MS3 140  
Plasma_11 11_Orbitrap Depletion of albumin,
transferrin, haptoglobin,
alpha-1-antitrypsin,
IgA and IgG
300 1-D PAGE MS/MS2 140  
  1. A summary of the differences in the experimental protocols between plasma experiments is shown. Each experiment has been assigned a meaningful "designated name" that is used in the text and in the accompanying figures and tables. Note that all experiments include MS3 measurements with the exception of 01_MS2, 04_MS2_prec and 11_Orbitrap. The type of treatment performed on the plasma samples, if any, is indicated, along with the amount of material applied to the gel, the separation method employed, and the method used for MS data collection.