Variability of 7K and 11K SomaScan Plasma Proteomics Assays

SomaScan is an aptamer-based proteomics assay designed
for the
simultaneous measurement of thousands of human proteins with a broad
range of endogenous concentrations. The 7K SomaScan assay has recently
been expanded into the new 11K version. Following up on our previous
assessment of the 7K assay, here, we expand our work on technical
replicates from donors enrolled in the Baltimore Longitudinal Study
of Aging. By generating SomaScan data from a second batch of technical
replicates in the 7K version as well as additional intra- and interplate
replicate measurements in the new 11K version using the same donor
samples, this work provides useful precision benchmarks for the SomaScan
user community. Beyond updating our previous technical assessment
of the 7K assay with increased statistics, here, we estimate interbatch
variability, assess inter- and intraplate variability in the new 11K
assay, compare the observed variability between the 7K and 11K assays
(leveraging the use of overlapping pairs of technical replicates),
and explore the potential effects of sample storage time (ranging
from 2 to 30 years) in the assays’ precision.

SomaScan，一款基于适体技术的蛋白质组学检测方法，旨在对数千种人类蛋白质进行同时测量，其检测范围涵盖了广泛的内源性浓度。近期，7K SomaScan检测方法已升级至新的11K版本。继我们对7K检测方法的先前评估之后，本研究进一步扩展了对纳入巴尔的摩纵向衰老研究中的捐赠者的技术重复样本的研究。通过从7K版本的第二个技术重复样本批次生成SomaScan数据，以及使用相同捐赠者样本在新的11K版本中进行额外的同板和跨板重复测量，本研究为SomaScan用户群体提供了有价值的精确度基准。除了更新我们对7K检测方法的技术评估并提高统计数据的准确性之外，本研究还估计了批次间的变异性，评估了新11K检测方法中的板间和板内变异性，比较了7K和11K检测方法观测到的变异性（利用重叠的技术重复样本对进行），并探讨了样本储存时间（从2年至30年不等）对检测方法精确度的潜在影响。