التفاصيل البيبلوغرافية
| العنوان: |
Moderated Test Statistics to Detect Differential Deuteration in Hydrogen/Deuterium Exchange Mass Spectrometry Experiments |
| المؤلفون: |
Jürgen Claesen (1496350), Srinath Krishnamurthy (2813845), Andy M. Lau (3662803), Anastassios Economou (2743852) |
| سنة النشر: |
2021 |
| المجموعة: |
Smithsonian Institution: Digital Repository |
| مصطلحات موضوعية: |
Biophysics, Biochemistry, Biotechnology, Inorganic Chemistry, Mathematical Sciences not elsewhere classified, empirical bayes approach, draw meaningful conclusions, biologically relevant difference, available upon request, statistical significance tests, false negative findings, detect differential deuteration, >- statistic ), observed deuteration differences, moderated test statistics, >- tests, >- statistic, false positive, >- test, potentially controlling, linear model, level variances, groups (<, distinct conformations, differential hydrogen, deuterium exchange |
| الوصف: |
With differential hydrogen/deuterium exchange, differences in the structure and dynamics of protein states can be studied. Detecting statistically significant differentially deuterated peptides is crucial to draw meaningful conclusions about the distinct conformations and dynamics of the protein under study. Here, we introduced a linear model in combination with an empirical Bayes approach to detect differentially deuterated peptides. Using a linear model allows one to test for differences in deuteration between two (two-sample t -test) or more groups ( F -statistic), while potentially controlling for the effects of other variables that are not of interest. The empirical Bayes approach improves the estimation of deuteration-level variances, especially in experiments with a low number of replicates. As a consequence, the two sample t -tests and the F -statistic become moderated, resulting in a lower number of false positive and false negative findings. Furthermore, we introduce a thresholded-moderated t -statistic to test if the observed deuteration differences are larger than a specified, biologically relevant difference. Finally, we underline the importance of having a sufficient number of replicates, and the effect of the number of replicates on the power of the statistical significance tests. The R-code for the proposed moderated test statistics is available upon request. |
| نوع الوثيقة: |
article in journal/newspaper |
| اللغة: |
unknown |
| Relation: |
https://figshare.com/articles/journal_contribution/Moderated_Test_Statistics_to_Detect_Differential_Deuteration_in_Hydrogen_Deuterium_Exchange_Mass_Spectrometry_Experiments/17091591 |
| DOI: |
10.1021/acs.analchem.1c02346.s001 |
| الاتاحة: |
https://doi.org/10.1021/acs.analchem.1c02346.s001 |
| Rights: |
CC BY-NC 4.0 |
| رقم الانضمام: |
edsbas.7C15F0E8 |
| قاعدة البيانات: |
BASE |