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A total of 396 overlapping peptides were arranged in pools with a matrix design which allowed the identification of individual peptide responses from multiple pool responses.
We present a statistical method that enables estimation of individual peptide responses from pool responses using the Expectation Maximization (EM) algorithm for "incomplete data".
We provide an easy-to-use free online application for implementing the method, where on uploading two spreadsheets with the pool design and pool responses, the user obtains the estimates of the individual peptide responses.
The Postdoc Network made arrangements to pool responses from all three surveys and secured the assistance of Renuka Chander, the member research manager at the American Association for the Advancement of Science (publisher of Next Wave), and ReData of Bethesda, Maryland, to help us tabulate and interpret the data sets.
After analysing all peptide pool responses we identified a single epitope in 2 subjects, which was due in both cases to the response to a single peptide (p23).
To understand responding phenotypes in more detail we looked for unambiguous peptide pool responses, consistent with a single epitope being maintained throughout the entire monitoring period.
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The results are expressed as spot-forming units (SFUs) per million PBMCs calculated by subtracting the mean R10 negative control response from the mean peptide pool response.
The simulated pool response curve with the best fit is shown as dashed line, whereas psychometric data are shown as solid line.
There was no significant correlation between the CD4 count at screening and the peak summed 85A peptide pool response (R=0.04, p=0.09), nor between HIV RNA load at screening and the peak immune response (R=−0.04, p=0.08).
Taken together the dual stimulatory function on both PBMC and viral copies per cell, the magnitude of total viral pool response in SEA stimulated culture is obviously larger than the currently presented values, in table 2, as viral copies per cell.
Other studies pooled responses on naloxone administration with responses on other material, such as overdose recognition and response.
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