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Pasteurien College

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Articles

Calib-RT: an open source python package for peptide retention time calibration in DIA mass spectrometry data

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By Pasteurien College, Yichi Zhang
| Bioinformatics Verified
The data independent acquisition (DIA) mass spectrometry (MS) method is increasingly popular in the field of proteomics. But the loss of the correspondence between peptide ions and their spectra in DIA makes the identification challenging. One effective approach to reduce false positive identification is to calculate the deviation between the peptide’s estimated retention time (RT) and measured RT.
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vizAPA: visualizing dynamics of alternative polyadenylation from bulk and single-cell data

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By Xingyu Bi, Pasteurien College
| Bioinformatics Verified
Alternative polyadenylation (APA) is a widespread post-transcriptional regulatory mechanism across all eukaryotes. With the accumulation of genome-wide APA sites, especially those with single-cell resolution, it is imperative to develop easy-to-use visualization tools to guide APA analysis. We developed an R package called vizAPA for visualizing APA dynamics from bulk and single-cell data. vizAPA implements unified data structures for APA data and genome annotations.
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