使用GlyCompareCT为稳健的统计分析准备糖组学数据。

Preparing glycomics data for robust statistical analysis with GlyCompareCT.

作者信息

Zhang Yujie, Krishnan Sridevi, Bao Bokan, Chiang Austin W T, Sorrentino James T, Schinn Song-Min, Kellman Benjamin P, Lewis Nathan E

机构信息

Department of Pediatrics, University of California, San Diego, 9500 Gilman Drive MC 0760, La Jolla, CA 92093, USA; Department of Biostatistics, Harvard T.H. Chan School of Public Health, 677 Huntington Avenue, Boston, MA 02115, USA; Department of Bioengineering, University of California, San Diego, 9500 Gilman Drive MC 0760, La Jolla, CA 92093, USA.

Department of Pediatrics, University of California, San Diego, 9500 Gilman Drive MC 0760, La Jolla, CA 92093, USA.

出版信息

STAR Protoc. 2023 Mar 13;4(2):102162. doi: 10.1016/j.xpro.2023.102162.

DOI:10.1016/j.xpro.2023.102162

PMID:36920914

原文链接:https://pmc.ncbi.nlm.nih.gov/articles/PMC10025275/

Abstract

GlyCompareCT is a portable command-line tool to facilitate downstream glycomic data analyses, by addressing data inherent sparsity and non-independence. Inputting glycan abundances, users can run GlyCompareCT with one line of code to obtain the abundances of a minimal substructure set, named glycomotif, thereby quantifying hidden biosynthetic relationships between measured glycans. Optional parameters tuning and annotation are supported for personal preference. For complete details on the use and execution of this protocol, please refer to Bao et al. (2021)..

摘要

GlyCompareCT是一种便携式命令行工具，通过解决数据固有的稀疏性和非独立性，促进下游糖组学数据分析。输入聚糖丰度后，用户可以通过一行代码运行GlyCompareCT，以获得一个名为糖基基序的最小子结构集的丰度，从而量化所测聚糖之间隐藏的生物合成关系。支持根据个人偏好进行可选参数调整和注释。有关此方案的使用和执行的完整详细信息，请参阅Bao等人（2021年）的文献。