ProSAP: a GUI software tool for statistical analysis and assessment of thermal stability data

Ji, Hongchao; Lu, Xue; Zheng, Zhenxiang; Sun, Siyuan; Tan, Chris Soon Heng

2022-03-01

10.1093/bib/bbac057

BRIEFINGS IN BIOINFORMATICS   影响因子和分区

1467-5463

1477-4054

The Cellular Thermal Shift Assay (CETSA) plays an important role in drug-target identification, and statistical analysis is a crucial step significantly affecting conclusion. We put forward ProSAP (Protein Stability Analysis Pod), an open-source, cross-platform and user-friendly software tool, which provides multiple methods for thermal proteome profiling (TPP) analysis, nonparametric analysis (NPA), proteome integral solubility alteration and isothermal shift assay (iTSA). For testing the performance of ProSAP, we processed several datasets and compare the performance of different algorithms. Overall, TPP analysis is more accurate with fewer false positive targets, but NPA methods are flexible and free from parameters. For iTSA, edgeR and DESeq2 identify more true targets than t-test and Limma, but when it comes to ranking, the four methods show not much difference. ProSAP software is available at https://github. com/hcji/ProSAP and https://zenodo.org/record/5763315.

protein thermal stability cellular thermal shift assay thermal proximity coaggregation thermal proteome profiling protein mass spectrometry statistical analysis

SCI

英语

第一 ; 通讯

The Shenzhen Innovation of Science and Technology Commission Grant[JCY20200109140814408] ; National Natural Science Foundation of China[22074060,22103036] ; Chin a Postdoctoral Science Foundation[2021M691413]

Biochemistry & Molecular Biology ; Mathematical & Computational Biology

Biochemical Research Methods ; Mathematical & Computational Biology

WOS:000767421400001

OXFORD UNIV PRESS

COMPUTER SCIENCE

Web of Science

Southern Univ Sci & Technol, Dept Chem, Shenzhen 518055, Peoples R China

Ji, Hongchao,Lu, Xue,Zheng, Zhenxiang,et al. ProSAP: a GUI software tool for statistical analysis and assessment of thermal stability data[J]. BRIEFINGS IN BIOINFORMATICS,2022.

Ji, Hongchao,Lu, Xue,Zheng, Zhenxiang,Sun, Siyuan,&Tan, Chris Soon Heng.(2022).ProSAP: a GUI software tool for statistical analysis and assessment of thermal stability data.BRIEFINGS IN BIOINFORMATICS.

Ji, Hongchao,et al."ProSAP: a GUI software tool for statistical analysis and assessment of thermal stability data".BRIEFINGS IN BIOINFORMATICS (2022).