Department of Chemistry, University of Wisconsin-Madison, Madison, WI, USA.
Methods Mol Biol. 2022;2500:67-81. doi: 10.1007/978-1-0716-2325-1_7.
Proteoform Suite is an interactive software program for the identification and quantification of intact proteoforms from mass spectrometry data. Proteoform Suite identifies proteoforms observed by intact-mass (MS1) analysis. In intact-mass analysis, unfragmented experimental proteoforms are compared to a database of known proteoform sequences and to one another, searching for mass differences corresponding to well-known post-translational modifications or amino acids. Intact-mass analysis enables proteoforms observed in the MS1 data without MS/MS (MS2) fragmentation to be identified. Proteoform Suite further facilitates the construction and visualization of proteoform families, which are the sets of proteoforms derived from individual genes. Bottom-up peptide identifications and top-down (MS2) proteoform identifications can be integrated into the Proteoform Suite analysis to increase the sensitivity and accuracy of the analysis. Proteoform Suite is open source and freely available at https://github.com/smith-chem-wisc/proteoform-suite .
Proteoform Suite 是一款交互式软件程序，用于从质谱数据中鉴定和定量完整的蛋白质形式。Proteoform Suite 可识别通过完整质量 (MS1) 分析观察到的蛋白质形式。在完整质量分析中，将未碎片化的实验蛋白质形式与已知蛋白质形式序列数据库进行比较，并相互比较，以寻找对应于已知翻译后修饰或氨基酸的质量差异。完整质量分析可用于鉴定在 MS1 数据中观察到的无需 MS/MS (MS2) 碎片化的蛋白质形式。Proteoform Suite 还进一步促进了蛋白质形式家族的构建和可视化，这些家族是从单个基因衍生的蛋白质形式集。自上而下的肽鉴定和自下而上的 (MS2) 蛋白质形式鉴定可以整合到 Proteoform Suite 分析中，以提高分析的灵敏度和准确性。Proteoform Suite 是开源的，可在 https://github.com/smith-chem-wisc/proteoform-suite 免费获得。
