|ESCC||Esophageal squamous cell Carcinoma|
|LUSC||Lung squamous cell carcinoma|
|HNSC||Head and Neck squamous cell carcinoma|
|UCEC||Uterine Corpus Endometrial Carcinoma|
|KIRC||Kidney renal clear cell carcinoma|
|LIHC||Liver hepatocellular carcinoma|
|OV||Ovarian serous cystadenocarcinoma|
|BRCA||Breast invasive carcinoma|
MaxQuant software (version 18.104.22.168) was used to analyze MS raw files. If the “internal reference”, such as a mixed sample, exists, the reference channel will be set according to the corresponding plex, and the normalization method will be set as ‘Weighted ratio to reference channel’. The expression ratios output by MaxQuant were log2-transformed and normalized using the median centering method across proteins and phosphorylation sites.
the meaning of ‘log2 (median)’ represented the log2 transformed median value of normalized expression of proteins or phosphorylation. log2 (median) (N) represented the log2 transformed median value in normal samples. log2 (median) (T) represented the log2 transformed median value in tumor samples.