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DIA-based analysis of the menstrual blood proteome identifies association between CXCL5 and IL1RN and endometriosis 1 1 Introduction 2 2 Materials and methods 2 2.1 Patient cohort and sample collection 2 2.2 Protein extraction and enrichment 2 2.3 Protein enrichment quality control 2 2.4 Protein digestion 3 2.5 High pH reversed-phase separation 3 2.6 DDA and DIA analysis by nano-LC-MS/MS 3 2.7 Bioinformatic analysis 3 2.8 ELISA 3 2.9 Statistical analysis 3 3 Results 3 3.1 Demographic and clinical data 3 3.2 Identification of proteins in menstrual blood 3 3.3 Differentially expressed proteins and functional enrichment analysis 3 3.4 PPI network analysis 5 3.5 Validation of CXCL5 and IL1RN protein expression 7 4 Discussion 7 5 Conclusion 8 Funding 8 Declaration of Competing Interest 8 Data availability 8 Acknowledgments 9 References 9
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