Early diagnosis of colorectal advanced neoplasms (AN), including colorectal cancer (CRC) and advanced adenoma (AA), has positive effect on survival rate. As the first attempt, the aim of this meta-analysis was to compare the diagnostic accuracy of fecal protein biomarkers for detection of colorectal neoplasms with consideration of wide range covariates.Until Jun 10, 2021, a systematic literature search was performed on Web of Sciences, Scopus and PubMed. The diagnostic accuracies were calculated using the bivariate/hierarchical random effect model. Biomarkers were determined clinically applicable (CA) if they had area under the curves> 0.70, positive and negative likelihood ratio >2 and <0.5, respectively. A total of 47059 test results were extracted from 16 Immunochemical fecal occult blood test (iFOBT), 26 Pyruvate Kinase-M2 (PK-M2) and 23 Fecal Calprotectin (FC) studies. Only iFOBT, PK-M2 and FC for CRC plus iFOBT and PK-M2 for AN were CA. iFOBT had significantly superior accuracy (P= 0.02 versus PK-M2 and P< 0.01 versus FC for CRC; P< 0.01 versus PK-M2 for AN). Regarding covariates, lateral flow method of PK-M2 measurement increased its accuracy for CRC detection compared to enzyme-linked immunosorbent assay (P< 0.01). Briefly, iFOBT is the most accurate fecal biomarker for diagnosis of CRC and AN.