High-grade cervical intraepithelial neoplasia (CIN2 and CIN3) represents a heterogeneous disease with varying cancer progression risks. Biomarkers indicative for a productive human papillomavirus (HPV) infection (HPV E4) and a transforming HPV infection (p16 ink4a , Ki-67 and host-cell DNA methylation) could provide guidance for clinical management in women with high-grade CIN. This study evaluates the cumulative score of immunohistochemical expression of p16 ink4a (Scores 0-3) and Ki-67 (Scores 0-3), referred to as the "immunoscore" (IS), in 262 CIN2 and 235 CIN3 lesions derived from five European cohorts in relation to immunohistochemical HPV E4 expression and FAM19A4/miR124-2 methylation in the corresponding cervical scrape. The immunoscore classification resulted in 30 lesions within IS group 0-2 (6.0%), 151 lesions within IS group 3-4 (30.4%) and 316 lesions within IS group 5-6 (63.6%). E4 expression decreased significantly from CIN2 to CIN3 (P < .001) and with increasing immunoscore group (P trend < .001). Methylation positivity increased significantly from CIN2 to CIN3 (P < .001) and with increasing immunoscore group (P trend < .001). E4 expression was present in 9.8% of CIN3 (23/235) and in 12.0% of IS group 5-6 (38/316). Notably, in a minority (43/497, 8.7%) of high-grade lesions, characteristics of both transforming HPV infection (DNA hypermethylation) and Abbreviations: ACTB, ß-actin; CIN, cervical intraepithelial neoplasia; Ct value, cycle threshold value; DNA, deoxyribonucleic acid; E4, panHPVE4 protein; FAM19A4, family with sequence similarity 19 (chemokine [C-C]-motif)-like) member A4 ; FFPE, formalin-fixed paraffin-embedded; H&E, haematoxylin and eosin; HPV, human papillomavirus; IS, immunoscore; LLETZ, large-loop excision of the transformation zone; miR124-2, microRNA 124-2; mAb, mouse monoclonal antibodies.Frederique J. Vink and Stèfanie Dick contributed equally to this work.