Material from uterine cervical scrapings of 98 women with cervical intraepithelial neoplasia were analyzed by filter in situ hybridization for human papillomavirus infection. Concurrently obtained Papanicolaou smears and colposcopically directed biopsy specimens were also examined for papillomavirus infection. Hybridization was superior to cytologic and colposcopic examinations and was equivalent to histopathologic study for papillomavirus detection. Infection with virus types 6 and/or 11 was associated with milder disease, whereas virus types 16 and/or 18 infection alone or in association with types 6 and/or 11 was associated with more severe disease. Because papillomavirus infection may not be detected by cytologic or colposcopic examination and specific virus types have been documented to be associated with invasive disease, deoxyribonucleic acid hybridization analysis for at least these virus types should be carried out in conjunction with conventional procedures when evaluating women with cervical disease. Filter in situ hybridization is a simple, rapid, noninvasive procedure and has enhanced diagnostic value over conventional procedures by defining infecting virus types.