Yes. As stated under Whirlwind of Death, Impact Hits caused by a Doomseeker are resolved using the profile of its whirling blades of death, which includes any runes the weapon is inscribed with.
Source: Warhammer: The Old World Online Rules Index
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Do runes inscribed upon a Doomseeker’s whirling blades of death apply to Impact Hits?URL Copied!
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Source: Official Forces of Fantasy FAQ & Errata - Version 1.2