In order to assess gender differences for the impact of HIV infection on biological variables in Angami Nagas, a cross sectional analysis was performed comparing 400 control (HIV negative) adult Angamis (200 males and 200 females) and 60 affected (HIV positive) adult Angamis collected from Kohima, Nagaland (India). Both control males and females are significantly heavier, and have greater grip strengths, higher lung functions and marginally higher blood pressure than the respective HIV affected males and females. Gender differences as evident from two way ANOVA, of the impact of HIV infection on all the biological variables, except, stature, are significant. The effect of HIV infection (using K-Quotient) on all the biological variables is more in males than in female, except body weight.