This study examines the relationship of negative automatic thoughts, emotional intelligence subscales, gender, and department of university students. The participants are 291 students (170 female and 121 male) of Department of Psychology, Department of Counselling and Department of Preschool Education, of Private University in North Cyprus. Participants completed "Personal Information Form", "Emotional Intelligence Scale" and "Automatic Thoughts Questionnaire". Obtained data was processed with Kolmogorov-Smirnov test, and cumulative distribution of data was not normal. Accordingly, data was analyzed with Mann Whitney U and Kruskal Wallis tests. Significant difference (p<0.01) was found among the ability to manage emotions, understanding the emotions of others subscales, and negative automatic thoughts. But there was no significant difference between ability of understanding own emotions subscale and negative automatic thoughts. To find out the difference among groups, pairwise comparisons were done. And as a result, significant difference was found. Participants with normal and super normal scores of emotion managing subscale and understanding others emotion subscale, had higher negative automatic thoughts scores (p<0.01). Obtained results were discussed in the light of literature.