Background: Neutropenia is one of the important risk factors of infection. Neutropenia is associated with various items include mother's blood pressure and hemolytic anemia. The aim of this study was evaluation of neutropenia and its complications in Neonatal Intensive Care Unit (NICU). Materials and methods: In this analytical cross sectional study, the records of 315 neonates hospitalized in the NICU of Imam Khomeini hospital were studied for the diagnosis of neutropenia. Statistical methods of independent t-test and Chi-square were used for the measurement of the date. Analyses were performed by using SPSS version 17. Results: Nineteen of 315 cases (6%) had neutropenia. There was no significant correlation between two genders (73.7% male and 26.3% female) in neutropenic neonates. Seven patients (36.8%) were dead and 12 (63.2%) were alive (P-value=0.02). Five cases (26.3%) were infected and 14 cases (73.7%) had no infection (P-value=0.86). In 10 neutropenic cases (52.6%) high blood pressure of the mother was observed during pregnancy (P-value=0.00). Significant difference was observed between birth weight infants and neutropenia (P-value=0.01). Conclusion: Our study showed that neutropenia has a reverse relationship with gestational age and low birth weight. Neutropenia has a direct significant correlation with infant mortality and high maternal hypertension. There was no significant correlation between neutropenia with neonatal infections, Apgar score 5 and the gender of neonate.