Objective To compare cytogenetic data of first-trimester missed abortions in intracytoplasmic sperm injection (ICSI) for non-male factor-mediated and spontaneous pregnancies. Methods Using karyotype analysis, we conducted a retrospective cohort trial of missed abortions following ICSI for non-male factor and spontaneous pregnancies. Patients experienced missed abortions during the first 12 weeks of pregnancy. Dilation and curettage procedure was performed followed by cytogenetic evaluations. Two patient groups were created: ICSI (n=71) and spontaneous pregnancies (n= 81). At least 20 GTG-banded metaphases were analyzed in each case for cytogenetic analyses. Statistical analyses were performed using NCSS 2007 Statistical Program software. The significance level and confidence interval for all analyses were set to p<0.05 and a 95% confidence interval, respectively. Results A total of 49.3% (75/152) of the miscarriages were cytogenetically abnormal among the patients. We detected cytogenetically abnormalities in 47.9% (34/71) of the ICSI group and 50.6% (41/81) of the control group, which were not statistically significant differences (p=NS). The sex chromosome abnormalities were similar between the ICSI and control groups (p=NS). The most prevalent abnormalStatement for authors submitting original research: The responsible authors at the institute where the work has been carried out have approved the enclosed manuscript "Comparison of Chromosomal Abnormality Rates in ICSI for Non-Male Factor and Spontaneous Conception". Authors certify that none of the materials in this manuscript has been published previously in any form and that none of this material is currently under consideration for publication elsewhere. All authors have participated sufficiently in the intellectual content, the analysis of data and the writing the manuscript to take public responsibility for it.Capsule The chromosomal anomalies and aneuploidy rates following ICSI for non-male factor were similar to those following natural conception. Assist Reprod Genet (2012) 29:25-30 DOI 10.1007 ities that were observed in the ICSI and control groups with first-trimester pregnancy loss were trisomy (n=42; 27.6%), Turner syndrome (45, X0, n=13; 8.6%), triploidy (n=13; 8.6%), 48 chromosomes (n=5; 3.3%), and mixed chromosomal abnormalities (n=3; 1.2%). In addition, the karyotypes were similar between the ICSI and control groups (p=NS). We observed increases in fetal aneuploidy rates with increased maternal age (<30 years=23.9% vs. 31-34 years=37.0% vs. 35-39 years=82.9% vs. >39 years= 90.9%). However, the observed increases in fetal aneuploidy rates were not statistically significant (p=NS). Conclusion The aneuploidy rates and sex chromosome anomalies following ICSI for non-male factor were similar to those following natural conception.