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Abstract Background Cirrhosis is the final result of most types of liver disease. Zinc, magnesium, and vitamin D have a significantly vital role in the immunologic and physiologic mechanisms in the body. The current study aimed to measure magnesium, zinc, and vitamin D level among children with liver cirrhosis. Results One hundred cases were included in the current study. Vitamin D deficiency was found in 53% of the cases. Zinc deficiency was present in 23% of the cases. The magnesium level was more than the normal level among 99% of the cases. There is a significant inverse correlation between zinc level and PELD score (Pearson correlation = − 0.314, P = 0.007). Conclusion Zinc deficiency and vitamin D deficiency were seen in children with liver cirrhosis. Serum magnesium level in children with liver cirrhosis was higher than standard. A significant correlation was seen between zinc level and PELD score.