Several health conditions lifestyle choices and medications can also make it difficult for your body to absorb vitamin B12 leading to its deficiency. And one of the common conditions that can lead to vitamin B 12 deficiency is celiac disease. Dr Deepak Sanghavi Deputy Chief of Lab Services Metropolis Healthcare Ltd says Celiac disease which is an immune reaction to gluten and affects the small intestine affects a small percent of the Indian population and is linked to vitamin B12 deficiency. The disease which is more common in North India damages the lower part of the small intestine which is