Objective
Calcium is fundamental component of bone tissue. It is present in extracellular fluid in ionized form, some are bounded with albumin while a few are of the complex anionic form. Calcium regulates many biochemical processes. Loss of calcium causes hypocalcemia further lead to osteopenia and osteoporosis. Proton pump inhibitor causes mal-absorption of calcium that leads to poor bone metabolism might causes hip fracture. Some studies via microRNA gene regulatory networks have been analyzed in the present study.
Methods
Microarray gene expression dataset has been retrieved by using NCBI gene expression Omnibus (GEO) database. Benjomini and Hochberg algorithm was used for identifying DEG’s and pre-processing of datasets. Heatmap plot and principal component analysis plot were generated by using online tool ClustVis for DEG’s. PPI network and sub network were analyzed by finding functional interactions among protein via online tool STRING v 10.5. DEG’s functional pathways analysis has been done by using DAVID (Database for Annotation, Visualization and Integration Discovery) software.
Results
A number of 3390 differentially expressed genes (DEG’s) were identified. …..were up-regulated and were down-regulated genes. DEGs related to Hypocalcemia and Bone signaling were 53, osteogenesis and bone signaling both were 86, whereas, 8 DEG’s related to hypocalcemia, Osteogenesis, and Bone signaling. The network of protein-protein interaction and sub network was having ITCH, CKAP4(Up) and FBXW11, RAB37(down) DEGs were concerned in hypocalcemia and were forming hub nodes while CHML, ATP11A, TMEM30A (Up) and YWHAE, AP1M1, FYN(down) DEG’s forming were all related to bone signaling. Functional enrichment analysis was performed notably enriched major molecular functions, biological processes and cellular components of novel DEG’s (FDR<0.05) related to hypocalcemia and osteoporosis were found.
Conclusion
Thus by concluding the genes ie; ITCH, CKAP4, FBXW11, RAB37, CHML, ATP11A, TMEM30A, YWHAE, AP1M1, FYN, CTNNB1, UBE2D1, RAP1A, EGFR, MAPK1 and AKT1, whether are unregulated or downregulatd in the diseased tissue samples, and plays a essential role in disease progression. These hub genes are occupied in different biological, molecular and cellular functions which might be related to bone signaling or osteoporosis. For the further cross validation wet lab experiments are required to validate gene roles.