Biology subjects

Ranganathan, K.

Publications and source records attributed to Ranganathan, K..

3 recordsLinked to original sources

bioRxiv2021

A COMPARATIVE ANALAYSIS OF INTER-SITE GENE EXPRESSION HETEROGENICITY OF NORMAL HUMAN BUCCAL MUCOSA WITH NORMAL GINGIVAL MUCOSA

BACKGROUNDDescription of heterogeneity of gene expression of various human intraoral sites are not adequate. The aim of this study was to explore the difference of gene expression profiles of whole tissue obtained from apparently normal human gingiva and buccal mucosa (HGM, HBM). MATERIALS AND METHODSGene sets fulfilling inclusion and exclusion criteria of HGM and HBM in gene Expression Omnibus(GEO) database were identified, segregated, filtered and analysed using the ExAtlas online web tool using pre-determined cut-off. The differentially expressed genes were studied for epithelial keratinization related, housekeeping(HKG), extracellular matrix related(ECMRG) and epithelial-mesenchymal transition related genes(EMTRGs). RESULTSIn all 40 HBM and 64 HGM formed the study group. In all there were 18012 significantly expressed genes. Of this, 1814 were over-expressed and 1862 under-expressed HBM genes as compared to HGM. One in five of all studied genes significantly differed between HBM and HGM. For the keratinization genes, 1 in 6 differed. One of every 5 HKG-proteomics genes differed between HBM and HGM, while this ratio was 1-in 4 for all ECMRGs and EMTRGs. DISCUSSIONThis difference in the gene expression between the HBM and HGM could possibly influence a multitude of biological pathways. This result could explain partly the difference in clinicopathological features of oral lesions occurring in HBM and HGM. The innate genotypic difference between the two intra-oral niches could serve as confounding factor in genotypic studies. Hence studies that compare the HBM and HGM should factor-in these findings while evaluating their results.

genomics↗

bioRxiv2021

Role Of Efferocytosis In Oral Lichen Planus

BackgroundOral lichen planus (OLP) is a chronic, immune mediated interface mucositis of oral mucosa. Though the apoptosis of keratinocytes is a feature of OLP, not much is known about the clearance of cell debris (efferocytosis) resulting from apoptosis. We postulate that there is a defective or delayed efferocytosis in OLP, which may have a role in modulating the immune response in OLP. MethodsPublished mRNA expression of tissue of 14 patients with OLP and 14 cases of normal tissues were subjected to differential analysis (DE) and a list of DE genes identified. From this list, the genes that involved in efferocytosis were collated, compared and their interactions are typed. ResultIn all, two studies fulfilled the inclusion and exclusion criteria. On combining the data, 1486 genes were significantly different between OLP and normal tissues. 28 of these 1486 genes are were associated with efferocytosis of which the suppression of LRP1, LDLR, ANAX2, C2, PBX1, PDCD4, S1PR5, CX3CL1, STAT6 and Wnt3A is indicative of defective or delayed efferocytosis in OLP. The role of pathways and associations were analyzed and is presented here. Discussion and ConclusionThe study revealed that certain key genes mRNAs that are associated with efferocytosis are altered in OLP. They could delay or lead to defective efferocytosis. Studying such genes in detail could provide deeper understanding of the pathogenesis of the disease and the discovery of therapeutic targets.

pathology↗

bioRxiv2021

Comparison of Ferroptosis Related Genes expression in Human Oral Squamous Cell Carcinoma and Normal oral tissues

IntroductionEvasion of programmed cell death (PCD) is a hall mark of oncogenesis. There are different types of PCD. Iron related PCD, ferroptosis is being increasingly associated with neoplastic process. There are very few reports that investigate the role of ferroptosis in Oral Squamous Cell Carcinoma (OSCC). An attempt is made to compare the ferroptosis related genes(FRGs) expression in human OSCC and normal oral tissues. Materials and MethodsGene Expression Omnibus repository was scanned for OSCC mRNA datasets along with normal control tissues. Datasets fulfilling inclusion and exclusion criteria as well as that fulfilled the statistical correlation requirements were considered for this study. Differentially expressed mRNAs were identified. From the literature and ferroptosis database, FRGs were identified and those FRGs were differentially expressed were validated using The Human Cancer Genome dataset. ResultsIn all 44 FRGs were identified to be differentially expressed between OSCC and control tissues. Of the 44, 21 were that promoted ferroptosis including 18 drivers of ferroptosis. Of the 21 FRGs that drives ferroptosis, 9 were found significantly elevated in controls while the remaining 12 were elevated in OSCC. The role of the differentially expressed FRGs were also studied. Of the 44 FRGs, 36 were validated using the human cancer genome dataset. Discussion and ConclusionDrivers and suppressors of ferroptosis were differentially expressed in OSCC and controls. This reflects that ferroptosis has a dual role in oncogenesis - both as a promoter and a suppressor. The identified specific FRGs in this studied would help to understand the role of PCD in OSCC progression and help in designing better treatment.

cancer biology↗