In silico Analysis of Possible Novel RNA Interactions and Deleterious Single Nucleotide Polymorphisms Related to MSX۲, SHH, SMAD۷ and TFAP۲ Genes Involved in Odontogenesis

Publish Year: 1401
نوع سند: مقاله ژورنالی
زبان: English
View: 136

This Paper With 13 Page And PDF Format Ready To Download

  • Certificate
  • من نویسنده این مقاله هستم

استخراج به نرم افزارهای پژوهشی:

لینک ثابت به این Paper:

شناسه ملی سند علمی:

JR_SGR-8-2_004

تاریخ نمایه سازی: 18 مهر 1401

Abstract:

Identification of gene expression profiles, RNA interactions, gene regulation patterns, and single nucleotide polymorphisms (SNPs) is important for determining the molecular mechanisms underlying the normal odontogenesis and the pathology of oral and dental disorders. Therefore, this in silico study aimed to identify novel proteins, RNA interactions, and deleterious SNPs related to four major genes (MSX۲, SHH, SMAD۷, TFAP۲) involved in the odontogenesis process. After pathway enrichment and gene ontology analysis, the protein-protein, microRNA (miRNA)-mRNA, and miRNA-long noncoding RNA (lncRNA) interactions and networks were determined for the selected genes using integrated bioinformatics analyses. Moreover, the potential deleterious SNPs in the selected genes were identified and finally, their validation and implications on the structure of proteins were investigated by specific bioinformatics tools. The results of this study introduced UBE۲I, RNF۱۱۱, MYBL۲, and VEGFA as novel factors that may involve in odontogenesis. It was also found that the MSX۲, SHH, and TFAP۲A are targeted by hsa-miR-۶۷۷۵-۵p, hsa-miR-۱۴۹-۳p, and hsa-miR-۴۳۲-۵p, respectively. Moreover, the hsa-miR-۱۳۴-۵p regulated the SHH and TFAP۲A gene expression. LINC۰۲۰۳۵ and C۳orf۳۵ were also introduced as important lncRNAs that may involve in competitive endogenous RNA interaction with the SHH for binding to the hsa-miR-۱۴۹-۳p. Moreover, LINC۰۰۳۱۹, interacting with the hsa-miR-۶۷۷۵-۵p, indirectly regulated the MSX۲ expression. We also identified various SNPs in the investigated genes that changed the normal structure and thus the function of their related proteins. This study, for the first time, introduces different new proteins, miRNAs, lncRNAs, and SNPs that may be important for normal odontogenesis and the pathology of oral and dental disorders. 

Authors

Sajedeh Naghiyan Fesharaki

Department of Biology, Faculty of Science, Razi University, Kermanshah, Iran

Sajjad Sisakhtnezhad

Department of Biology, Faculty of Science, Razi University, Kermanshah, Iran

مراجع و منابع این Paper:

لیست زیر مراجع و منابع استفاده شده در این Paper را نمایش می دهد. این مراجع به صورت کاملا ماشینی و بر اساس هوش مصنوعی استخراج شده اند و لذا ممکن است دارای اشکالاتی باشند که به مرور زمان دقت استخراج این محتوا افزایش می یابد. مراجعی که مقالات مربوط به آنها در سیویلیکا نمایه شده و پیدا شده اند، به خود Paper لینک شده اند :
  • Akhoundi F, Parvaneh N, Modjtaba EB. ۲۰۱۶. In silico analysis ...
  • Babajko S, de La Dure-Molla M, Jedeon K, Berdal A. ...
  • Baby N, Alagappan N, Dheen ST, Sajikumar S. ۲۰۲۰. MicroRNA-۱۳۴-۵p ...
  • Balic A. ۲۰۱۹. Concise review: cellular and molecular mechanisms regulation ...
  • Berdal A, Molla M, Hotton D, Aïoub M, Lézot F, ...
  • Bhagwat M. ۲۰۱۰. Searching NCBI's dbSNP database. Curr Protoc Bioinform ...
  • Chen Z, Gao B, Zhou X. ۲۰۱۲. Expression patterns of ...
  • Cunha AS, Vertuan Dos Santos L, Schaffer Pugsley Baratto S, ...
  • Dashti S, Taheri M, Ghafouri-Fard S. ۲۰۲۰. An in-silico method ...
  • Griss J, Viteri G, Sidiropoulos K, Nguyen V, Fabregat A, ...
  • Heffer A, Marquart GD, Aquilina-Beck A, Saleem N, Burgess HA, ...
  • Hermans F, Hemeryck L, Lambrichts I, Bronckaers A, Vankelecom H. ...
  • Hosoya A, Shalehin N, Takebe H, Shimo T, Irie K. ...
  • Huang X, Xu S, Gao J, Liu F, Yue J, ...
  • Jensen LJ, Kuhn M, Stark M, Chaffron S, Creevey C, ...
  • Jiménez-Farfán D, Guevara J, Zenteno E, Malagón H, Hernández-Guerrero JC. ...
  • Kanehisa M, Furumichi M, Tanabe M, Sato Y, Morishima K. ...
  • Kobayashi T, Tomofuji T, Machida T, Yoneda T, Ekuni D, ...
  • Kumar P, Henikoff S, Ng PC. ۲۰۰۹. Predicting the effects ...
  • Lee DS, Yoon WJ, Cho ES, Kim HJ, Gronostajski RM, ...
  • Levi G, Mantero S, Barbieri O, Cantatore D, Paleari L, ...
  • Li J, Feng J, Liu Y, Ho TV, Grimes W, ...
  • Li J, Parada C, Chai Y. ۲۰۱۷. Cellular and molecular ...
  • Liao C, Huang X, Gong Y, Lin Q. ۲۰۱۹. Discovery ...
  • Liu CJ, Fu X, Xia M, Zhang Q, Gu Z, ...
  • Liu Z, Chen T, Bai D, Tian W, Chen Y. ...
  • Meng T, Huang Y, Wang S, Zhang H, Dechow PC, ...
  • Nong Y, Guo Y, Gumpert A, Li Q, Tomlin A, ...
  • Oshima M, Tsuji T. ۲۰۱۵. Whole tooth regeneration as a ...
  • Otasek D, Morris JH, Bouças J, Pico AR, Demchak B. ...
  • Pandey S, Dhusia K, Katara P, Singh S, Gautam B. ...
  • Seppala M, Fraser GJ, Birjandi AA, Xavier GM, Cobourne MT. ...
  • Sticht C, De La Torre C, Parveen A, Gretz N. ...
  • Sun YM, Chen YQ. ۲۰۲۰. Principles and innovative technologies for ...
  • Thesleff I. ۲۰۱۸. From understanding tooth development to bioengineering of ...
  • Venselaar H, Te Beek TA, Kuipers RK, Hekkelman ML, Vriend ...
  • Wang C, Dong L, Wang Y. Jiang Z, Zhang J, ...
  • Wang F, Tao R, Zhao L, Hao XH, Zou Y, ...
  • Wang J, Wang Q, Zhao T, Liu X, Bai G, ...
  • Woodruff ED, Gutierrez GC, Van Otterloo E, Williams T, Cohn ...
  • Xiao CT, Lai WJ, Zhu WA, Wang H. ۲۰۲۰. MicroRNA ...
  • Xie Z, Bailey A, Kuleshov MV, Clarke DJB, Evangelista JE, ...
  • Yao B, Cheng X, Mei X, Qiu J, Zhang B, ...
  • Yu W, Sun Z, Sweat Y, Sweat M, Venugopalan SR, ...
  • Yuan Y, Chai Y. ۲۰۱۹. Regulatory mechanisms of jaw bone ...
  • Zhang X, Wang W, Zhu W, Dong J, Cheng Y, ...
  • نمایش کامل مراجع