Computational design of small interfering RNAs and small hairpin RNAs to silence mutated P53 gene expressions
RNA silencing is a novel gene regulatory mechanism that confines the transcript level by either preventing translation or by the initiation of particular RNA degradation. Small interfering RNAs are regularly represented as the exogenously made or viral inducers of RNAi. Such small RNAs have been use...
| Main Authors: | , , , , , , , |
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| Format: | Article |
| Language: | English |
| Published: |
Elsevier
2018-01-01
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| Series: | Informatics in Medicine Unlocked |
| Online Access: | http://www.sciencedirect.com/science/article/pii/S2352914818300443 |
| _version_ | 1828394019586048000 |
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| author | Anum Munir Shumaila Azam Sahar Aslam Azhar Mehmood G. Mujtaba Shah Saeed Amjad Muhammad Younis Sahar Fazal |
| author_facet | Anum Munir Shumaila Azam Sahar Aslam Azhar Mehmood G. Mujtaba Shah Saeed Amjad Muhammad Younis Sahar Fazal |
| author_sort | Anum Munir |
| collection | DOAJ |
| description | RNA silencing is a novel gene regulatory mechanism that confines the transcript level by either preventing translation or by the initiation of particular RNA degradation. Small interfering RNAs are regularly represented as the exogenously made or viral inducers of RNAi. Such small RNAs have been used in biomedical research for particular repression of genes. A small hairpin RNA is an artificially synthesized RNA molecule with a hairpin or loop like structure, that is inserted into the designed siRNA to induce interference. In this research work, computational techniques are used to design the siRNA and shRNA against the P53 gene. Approximately four target sites are identified in the p53 gene to which the siRNA and shRNA can bind, for each target site the siRNAs and shRNAs are designed as complementary sequence of the target site. Furthermore, a small hairpin RNA is inserted as a loop in the designed siRNA molecules for better results. This computational analysis of siRNA and shRNA can be further used with the help of in-vitro exploratory techniques to check efficacy and adequacy. Keywords: Gene silencing, Interference, Motifs, P53, siRNA, shRNA |
| first_indexed | 2024-12-10T07:48:19Z |
| format | Article |
| id | doaj.art-56379c4bd74f41808e89f0466035eb5e |
| institution | Directory Open Access Journal |
| issn | 2352-9148 |
| language | English |
| last_indexed | 2024-12-10T07:48:19Z |
| publishDate | 2018-01-01 |
| publisher | Elsevier |
| record_format | Article |
| series | Informatics in Medicine Unlocked |
| spelling | doaj.art-56379c4bd74f41808e89f0466035eb5e2022-12-22T01:57:07ZengElsevierInformatics in Medicine Unlocked2352-91482018-01-011215Computational design of small interfering RNAs and small hairpin RNAs to silence mutated P53 gene expressionsAnum Munir0Shumaila Azam1Sahar Aslam2Azhar Mehmood3G. Mujtaba Shah4Saeed Amjad5Muhammad Younis6Sahar Fazal7Department of Biosciences, Faculty of Health Sciences, Capital University of Science and Technology, Islamabad, Pakistan; Corresponding author. Capital University of Science and Technology Islamabad, Pakistan.Department of Biosciences, Faculty of Health Sciences, Capital University of Science and Technology, Islamabad, PakistanDepartment of Biosciences, Faculty of Health Sciences, Capital University of Science and Technology, Islamabad, PakistanDepartment of Bioinformatics, Govt. Post Graduate College Mandian, Abbottabad, PakistanDepartment of Bioinformatics, Hazara University, Mansehra, PakistanDepartment of Bioinformatics, Govt. Post Graduate College Mandian, Abbottabad, PakistanDepartment of Bioinformatics, Govt. Post Graduate College Mandian, Abbottabad, PakistanDepartment of Biosciences, Faculty of Health Sciences, Capital University of Science and Technology, Islamabad, PakistanRNA silencing is a novel gene regulatory mechanism that confines the transcript level by either preventing translation or by the initiation of particular RNA degradation. Small interfering RNAs are regularly represented as the exogenously made or viral inducers of RNAi. Such small RNAs have been used in biomedical research for particular repression of genes. A small hairpin RNA is an artificially synthesized RNA molecule with a hairpin or loop like structure, that is inserted into the designed siRNA to induce interference. In this research work, computational techniques are used to design the siRNA and shRNA against the P53 gene. Approximately four target sites are identified in the p53 gene to which the siRNA and shRNA can bind, for each target site the siRNAs and shRNAs are designed as complementary sequence of the target site. Furthermore, a small hairpin RNA is inserted as a loop in the designed siRNA molecules for better results. This computational analysis of siRNA and shRNA can be further used with the help of in-vitro exploratory techniques to check efficacy and adequacy. Keywords: Gene silencing, Interference, Motifs, P53, siRNA, shRNAhttp://www.sciencedirect.com/science/article/pii/S2352914818300443 |
| spellingShingle | Anum Munir Shumaila Azam Sahar Aslam Azhar Mehmood G. Mujtaba Shah Saeed Amjad Muhammad Younis Sahar Fazal Computational design of small interfering RNAs and small hairpin RNAs to silence mutated P53 gene expressions Informatics in Medicine Unlocked |
| title | Computational design of small interfering RNAs and small hairpin RNAs to silence mutated P53 gene expressions |
| title_full | Computational design of small interfering RNAs and small hairpin RNAs to silence mutated P53 gene expressions |
| title_fullStr | Computational design of small interfering RNAs and small hairpin RNAs to silence mutated P53 gene expressions |
| title_full_unstemmed | Computational design of small interfering RNAs and small hairpin RNAs to silence mutated P53 gene expressions |
| title_short | Computational design of small interfering RNAs and small hairpin RNAs to silence mutated P53 gene expressions |
| title_sort | computational design of small interfering rnas and small hairpin rnas to silence mutated p53 gene expressions |
| url | http://www.sciencedirect.com/science/article/pii/S2352914818300443 |
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