Compendious survey of protein tandem repeats in inbred mouse strains
Abstract Short tandem repeats (STRs) play a crucial role in genetic diseases. However, classic disease models such as inbred mice lack such genome wide data in public domain. The examination of STR alleles present in the protein coding regions (are known as protein tandem repeats or PTR) can provide...
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| Format: | Article |
| Language: | English |
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BMC
2022-08-01
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| Series: | BMC Genomic Data |
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| Online Access: | https://doi.org/10.1186/s12863-022-01079-1 |
| _version_ | 1798038014171021312 |
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| author | Ahmed Arslan |
| author_facet | Ahmed Arslan |
| author_sort | Ahmed Arslan |
| collection | DOAJ |
| description | Abstract Short tandem repeats (STRs) play a crucial role in genetic diseases. However, classic disease models such as inbred mice lack such genome wide data in public domain. The examination of STR alleles present in the protein coding regions (are known as protein tandem repeats or PTR) can provide additional functional layer of phenotype regulars. Motivated with this, we analysed the whole genome sequencing data from 71 different mouse strains and identified STR alleles present within the coding regions of 562 genes. Taking advantage of recently formulated protein models, we also showed that the presence of these alleles within protein 3-dimensional space, could impact the protein folding. Overall, we identified novel alleles from a large number of mouse strains and demonstrated that these alleles are of interest considering protein structure integrity and functionality within the mouse genomes. We conclude that PTR alleles have potential to influence protein functions through impacting protein structural folding and integrity. |
| first_indexed | 2024-04-11T21:34:26Z |
| format | Article |
| id | doaj.art-f20c4ab3757f4f8389dcd44efda8525b |
| institution | Directory Open Access Journal |
| issn | 2730-6844 |
| language | English |
| last_indexed | 2024-04-11T21:34:26Z |
| publishDate | 2022-08-01 |
| publisher | BMC |
| record_format | Article |
| series | BMC Genomic Data |
| spelling | doaj.art-f20c4ab3757f4f8389dcd44efda8525b2022-12-22T04:01:49ZengBMCBMC Genomic Data2730-68442022-08-012311610.1186/s12863-022-01079-1Compendious survey of protein tandem repeats in inbred mouse strainsAhmed Arslan0Stanford University School of MedicineAbstract Short tandem repeats (STRs) play a crucial role in genetic diseases. However, classic disease models such as inbred mice lack such genome wide data in public domain. The examination of STR alleles present in the protein coding regions (are known as protein tandem repeats or PTR) can provide additional functional layer of phenotype regulars. Motivated with this, we analysed the whole genome sequencing data from 71 different mouse strains and identified STR alleles present within the coding regions of 562 genes. Taking advantage of recently formulated protein models, we also showed that the presence of these alleles within protein 3-dimensional space, could impact the protein folding. Overall, we identified novel alleles from a large number of mouse strains and demonstrated that these alleles are of interest considering protein structure integrity and functionality within the mouse genomes. We conclude that PTR alleles have potential to influence protein functions through impacting protein structural folding and integrity.https://doi.org/10.1186/s12863-022-01079-1Short tandem repeats (STRs)AllelesMousePhenotypeProtein3-dimensional models |
| spellingShingle | Ahmed Arslan Compendious survey of protein tandem repeats in inbred mouse strains BMC Genomic Data Short tandem repeats (STRs) Alleles Mouse Phenotype Protein 3-dimensional models |
| title | Compendious survey of protein tandem repeats in inbred mouse strains |
| title_full | Compendious survey of protein tandem repeats in inbred mouse strains |
| title_fullStr | Compendious survey of protein tandem repeats in inbred mouse strains |
| title_full_unstemmed | Compendious survey of protein tandem repeats in inbred mouse strains |
| title_short | Compendious survey of protein tandem repeats in inbred mouse strains |
| title_sort | compendious survey of protein tandem repeats in inbred mouse strains |
| topic | Short tandem repeats (STRs) Alleles Mouse Phenotype Protein 3-dimensional models |
| url | https://doi.org/10.1186/s12863-022-01079-1 |
| work_keys_str_mv | AT ahmedarslan compendioussurveyofproteintandemrepeatsininbredmousestrains |