{"id":227,"date":"2023-12-05T16:05:22","date_gmt":"2023-12-05T16:05:22","guid":{"rendered":"https:\/\/sites.wp.odu.edu\/biol294fall23\/?page_id=227"},"modified":"2023-12-05T16:12:27","modified_gmt":"2023-12-05T16:12:27","slug":"genome-assignment","status":"publish","type":"page","link":"https:\/\/sites.wp.odu.edu\/biol294fall23\/genome-assignment\/","title":{"rendered":"Genome Assignment"},"content":{"rendered":"\n<p>1. Chromosome 1<br>2. Over 3000 genes<br>3. Over 240 million base pairs<br>4. GLC1A &#8211; Glaucoma<br>5. Pressure regulation in the back chamber of the eye, but when mutation occurs it stops<br>vitreous humor outflow causing pressure increase which can damage the optic nerve<br>and lead to blindness.<br>6. Homo sapiens CFTR (CFTR) gene, partial cds<br>7. The encoded protein functions as a chloride channel, making it unique among members<br>of this protein family, and controls ion and water secretion and absorption in epithelial<br>tissues.<br>8. Cystic fibrosis<br>9. 7<br>10. Pongo abelii<br>11. Sumatran Orangutan<br>12. It does not surprise me because evolutionary sciences do tie this species and homo<br>sapiens which we can also see has a 100% identity match.<br>13.<br>a. Nomascus, N. leucogenys<br>b. Northern white-cheeked gibbon<br>c. 0\/120 (0%)<br>14. A gap is the absence of a region that can be found in another sequence (Barton, 2015).<br>15. Mus musculus TAR DNA binding protein (Tardbp), transcript variant 1, mRNA<br>16. Homo sapiens ubiquilin 2 (UBQLN2), mRNA<br>17. Homo sapiens FUS RNA binding protein (FUS), transcript variant 2, non-coding RNA<br>18. Homo sapiens superoxide dismutase-1 (SOD-1) gene, exon 1 and partial cds<br>19. Amyotrophic lateral sclerosis (ALS), The common name is Lou Gehrig\u2019s disease after a<br>famous baseball player who died from ALS (Barmada, 2010)<br>20. A genetic sequence database run by the National Institute of Health (NIH). It uses all<br>publicly available DNA sequences.<br>21. Synthetic DNA that has been transcribed from a specific mRNA through a reaction using<br>reverse transcriptase (Shchelochkov, 2023).<br>22. Beta-globin [Homo sapiens]<br>23. Yes<br>24. In Query 361 there is a gap in the middle of the sequence in the middle line. This causes<br>a different letter to be present in the top and bottom lines.<br>25. 1\/806 (0%)<br>26. fibroblast growth factor receptor 3 isoform 1 precursor [Homo sapiens]<br>27. This particular family member binds acidic and basic fibroblast growth hormone and<br>plays a role in bone development and maintenance.<br>28. Craniosynostosis<br>29. Between the four organizations they are tasked with gathering, storing, and presenting<br>biomedical information. They work in unison to make dealing with this amount of<br>information possible.<\/p>\n\n\n\n<p>30. I did not know that there were public databases that could be used to evaluate DNA.<br>That seems like a very complex system that only scientists could benefit from, but this<br>assignment still made it possible to understand surface level connections in different<br>species.<br><\/p>\n\n\n\n<p>References:<br>Barton, C., Flouri, T., Iliopoulos, C. S., Pissis, S. (2015, March 17). Global and local sequence<br>     alignment with a bounded number of gaps. Theoretical Computer Science.<br><a href=\"https:\/\/www.sciencedirect.com\/science\/article\/pii\/S0304397515002200#:~:text=A%20gap%20in%20a%20biological,occurring%20feature%20of%20biological%20sequences\" data-type=\"URL\" data-id=\"https:\/\/www.sciencedirect.com\/science\/article\/pii\/S0304397515002200#:~:text=A%20gap%20in%20a%20biological,occurring%20feature%20of%20biological%20sequences\">https:\/\/www.sciencedirect.com\/science\/article\/pii\/S0304397515002200#:~:text=A%20ga<br>p%20in%20a%20biological,occurring%20feature%20of%20biological%20sequences <\/a><br><\/p>\n\n\n\n<p>Barmada, S. J., Finkbeiner, S. (2010). Pathogenic TARDBP mutations in amyotrophic lateral<br>     sclerosis and frontotemporal dementia: disease-associated pathways. National library of<br>     medicine, 21(4), 72-251. https:\/\/doi:10.1515\/revneuro.2010.21.4.251<br><\/p>\n\n\n\n<p>Shchelochkov, O. A. (2023). CDNA (COPY DNA). National Human Genome Research Institute.<br>     <a href=\"https:\/\/www.genome.gov\/genetics-glossary\/Copy-DNA\">https:\/\/www.genome.gov\/genetics-glossary\/Copy-DNA<\/a><a rel=\"noreferrer noopener\" href=\"https:\/\/www.sciencedirect.com\/science\/article\/pii\/S0304397515002200#:~:text=A%20gap%20in%20a%20biological,occurring%20feature%20of%20biological%20sequences\" target=\"_blank\"><\/a><a rel=\"noreferrer noopener\" href=\"https:\/\/www.sciencedirect.com\/science\/article\/pii\/S0304397515002200#:~:text=A%20gap%20in%20a%20biological,occurring%20feature%20of%20biological%20sequences\" target=\"_blank\"><\/a><\/p>\n\n\n\n<p><\/p>\n","protected":false},"excerpt":{"rendered":"<p>1. Chromosome 12. Over 3000 genes3. Over 240 million base pairs4. GLC1A &#8211; Glaucoma5. Pressure regulation in the back chamber of the eye, but when mutation occurs it stopsvitreous humor outflow causing pressure increase which can damage the optic nerveand lead to blindness.6. Homo sapiens CFTR (CFTR) gene, partial cds7. The encoded protein functions as&#8230; <\/p>\n<div class=\"link-more\"><a href=\"https:\/\/sites.wp.odu.edu\/biol294fall23\/genome-assignment\/\">Read More<\/a><\/div>\n","protected":false},"author":22207,"featured_media":0,"parent":0,"menu_order":0,"comment_status":"closed","ping_status":"closed","template":"","meta":{"footnotes":""},"_links":{"self":[{"href":"https:\/\/sites.wp.odu.edu\/biol294fall23\/wp-json\/wp\/v2\/pages\/227"}],"collection":[{"href":"https:\/\/sites.wp.odu.edu\/biol294fall23\/wp-json\/wp\/v2\/pages"}],"about":[{"href":"https:\/\/sites.wp.odu.edu\/biol294fall23\/wp-json\/wp\/v2\/types\/page"}],"author":[{"embeddable":true,"href":"https:\/\/sites.wp.odu.edu\/biol294fall23\/wp-json\/wp\/v2\/users\/22207"}],"replies":[{"embeddable":true,"href":"https:\/\/sites.wp.odu.edu\/biol294fall23\/wp-json\/wp\/v2\/comments?post=227"}],"version-history":[{"count":3,"href":"https:\/\/sites.wp.odu.edu\/biol294fall23\/wp-json\/wp\/v2\/pages\/227\/revisions"}],"predecessor-version":[{"id":233,"href":"https:\/\/sites.wp.odu.edu\/biol294fall23\/wp-json\/wp\/v2\/pages\/227\/revisions\/233"}],"wp:attachment":[{"href":"https:\/\/sites.wp.odu.edu\/biol294fall23\/wp-json\/wp\/v2\/media?parent=227"}],"curies":[{"name":"wp","href":"https:\/\/api.w.org\/{rel}","templated":true}]}}