This week, I compared the brain tissue specific network from human base (http:\/\/hb.flatironinstitute.org) with the set of genes I collected associated with a higher risk of schizophrenia. This tissue specific network gives the probability that 2 genes interact with each other specifically in the brain. Genes that interact in regions other than the brain but still interact in the brain have a lower probability count. As expected, nearly all of the associated genes had at least a 0.1 probability, which is relatively high in terms of bioinformatic confidence. Notably, several of the genes interactions that had above a 0.9 probability involved cell adhesion genes.<\/p>\n
Of the genes below the 0.1 confidence, most do have neural roles but simply have roles common to other parts of the body. For instance, mir-137 is involved in neural development but is also involved in tumor suppression for several cancers.<\/p>\n
This upcoming week, I will be learning how to use NetworkX and will be gathering statistics from the Humanbase network with it.<\/p>\n","protected":false},"excerpt":{"rendered":"
This week, I compared the brain tissue specific network from human base (http:\/\/hb.flatironinstitute.org) with the set of genes I collected associated with a higher risk of schizophrenia. This tissue specific network gives the probability that 2 genes interact with each other specifically in the brain. Genes that interact in regions other than the brain but … Continue reading “Week 9”<\/span><\/a><\/p>\n","protected":false},"author":1584,"featured_media":0,"comment_status":"open","ping_status":"open","sticky":false,"template":"","format":"standard","meta":{"footnotes":""},"categories":[7,8,1],"tags":[],"class_list":["post-107","post","type-post","status-publish","format-standard","hentry","category-creu","category-schizophrenia","category-uncategorized"],"_links":{"self":[{"href":"https:\/\/blogs.reed.edu\/compbio\/wp-json\/wp\/v2\/posts\/107","targetHints":{"allow":["GET"]}}],"collection":[{"href":"https:\/\/blogs.reed.edu\/compbio\/wp-json\/wp\/v2\/posts"}],"about":[{"href":"https:\/\/blogs.reed.edu\/compbio\/wp-json\/wp\/v2\/types\/post"}],"author":[{"embeddable":true,"href":"https:\/\/blogs.reed.edu\/compbio\/wp-json\/wp\/v2\/users\/1584"}],"replies":[{"embeddable":true,"href":"https:\/\/blogs.reed.edu\/compbio\/wp-json\/wp\/v2\/comments?post=107"}],"version-history":[{"count":1,"href":"https:\/\/blogs.reed.edu\/compbio\/wp-json\/wp\/v2\/posts\/107\/revisions"}],"predecessor-version":[{"id":108,"href":"https:\/\/blogs.reed.edu\/compbio\/wp-json\/wp\/v2\/posts\/107\/revisions\/108"}],"wp:attachment":[{"href":"https:\/\/blogs.reed.edu\/compbio\/wp-json\/wp\/v2\/media?parent=107"}],"wp:term":[{"taxonomy":"category","embeddable":true,"href":"https:\/\/blogs.reed.edu\/compbio\/wp-json\/wp\/v2\/categories?post=107"},{"taxonomy":"post_tag","embeddable":true,"href":"https:\/\/blogs.reed.edu\/compbio\/wp-json\/wp\/v2\/tags?post=107"}],"curies":[{"name":"wp","href":"https:\/\/api.w.org\/{rel}","templated":true}]}}