{"id":110,"date":"2006-08-17T15:23:11","date_gmt":"2006-08-17T13:23:11","guid":{"rendered":"http:\/\/146.107.134.84\/wordpress\/index.php\/2006\/08\/17\/allelic-specific-expression\/"},"modified":"2008-02-15T18:09:37","modified_gmt":"2008-02-15T16:09:37","slug":"allelic-specific-expression","status":"publish","type":"post","link":"https:\/\/www.wjst.de\/blog\/sciencesurf\/2006\/08\/allelic-specific-expression\/","title":{"rendered":"Allelic specific expression"},"content":{"rendered":"<p>This topic has fascinated me since I read the <a href=\"http:\/\/www.ncbi.nlm.nih.gov\/entrez\/query.fcgi?db=pubmed&#038;cmd=Retrieve&#038;dopt=AbstractPlus&#038;list_uids=14583597&#038;query_hl=38&#038;itool=pubmed_docsum\">Pastinen paper<\/a> from the Hudson group (with updates in <a href=\"http:\/\/www.sciencemag.org\/cgi\/content\/full\/306\/5696\/647\">Science<\/a> and <a href=\"http:\/\/hmg.oxfordjournals.org\/cgi\/content\/full\/15\/suppl_1\/R9\">Hum Mol Gen<\/a>; the field probably started with the <a href=\"http:\/\/www.ncbi.nlm.nih.gov\/entrez\/query.fcgi?db=pubmed&#038;cmd=Retrieve&#038;dopt=AbstractPlus&#038;list_uids=12183620&#038;query_hl=45&#038;itool=pubmed_docsum\">Yan<\/a> paper). We had even written a DFG grant application that was not funded.<\/p>\n<p>ASE uses a rather simple principle where the allelic ratio of a heterocygous SNP within a RNA transcript is taken as a measure of gene expression from the different chromosomes (that are carrying either the one or the other SNP allele). A ratio of 0.5 indicates equal expression and becomes distorted if a gene on one chromosome is imprinted or silenced by another way. The ratio can be rather easily determined by MALDI-TOF genotyping of cDNA by <a href=\"http:\/\/www3.interscience.wiley.com\/cgi-bin\/abstract\/95016196\/ABSTRACT?CRETRY=1&#038;SRETRY=0\">pooling<\/a> protocols. I wonder why this hasn\u00c2\u00b4t been more used as it is probably a more precise measurement than the artificially &#8220;self-normalized&#8221; expression ratios in classical gene-expression profiling (as Fan pointed out <a href=\"http:\/\/www.nature.com\/nrg\/journal\/v7\/n8\/abs\/nrg1901.html;jsessionid=84EE548F8A56A17AD9F3AAD77D9CFE58\">recently<\/a>).<\/p>\n<p>ASE seems to be much more common than I thought: <a href=\"http:\/\/www.genome.org\/cgi\/content\/full\/16\/3\/331\">53% of all genes<\/a> showed allele expression differences<sup> <\/sup>in at least one individual. Having such a screening  instrument at hand, it could even help to clear our SNP genotyping lists. Yea, yea.<\/p>\n\n<p>&nbsp;<\/p>\n<div class=\"bottom-note\">\n  <span class=\"mod1\">CC-BY-NC Science Surf , accessed 05.04.2026<\/span>\n <\/div>","protected":false},"excerpt":{"rendered":"<p>This topic has fascinated me since I read the Pastinen paper from the Hudson group (with updates in Science and Hum Mol Gen; the field probably started with the Yan paper). We had even written a DFG grant application that was not funded. ASE uses a rather simple principle where the allelic ratio of a &hellip; <a href=\"https:\/\/www.wjst.de\/blog\/sciencesurf\/2006\/08\/allelic-specific-expression\/\" class=\"more-link\">Continue reading <span class=\"screen-reader-text\">Allelic specific expression<\/span> <span class=\"meta-nav\">&rarr;<\/span><\/a><\/p>\n","protected":false},"author":1,"featured_media":0,"comment_status":"open","ping_status":"open","sticky":false,"template":"","format":"standard","meta":{"footnotes":""},"categories":[2],"tags":[2945,4],"class_list":["post-110","post","type-post","status-publish","format-standard","hentry","category-genetics-biology","tag-genetics-biology","tag-population-epidemiology"],"_links":{"self":[{"href":"https:\/\/www.wjst.de\/blog\/wp-json\/wp\/v2\/posts\/110","targetHints":{"allow":["GET"]}}],"collection":[{"href":"https:\/\/www.wjst.de\/blog\/wp-json\/wp\/v2\/posts"}],"about":[{"href":"https:\/\/www.wjst.de\/blog\/wp-json\/wp\/v2\/types\/post"}],"author":[{"embeddable":true,"href":"https:\/\/www.wjst.de\/blog\/wp-json\/wp\/v2\/users\/1"}],"replies":[{"embeddable":true,"href":"https:\/\/www.wjst.de\/blog\/wp-json\/wp\/v2\/comments?post=110"}],"version-history":[{"count":0,"href":"https:\/\/www.wjst.de\/blog\/wp-json\/wp\/v2\/posts\/110\/revisions"}],"wp:attachment":[{"href":"https:\/\/www.wjst.de\/blog\/wp-json\/wp\/v2\/media?parent=110"}],"wp:term":[{"taxonomy":"category","embeddable":true,"href":"https:\/\/www.wjst.de\/blog\/wp-json\/wp\/v2\/categories?post=110"},{"taxonomy":"post_tag","embeddable":true,"href":"https:\/\/www.wjst.de\/blog\/wp-json\/wp\/v2\/tags?post=110"}],"curies":[{"name":"wp","href":"https:\/\/api.w.org\/{rel}","templated":true}]}}