{"id":1491,"date":"2008-02-20T19:00:01","date_gmt":"2008-02-20T17:00:01","guid":{"rendered":"http:\/\/www.wjst.de\/blog\/2008\/02\/20\/supersage-plus-highly-parallel-sequencing\/"},"modified":"2008-06-17T10:34:25","modified_gmt":"2008-06-17T08:34:25","slug":"supersage-plus-highly-parallel-sequencing","status":"publish","type":"post","link":"https:\/\/www.wjst.de\/blog\/sciencesurf\/2008\/02\/supersage-plus-highly-parallel-sequencing\/","title":{"rendered":"SuperSAGE plus highly parallel sequencing"},"content":{"rendered":"<p>Current RNA chip technology, although quite advanced, is usually limited to known transcripts. As rare transcripts (N=1 to 5) usually cannot be quantified, current chip technology is probably useless for building realistic virtual cells. Maybe there are there are other options? SAGE  &#8211; <a href=\"http:\/\/www.sagenet.org\/findings\/index.html\">serial analysis of gene expression<\/a> &#8211; has been also around<!--more--> for some time but never reached a larger audience as the 18 bp tag length did not make it very specific and the read-out of sequencing is not very cost efficient.<br \/>\nThis may change now with <a href=\"http:\/\/www.nature.com\/nmeth\/journal\/v3\/n6\/abs\/nmeth882.html\">SuperSAGE<\/a> having 26 bp tags: cDNA is cut with the tagging enzyme Bsmfl and ligated with a neighboring tag to a ditag; ditags <a href=\"http:\/\/www.genome.org\/cgi\/content\/abstract\/18\/1\/172\">are being sequenced<\/a> with some of the new technologies like pyro\/FLX, bridge pcr\/Solexa or solid\/ABI. The power certainly comes with the accuracy but also the inclusion of non coding RNAs.<\/p>\n\n<p>&nbsp;<\/p>\n<div class=\"bottom-note\">\n  <span class=\"mod1\">CC-BY-NC Science Surf , accessed 06.04.2026<\/span>\n <\/div>","protected":false},"excerpt":{"rendered":"<p>Current RNA chip technology, although quite advanced, is usually limited to known transcripts. As rare transcripts (N=1 to 5) usually cannot be quantified, current chip technology is probably useless for building realistic virtual cells. Maybe there are there are other options? SAGE &#8211; serial analysis of gene expression &#8211; has been also around &nbsp; CC-BY-NC &hellip; <a href=\"https:\/\/www.wjst.de\/blog\/sciencesurf\/2008\/02\/supersage-plus-highly-parallel-sequencing\/\" class=\"more-link\">Continue reading <span class=\"screen-reader-text\">SuperSAGE plus highly parallel sequencing<\/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":[1683,1681,1680,1679,1682,1677,1678,1177],"class_list":["post-1491","post","type-post","status-publish","format-standard","hentry","category-genetics-biology","tag-bridge-pcr","tag-cdna","tag-chip-technology","tag-ligated","tag-rna","tag-serial-analysis-of-gene-expression","tag-solexa","tag-transcripts"],"_links":{"self":[{"href":"https:\/\/www.wjst.de\/blog\/wp-json\/wp\/v2\/posts\/1491","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=1491"}],"version-history":[{"count":0,"href":"https:\/\/www.wjst.de\/blog\/wp-json\/wp\/v2\/posts\/1491\/revisions"}],"wp:attachment":[{"href":"https:\/\/www.wjst.de\/blog\/wp-json\/wp\/v2\/media?parent=1491"}],"wp:term":[{"taxonomy":"category","embeddable":true,"href":"https:\/\/www.wjst.de\/blog\/wp-json\/wp\/v2\/categories?post=1491"},{"taxonomy":"post_tag","embeddable":true,"href":"https:\/\/www.wjst.de\/blog\/wp-json\/wp\/v2\/tags?post=1491"}],"curies":[{"name":"wp","href":"https:\/\/api.w.org\/{rel}","templated":true}]}}