{"id":211,"date":"2015-01-12T17:14:00","date_gmt":"2015-01-12T17:14:00","guid":{"rendered":"http:\/\/blogs.discovery.wisc.edu\/sysbiojournalclub\/?p=211"},"modified":"2015-01-13T22:09:48","modified_gmt":"2015-01-13T22:09:48","slug":"01-21-15","status":"publish","type":"post","link":"https:\/\/blogs.discovery.wisc.edu\/sysbiojournalclub\/2015\/01\/12\/01-21-15\/","title":{"rendered":"01.21.15"},"content":{"rendered":"<h2 class=\"p1\"><span class=\"s1\"><b>CellNet: Network Biology Applied to Stem Cell Engineering<\/b><\/span><\/h2>\n<p class=\"p1\">Patrick Cahan, Hu Li, Samantha A. Morris, Edroaldo Lummertz da Rocha, George Q. Daley, James J. Collins5,<br \/>\ndoi:10.1016\/j.cell.2014.07.020<\/p>\n<p><em>Refers To<\/em><br \/>\nSamantha A. Morris, Patrick Cahan, Hu Li, Anna M. Zhao, Adrianna K. San Roman, Ramesh A. Shivdasani, James J. Collins, George Q. Daley<br \/>\nDissecting Engineered Cell Types and Enhancing Cell Fate Conversion via CellNet<br \/>\nCell, Volume 158, Issue 4, 14 August 2014, Pages 889-902<br \/>\nPDF (4068 K) Supplementary content<br \/>\n<em>Referred to by<\/em><br \/>\nKee-Pyo Kim, Hans R. Sch\u00f6ler<br \/>\nCellNet\u2014Where Your Cells Are Standing<br \/>\nCell, Volume 158, Issue 4, 14 August 2014, Pages 699-701<br \/>\nPDF (596 K)<br \/>\nSamantha A. Morris, Patrick Cahan, Hu Li, Anna M. Zhao, Adrianna K. San Roman, Ramesh A. Shivdasani, James J. Collins, George Q. Daley<br \/>\nDissecting Engineered Cell Types and Enhancing Cell Fate Conversion via CellNet<br \/>\nCell, Volume 158, Issue 4, 14 August 2014, Pages 889-902<br \/>\nPDF (4068 K) Supplementary content<\/p>\n<p><strong>Summary<\/strong><br \/>\nSomatic cell reprogramming, directed differentiation of pluripotent stem cells, and direct conversions between differentiated cell lineages represent powerful approaches to engineer cells for research and regenerative medicine. We have developed CellNet, a network biology platform that more accurately assesses the fidelity of cellular engineering than existing methodologies and generates hypotheses for improving cell derivations. Analyzing expression data from 56 published reports, we found that cells derived via directed differentiation more closely resemble their in vivo counterparts than products of direct conversion, as reflected by the establishment of target cell-type gene regulatory networks (GRNs). Furthermore, we discovered that directly converted cells fail to adequately silence expression programs of the starting population and that the establishment of unintended GRNs is common to virtually every cellular engineering paradigm. CellNet provides a platform for quantifying how closely engineered cell populations resemble their target cell type and a rational strategy to guide enhanced cellular engineering.<\/p>\n<p>&nbsp;<\/p>\n<h2 class=\"p1\"><span class=\"s1\"><b>Dissecting\u00a0Engineered Cell Types and Enhancing Cell Fate Conversion via CellNet<\/b><\/span><\/h2>\n","protected":false},"excerpt":{"rendered":"<p>CellNet: Network Biology Applied to Stem Cell Engineering Patrick Cahan, Hu Li, Samantha A. Morris, Edroaldo Lummertz da Rocha, George Q. Daley, James J. Collins5, doi:10.1016\/j.cell.2014.07.020 Refers To Samantha A. Morris, Patrick Cahan, Hu Li, Anna M. Zhao, Adrianna K. San Roman, Ramesh A. Shivdasani, James J. Collins, George Q. Daley Dissecting Engineered Cell Types [&hellip;]<\/p>\n","protected":false},"author":88,"featured_media":0,"comment_status":"open","ping_status":"closed","sticky":false,"template":"","format":"standard","meta":[],"categories":[3],"tags":[78,77,79,4],"_links":{"self":[{"href":"https:\/\/blogs.discovery.wisc.edu\/sysbiojournalclub\/wp-json\/wp\/v2\/posts\/211"}],"collection":[{"href":"https:\/\/blogs.discovery.wisc.edu\/sysbiojournalclub\/wp-json\/wp\/v2\/posts"}],"about":[{"href":"https:\/\/blogs.discovery.wisc.edu\/sysbiojournalclub\/wp-json\/wp\/v2\/types\/post"}],"author":[{"embeddable":true,"href":"https:\/\/blogs.discovery.wisc.edu\/sysbiojournalclub\/wp-json\/wp\/v2\/users\/88"}],"replies":[{"embeddable":true,"href":"https:\/\/blogs.discovery.wisc.edu\/sysbiojournalclub\/wp-json\/wp\/v2\/comments?post=211"}],"version-history":[{"count":3,"href":"https:\/\/blogs.discovery.wisc.edu\/sysbiojournalclub\/wp-json\/wp\/v2\/posts\/211\/revisions"}],"predecessor-version":[{"id":217,"href":"https:\/\/blogs.discovery.wisc.edu\/sysbiojournalclub\/wp-json\/wp\/v2\/posts\/211\/revisions\/217"}],"wp:attachment":[{"href":"https:\/\/blogs.discovery.wisc.edu\/sysbiojournalclub\/wp-json\/wp\/v2\/media?parent=211"}],"wp:term":[{"taxonomy":"category","embeddable":true,"href":"https:\/\/blogs.discovery.wisc.edu\/sysbiojournalclub\/wp-json\/wp\/v2\/categories?post=211"},{"taxonomy":"post_tag","embeddable":true,"href":"https:\/\/blogs.discovery.wisc.edu\/sysbiojournalclub\/wp-json\/wp\/v2\/tags?post=211"}],"curies":[{"name":"wp","href":"https:\/\/api.w.org\/{rel}","templated":true}]}}