http://cmpdartsvr3.cmp.uea.ac.uk/index.php?action=history&feed=atom&title=First_home_page First home page - Revision history 2026-06-20T19:08:26Z Revision history for this page on the wiki MediaWiki 1.43.8 http://cmpdartsvr3.cmp.uea.ac.uk/wiki/BanghamLab/index.php?title=First_home_page&diff=5193&oldid=prev AndrewBangham: Created page with '__NOTOC__ {| border="0" cellpadding="0" cellspacing="0" |- valign="top" |width="50%"|<span style="color: DarkSlateGray"><font size="+1">'''The Bangham Lab'''</font><span> || ||'…' 2011-05-31T06:47:07Z <p>Created page with &#039;__NOTOC__ {| border=&quot;0&quot; cellpadding=&quot;0&quot; cellspacing=&quot;0&quot; |- valign=&quot;top&quot; |width=&quot;50%&quot;|&lt;span style=&quot;color: DarkSlateGray&quot;&gt;&lt;font size=&quot;+1&quot;&gt;&#039;&#039;&#039;The Bangham Lab&#039;&#039;&#039;&lt;/font&gt;&lt;span&gt; || ||&#039;…&#039;</p> <p><b>New page</b></p><div>__NOTOC__<br /> {| border=&quot;0&quot; cellpadding=&quot;0&quot; cellspacing=&quot;0&quot; <br /> |- valign=&quot;top&quot;<br /> |width=&quot;50%&quot;|&lt;span style=&quot;color: DarkSlateGray&quot;&gt;&lt;font size=&quot;+1&quot;&gt;&#039;&#039;&#039;The Bangham Lab&#039;&#039;&#039;&lt;/font&gt;&lt;span&gt;<br /> ||<br /> ||&#039;&#039;&#039;Contents&#039;&#039;&#039;<br /> |- valign=&quot;top&quot;<br /> |width=&quot;50%&quot;|<br /> |||&lt;center&gt;&lt;small&gt;<br /> {| border=&quot;0&quot; cellpadding=&quot;0&quot; cellspacing=&quot;0&quot; <br /> |width=&quot;100pt&quot;|[[Main_Page#Computational Biology|&#039;&#039;&#039;GFtbox&#039;&#039;&#039;]] <br /> |width=&quot;100pt&quot;| [[GFtbox|Details]] <br /> |width=&quot;100pt&quot;| [https://sourceforge.net/p/gftbox/ Download ]<br /> |width=&quot;100pt&quot;| [[GFtbox Tutorial pages|Tutorials]] <br /> |-<br /> |width=&quot;100pt&quot;|[[Main_Page#Computational Biology|&#039;&#039;&#039;VolViewer&#039;&#039;&#039; ]] <br /> |width=&quot;100pt&quot;| [[VolViewer|Details]] <br /> |width=&quot;100pt&quot;| [[VolViewer|Download]] <br /> |width=&quot;100pt&quot;| [[VolViewerUserManual|Manual]] <br /> &lt;!--|-<br /> |width=&quot;100pt&quot;|[[Main_Page#Computational Biology|&#039;&#039;&#039;Shapes&#039;&#039;&#039;]]<br /> |width=&quot;100pt&quot;| 5 <br /> |width=&quot;100pt&quot;| 6 <br /> |width=&quot;100pt&quot;| 7 <br /> |-<br /> |width=&quot;100pt&quot;|[[Main_Page#Photos and Art|&#039;&#039;&#039;Art&#039;&#039;&#039;]]<br /> |width=&quot;100pt&quot;| 5 <br /> |width=&quot;100pt&quot;| 6 <br /> |width=&quot;100pt&quot;| 7 <br /> |-<br /> |width=&quot;100pt&quot;|[[Main_Page#Algorithms, Tools and Demonstrations|&#039;&#039;&#039;Algorithms&#039;&#039;&#039;]]<br /> |width=&quot;100pt&quot;| 5 <br /> |width=&quot;100pt&quot;| 6 <br /> |width=&quot;100pt&quot;| 7 --&gt;<br /> |}<br /> &lt;/small&gt;&lt;/center&gt;<br /> |}<br /> <br /> =&lt;span style=&quot;color: DarkGreen&quot;&gt;Computational Biology&lt;/span&gt;=<br /> &lt;span style=&quot;color: DarkGreen&quot;&gt;&lt;font size=&quot;+1&quot;&gt;The aim &lt;/font&gt;&lt;span&gt;is to understand how patterns of gene activity in biological organs influence the developing shape. &lt;/span&gt;&lt;p&gt;&lt;/p&gt;&lt;p&gt;&lt;/p&gt;<br /> {| border=&quot;0&quot; cellpadding=&quot;5&quot; cellspacing=&quot;3&quot; style=&quot;background-color: #000000;&quot;<br /> | &lt;!-- column1--&gt;<br /> &lt;sgallery width=&quot;140&quot; height=&quot;200&quot; showarrows=&quot;false&quot; showcarousel=&quot;false&quot; showinfopane=&quot;false&quot; timed=&quot;true&quot; delay=&quot;2000&quot;&gt;<br /> LabelledCropped_GPT_Snapdragon_2010-000250-0001.png<br /> LabelledCropped_GPT_Snapdragon_2010-000340-0001.png<br /> LabelledCropped_GPT_Snapdragon_2010-000490-0001.png<br /> LabelledCropped_GPT_Snapdragon_2010-000570-0002.png<br /> LabelledCropped_GPT_Snapdragon_2010-000570-0003.png<br /> LabelledCropped_GPT_Snapdragon_2010-000570-0004.png<br /> LabelledCropped_GPT_Snapdragon_2010-000570-0005.png<br /> LabelledCropped_GPT_Snapdragon_2010-000570-0007.png<br /> LabelledCropped_GPT_Snapdragon_2010-000570-0006.png<br /> LabelledCropped_GPT_Snapdragon_2010-000570-0001.png<br /> &lt;/sgallery&gt;<br /> &lt;center&gt; [[Software#Toolboxes for research|&lt;span style=&quot;color:GreenYellow;&quot;&gt;More Snapdragon model&lt;/span&gt;]] &lt;/center&gt;<br /> || &lt;!-- column2--&gt;<br /> =&lt;span style=&quot;color: Gold&quot;&gt;Genes and growing shapes (modelling)&lt;/span&gt;= <br /> * &lt;span style=&quot;color: LemonChiffon&quot;&gt;Observation: patterns of gene activity that regulate tissue growth.&lt;/span&gt;<br /> * &lt;span style=&quot;color: LemonChiffon&quot;&gt;Hypothesis: gene activity independently regulates direction of growth.&lt;/span&gt;<br /> * &lt;span style=&quot;color: LemonChiffon&quot;&gt;Formalised in the Growing Polarised Tissue Framework (cite). &lt;/span&gt;<br /> * &lt;span style=&quot;color: LemonChiffon&quot;&gt;Implemented in &#039;&#039;GFtbox&#039;&#039; (cite) for developing ideas on growth and form.&lt;/span&gt;<br /> ** &lt;span style=&quot;color: LemonChiffon&quot;&gt;Start with a sheet of tissue (the canvas) with observed, or hypothetical patterns of growth factor activity (cite). &lt;/span&gt;<br /> ** &lt;span style=&quot;color: LemonChiffon&quot;&gt;Grow the canvas in 3D under constraints of tissue continuity&lt;/span&gt;<br /> ** &lt;span style=&quot;color: LemonChiffon&quot;&gt;Compare with observed data quantitatively(cite). &lt;/span&gt;&lt;p&gt;<br /> &lt;center&gt; [[Software#Toolboxes for research|&lt;span style=&quot;color:GreenYellow;&quot;&gt;Download and more details on &#039;&#039;GFtbox&#039;&#039;&lt;/span&gt;]] &lt;/center&gt;<br /> || &lt;!-- column3--&gt;<br /> &lt;sgallery width=&quot;140&quot; height=&quot;200&quot; showarrows=&quot;false&quot; showcarousel=&quot;false&quot; showinfopane=&quot;false&quot; timed=&quot;true&quot; delay=&quot;3000&quot;&gt;<br /> LabelledCropped GPT Snapdragon 2010-000570-0003 double.png<br /> LabelledCropped GPT Snapdragon 2010-000570-0002 triple.png<br /> LabelledCropped GPT Snapdragon 2010-000570-0001-Wildtype.png<br /> &lt;!--Arabidopsis_Leaf_ATH8bbg.png--&gt;<br /> &lt;!--Grandison-Simulation.png--&gt;<br /> &lt;!--PaulProjectPic.png--&gt;<br /> &lt;!--Pierre_project_image.jpg--&gt;<br /> &lt;/sgallery&gt;<br /> &lt;center&gt; [[Software#Toolboxes for research|&lt;span style=&quot;color:GreenYellow;&quot;&gt;More on testing models&lt;/span&gt;]] &lt;/center&gt;<br /> |- &lt;!-- row2--&gt;<br /> |<br /> &lt;sgallery width=&quot;140&quot; height=&quot;200&quot; showarrows=&quot;false&quot; showcarousel=&quot;false&quot; showinfopane=&quot;false&quot; timed=&quot;true&quot; delay=&quot;1500&quot;&gt;<br /> Arabidopsis_Leaf_ATH8bbg.png<br /> Antirrhinum flower small1.jpg<br /> Antirrhinum flower small2.jpg<br /> Antirrhinum flower small3.jpg<br /> Anthers1.jpg<br /> MacroOPTIris1.jpg<br /> &lt;!--Grandison-Simulation.png--&gt;<br /> &lt;!--PaulProjectPic.png--&gt;<br /> &lt;!--Pierre_project_image.jpg--&gt;<br /> &lt;/sgallery&gt;<br /> &lt;center&gt; [[VolViewer|&lt;span style=&quot;color:GreenYellow;&quot;&gt;More on visualising 3D&lt;/span&gt;]] &lt;/center&gt;<br /> || &lt;!-- column2--&gt;<br /> =&lt;span style=&quot;color: Gold&quot;&gt;Viewing 3D volume images (analysis)&lt;span&gt;= <br /> *&lt;span style=&quot;color: LemonChiffon&quot;&gt;Three dimensional (3D) volume images are key to understanding the development of shape. &lt;/span&gt;<br /> * &lt;span style=&quot;color: LemonChiffon&quot;&gt;Produced by&lt;/span&gt;<br /> ** &lt;span style=&quot;color: LemonChiffon&quot;&gt;CT X-ray scanners, MRI and PET.&lt;/span&gt;<br /> ** &lt;span style=&quot;color: LemonChiffon&quot;&gt;Confocal microscopy and OPT (ref) used with fluorescent probes that monitor biological gene activity. &lt;/span&gt;<br /> ** &lt;span style=&quot;color: LemonChiffon&quot;&gt;Huge amounts of data potentially make viewing slow, but...&lt;/span&gt;<br /> * &lt;span style=&quot;color: LemonChiffon&quot;&gt;To interact with the images we implemented &#039;&#039;&#039;VolViewer&#039;&#039;&#039; (cite) which exploits powerful graphics processors.&lt;/span&gt;<br /> * &lt;span style=&quot;color: LemonChiffon&quot;&gt;Works with [[Software#Toolboxes for research|&lt;span style=&quot;color:GreenYellow;&quot;&gt;BioformatsConverter&lt;/span&gt;]] to read 3D images in both open and proprietary file formats. Runs on either your computer or a server.&lt;/span&gt; <br /> &lt;center&gt; [[Software#Toolboxes for research|&lt;span style=&quot;color:GreenYellow;&quot;&gt;Download and more details on &#039;&#039;VolViewer&#039;&#039;&lt;/span&gt;]] &lt;/center&gt;<br /> || &lt;!-- column3--&gt;<br /> &lt;sgallery width=&quot;140&quot; height=&quot;200&quot; showarrows=&quot;false&quot; showcarousel=&quot;false&quot; showinfopane=&quot;false&quot; timed=&quot;true&quot; delay=&quot;4000&quot;&gt;<br /> Arabidopsis_Leaf_ATH8bbg.png<br /> &lt;!--Grandison-Simulation.png--&gt;<br /> &lt;!--PaulProjectPic.png--&gt;<br /> &lt;!--Pierre_project_image.jpg--&gt;<br /> &lt;/sgallery&gt;<br /> &lt;center&gt; [[Software#Toolboxes for research|&lt;span style=&quot;color:GreenYellow;&quot;&gt;More on 3D measurement&lt;/span&gt;]] &lt;/center&gt;<br /> |- &lt;!-- row3--&gt;<br /> | &lt;!-- column1--&gt; <br /> || &lt;!-- column2--&gt; <br /> || &lt;!-- column3--&gt;<br /> |}<br /> <br /> =Photos and Art=<br /> =Algorithms, Tools and Demonstrations=<br /> =About=<br /> &lt;span style=&quot;color:DarkSlateGray;&quot;&gt;The Bangham Lab is part of the [http://www.uea.ac.uk/cmp/research/cmpbio| &lt;span style=&quot;color:SlateGray;&quot;&gt;UEA D’Arcy Thompson Centre] for computational biology and it&#039;s members collaborate closely with [http://rico-coen.jic.ac.uk/index.php/Main_Page|&lt;span style=&quot;color:SlateGray;&quot;&gt;the Coen Lab, John Innes Centre&lt;/span&gt;]<br /> <br /> ==&lt;span style=&quot;color:DarkSlateGray;&quot;&gt;Updated [[User:AndrewBangham|Andrew Bangham]] 09:50, 4 May 2011 (UTC)==</div> AndrewBangham