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<span style="color: DarkSlateGray"><font size="+1"><center>'''The Bangham Lab'''</center></font><span> | <span style="color: DarkSlateGray"><font size="+1"><center>'''The Bangham Lab'''</center></font><span> | ||
=<span style="color: DarkGreen">Computational Biology</span> | =<span style="color: DarkGreen">Computational Biology= | ||
<span style="color: DarkGreen"><font size="+1">The aim </font><span>is to understand how patterns of gene activity in biological organs influence the developing shape. </span><p></p><p></p> | |||
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<sgallery width="160" height=" | <sgallery width="160" height="200" showarrows="false" showcarousel="false" showinfopane="false" timed="true" delay="2000"> | ||
LabelledCropped_GPT_Snapdragon_2010-000250-0001.png | LabelledCropped_GPT_Snapdragon_2010-000250-0001.png | ||
LabelledCropped_GPT_Snapdragon_2010-000340-0001.png | LabelledCropped_GPT_Snapdragon_2010-000340-0001.png | ||
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<center> [[Software#Toolboxes for research|<span style="color:GreenYellow;">More on Snapdragon model</span>]] </center> | <center> [[Software#Toolboxes for research|<span style="color:GreenYellow;">More on Snapdragon model</span>]] </center> | ||
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=<span style="color: Gold">Genes and growing shapes<span>= | =<span style="color: Gold">Genes and growing shapes</span>= | ||
<span style="color: LemonChiffon"> | * <span style="color: LemonChiffon">Observed: patterns of gene activity regulate tissue growth.</span> | ||
* <span style="color: LemonChiffon">Hypothesis: gene activity independently regulates direction of growth.</span> | |||
* <span style="color: LemonChiffon">Formalised in the Growing Polarised Tissue Framework (ref). </span> | |||
* <span style="color: LemonChiffon">Implemented in ''GFtbox'' to make it easy to develop ideas on growth and form.</span> | |||
* <span style="color: LemonChiffon">Start with a sheet of tissue (the canvas), add observed, or hypothetical patterns of activity. </span> | |||
* <span style="color: LemonChiffon">Grow the canvas in 3D. </span> | |||
* <span style="color: LemonChiffon">Compare with observed data quantitatively </span><p> | |||
<center> [[Software#Toolboxes for research|<span style="color:GreenYellow;">Downloads and more details on ''GFtbox''</span>]] </center> | <center> [[Software#Toolboxes for research|<span style="color:GreenYellow;">Downloads and more details on ''GFtbox''</span>]] </center> | ||
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<sgallery width="160" height=" | <sgallery width="160" height="200" showarrows="false" showcarousel="false" showinfopane="false" timed="true" delay="3000"> | ||
LabelledCropped GPT Snapdragon 2010-000570-0003 double.png | LabelledCropped GPT Snapdragon 2010-000570-0003 double.png | ||
LabelledCropped GPT Snapdragon 2010-000570-0002 triple.png | LabelledCropped GPT Snapdragon 2010-000570-0002 triple.png | ||
Revision as of 10:25, 4 May 2011
Computational Biology
The aim is to understand how patterns of gene activity in biological organs influence the developing shape.|
<sgallery width="160" height="200" showarrows="false" showcarousel="false" showinfopane="false" timed="true" delay="2000"> LabelledCropped_GPT_Snapdragon_2010-000250-0001.png LabelledCropped_GPT_Snapdragon_2010-000340-0001.png LabelledCropped_GPT_Snapdragon_2010-000490-0001.png LabelledCropped_GPT_Snapdragon_2010-000570-0002.png LabelledCropped_GPT_Snapdragon_2010-000570-0003.png LabelledCropped_GPT_Snapdragon_2010-000570-0004.png LabelledCropped_GPT_Snapdragon_2010-000570-0005.png LabelledCropped_GPT_Snapdragon_2010-000570-0007.png LabelledCropped_GPT_Snapdragon_2010-000570-0006.png LabelledCropped_GPT_Snapdragon_2010-000570-0001.png </sgallery> |
Genes and growing shapes
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<sgallery width="160" height="200" showarrows="false" showcarousel="false" showinfopane="false" timed="true" delay="3000"> LabelledCropped GPT Snapdragon 2010-000570-0003 double.png LabelledCropped GPT Snapdragon 2010-000570-0002 triple.png LabelledCropped GPT Snapdragon 2010-000570-0001-Wildtype.png </sgallery> |
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<sgallery width="160" height="280" showarrows="false" showcarousel="false" showinfopane="false" timed="true" delay="1500"> Arabidopsis_Leaf_ATH8bbg.png Antirrhinum flower small1.jpg Antirrhinum flower small2.jpg Antirrhinum flower small3.jpg Anthers1.jpg MacroOPTIris1.jpg </sgallery> |
Working with 3D volume imagesThree dimensional (3D) volume images are key to understanding the development of shape. They are produced by CT X-ray scanners, MRI and PET. However, biological gene activity is monitored using fluorescent probes and so optical methods are used: confocal microscopy and optical projection microscopy. The resulting images are large and are best viewed using software that exploits powerful graphics processors. We implemented VolViewer which is a viewer of choice in the open microscopy environment. |
<sgallery width="160" height="280" showarrows="false" showcarousel="false" showinfopane="false" timed="true" delay="4000"> Arabidopsis_Leaf_ATH8bbg.png </sgallery> |
Photos, Algorithms and Art
Tools and Demonstrations
About
The Bangham Lab is part of the UEA D’Arcy Thompson Centre for computational biology.