Merge pull request #176 from openworm/development

Adding June 2023 news page

Author: pgleeson

assets/HH_Jupyter.png

@@ -64,6 +64,7 @@ <h1>OpenWorm News</h1>
         <div class="span3 bs-docs-sidebar">
           <ul class="nav nav-list bs-docs-sidenav">
             <li>
+              <a href="#June2023"><i class="fa fa-chevron-right"></i> June 2023</a>
               <a href="#September2022"><i class="fa fa-chevron-right"></i> September 2022</a>
             </li>
 
@@ -72,6 +73,50 @@ <h1>OpenWorm News</h1>
         </div>
         <div class="span9">
 
+          <section id="June2023">
+            <div class="page-header">
+              <h1>June 2023</h1>
+
+              <h3>1) OpenWorm @ <i>C. elegans</i> 2023</h3>
+
+              <p class="lead">The OpenWorm team were present at <a href="https://genetics-gsa.org/celegans2023/">the main <i>C. elegans</i> scientific conference</a> in Glasgow in June 2023.</p>
+
+              <p class="lead">We presented an update on the recent activities in the project (click on the poster below) and connected with a number of groups who are acquiring leading edge experimental data which can be used to help build and constrain our worm models.</p>
+
+              <p align="center"><kbd><a href="/assets/OpenWormPoster_Celegans_Glasgow_2023.pdf">
+                <img src="/assets/OpenWormPoster_C_elegans_Glasgow_2023.png" alt="OpenWormPoster2022" width="250"></a></kbd></p>
+
+              <h3>2) Hodgkin Huxley interactive tutorial</h3>
+
+              <p class="lead">As part of a recent Google Summer of Code project by Rahul Sonkar, an interactive tutorial for the Hodgkin Huxley model of neuronal activity was developed.
+            This <a href="https://github.com/openworm/hodgkin_huxley_tutorial/blob/master/notebooks/Python_HH_version/README.md">Jupyter notebook based tutorial</a> can be used to investigate how ion channel dynamical properties underlie the generation of the action potential in neurons.</p>
+
+            <p align="center"><kbd><a href="https://github.com/openworm/hodgkin_huxley_tutorial/blob/master/notebooks/Python_HH_version/README.md">
+              <img src="/assets/HH_Jupyter.png" alt="HH" width="400"></a></kbd></p>
+              
+              <h3>3) Updated 2D worm body model visualisations</h3>
+              
+              <p class="lead">We have been investigating multiple options for incorporating 2D worm body models into our simulation pipeline to complement the full 3D Sibernetic-based worm body model.</p>
+
+              <p class="lead">Options investigated so far include the model of <a href="https://github.com/openworm/CE_locomotion">Olivares, Izquierdo & Beer</a>, as well as 
+                the <a href="https://github.com/OpenSourceBrain/CelegansNeuromechanicalGaitModulation">Boyle, Berri and Cohen</a> model, for which we have added a new Python based visualisation tool:
+
+            <p align="center"><kbd><a href="https://github.com/OpenSourceBrain/CelegansNeuromechanicalGaitModulation/tree/master/WormSim">
+              <img src="/assets/Replay.gif" alt="Replay"></a></kbd></p>
+
+
+            <h3>4) DevoWorm updates</h3>
+
+            <p align="center"><img src="https://raw.githubusercontent.com/OREL-group/GSoC/main/Media/DW.png" height="150"/></p>
+
+            <p class="lead">DevoWorm has sponsored two projects through the Google Summer of Code program for 2023: maintenance of the DevoLearn software package, and development of work on GNN (Graph neural Networks) and TDA (Topological Data Analysis) applications to biological development. These projects involve the work of GSoC scholars <A HREF="https://github.com/sushmanthreddy">Sushmanth Reddy</A> and <A HREF="https://github.com/himanshu-02">Himanshu Chougule</A>, respectively.</p> 
+              
+            <p class="lead">Members of the DevoWorm group have two recent publications: <A HREF="https://dx.doi.org/10.1098/rsfs.2022.0067">Embodied Cognitive Morphogenesis as a Route to Intelligent Systems</A>, published at <i>Royal Society Interface Focus</i>, and  <A HREF="https://onlinelibrary.wiley.com/doi/10.1002/9781119751939.ch9">The Psychophysical World of the Motile Diatom Bacillaria Paradoxa</A>, published in <i>Mathematical Biology of Diatoms</i>.</p> 
+
+            <p class="lead">In our weekly meetings, we have discussed topics such as early life and the <A HREF="http://syntheticdaisies.blogspot.com/2023/03/ancient-embryogenesis-and-evolutionary.html">origins of embryos</A>, the biophysical and topological underpinnings of phenotypes, current <A HREF="https://www.nature.com/articles/s43586-022-00186-8">organoid</A>, embryoid, and <A HREF="https://www.nature.com/articles/s41592-020-01026-x">assembloid research</A>, and the intersection of microscopy and artificial life. There are collective discussions, as well as presentations on various topics by Bradly Alicea. Our archive of weekly meetings is available on the <A HREF="https://www.youtube.com/watch?v=6vHxIQdBf7I&list=PLJ8ZcBZeKeci2ACwfllCDFn_eZAXlbGQN">DevoWorm YouTube channel.</A></p>
+
+</div>
+
           <section id="September2022">
             <div class="page-header">
 <h1>September 2022</h1>
@@ -159,7 +204,6 @@ <h3>5) DevoWorm updates</h3>
 <p class="lead">Our <a href="https://www.youtube.com/playlist?list=PLJ8ZcBZeKeci2ACwfllCDFn_eZAXlbGQN">weekly meetings</a> are a continuing success.
   We cover a number of technical topics and a wide variety of topical reviews spanning biophysics, developmental biology, computational
   analysis, and more. Join us on Mondays at 2pm UTC (1pm UTC in winter) to get involved.</p>
-
 <h3>6) OpenWorm simulation stack updates</h3>
 
 <p align="center"><img src="https://raw.githubusercontent.com/openworm/OpenWorm/master/img/worm-crawling.gif" alt="Worm Crawling" width="550"></p>
@@ -176,21 +220,14 @@ <h3>6) OpenWorm simulation stack updates</h3>
 
 <h3>7) Other announcements</h3>
 
-<p align="center"><kbd><a href="https://github.com/openworm/Newsletter/raw/main/docs/OpenWormPoster_C_elegans_meeting_June_2021.pdf">
-  <img src="https://raw.githubusercontent.com/openworm/Newsletter/main/img/OpenWormPoster2022.png" alt="OpenWormPoster2022" width="450"></a></kbd></p>
+<p align="center"><kbd><a href="/assets/OpenWormPoster_C_elegans_meeting_June_2021.pdf">
+  <img src="/assets/OpenWormPoster2022.png" alt="OpenWormPoster2022" width="450"></a></kbd></p>
 
 <p class="lead">A poster presenting the latest status of the OpenWorm project was presented at the
   <a href="https://genetics-gsa.org/celegans-2021/">main global
   conference in the <i>C. elegans</i> field</a> in June 2021. Click on the image above to download the poster.</p>
 
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