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<rss version="2.0" xmlns:atom="http://www.w3.org/2005/Atom"><channel><title>Activity for Systems Biology Ontology</title><link>https://sourceforge.net/p/sbo/activity/</link><description>Recent activity for Systems Biology Ontology</description><language>en</language><lastBuildDate>Fri, 01 Oct 2021 18:56:59 -0000</lastBuildDate><item><title>Anonymous created ticket #147</title><link>https://sourceforge.net/p/sbo/term-request/147/</link><description>Term request: recombination</description><dc:creator xmlns:dc="http://purl.org/dc/elements/1.1/">Anonymous</dc:creator><pubDate>Fri, 01 Oct 2021 18:56:59 -0000</pubDate><guid>https://sourceforge.net/p/sbo/term-request/147/</guid></item><item><title>Jonathan Karr posted a comment on ticket #138</title><link>https://sourceforge.net/p/sbo/term-request/138/?limit=25#96b2</link><description>Added to SBO</description><dc:creator xmlns:dc="http://purl.org/dc/elements/1.1/">Jonathan Karr</dc:creator><pubDate>Sat, 07 Aug 2021 21:57:10 -0000</pubDate><guid>https://sourceforge.net/p/sbo/term-request/138/?limit=25#96b2</guid></item><item><title>Jonathan Karr modified ticket #138</title><link>https://sourceforge.net/p/sbo/term-request/138/</link><description>New modeling framework for particle-based discrete spatial simulation</description><dc:creator xmlns:dc="http://purl.org/dc/elements/1.1/">Jonathan Karr</dc:creator><pubDate>Sat, 07 Aug 2021 21:57:10 -0000</pubDate><guid>https://sourceforge.net/p/sbo/term-request/138/</guid></item><item><title>Jonathan Karr modified ticket #139</title><link>https://sourceforge.net/p/sbo/term-request/139/</link><description>New terms for  hybrid frameworks</description><dc:creator xmlns:dc="http://purl.org/dc/elements/1.1/">Jonathan Karr</dc:creator><pubDate>Sat, 07 Aug 2021 21:57:01 -0000</pubDate><guid>https://sourceforge.net/p/sbo/term-request/139/</guid></item><item><title>Jonathan Karr posted a comment on ticket #139</title><link>https://sourceforge.net/p/sbo/term-request/139/?limit=25#c853</link><description>Added to SBO</description><dc:creator xmlns:dc="http://purl.org/dc/elements/1.1/">Jonathan Karr</dc:creator><pubDate>Sat, 07 Aug 2021 21:57:01 -0000</pubDate><guid>https://sourceforge.net/p/sbo/term-request/139/?limit=25#c853</guid></item><item><title>Jonathan Karr modified ticket #140</title><link>https://sourceforge.net/p/sbo/term-request/140/</link><description>population-based discrete non-spatial simulation</description><dc:creator xmlns:dc="http://purl.org/dc/elements/1.1/">Jonathan Karr</dc:creator><pubDate>Sat, 07 Aug 2021 21:56:52 -0000</pubDate><guid>https://sourceforge.net/p/sbo/term-request/140/</guid></item><item><title>Jonathan Karr posted a comment on ticket #140</title><link>https://sourceforge.net/p/sbo/term-request/140/?limit=25#a4d5</link><description>Added to SBO</description><dc:creator xmlns:dc="http://purl.org/dc/elements/1.1/">Jonathan Karr</dc:creator><pubDate>Sat, 07 Aug 2021 21:56:52 -0000</pubDate><guid>https://sourceforge.net/p/sbo/term-request/140/?limit=25#a4d5</guid></item><item><title>Jonathan Karr modified ticket #141</title><link>https://sourceforge.net/p/sbo/term-request/141/</link><description>population-based discrete spatial simulation</description><dc:creator xmlns:dc="http://purl.org/dc/elements/1.1/">Jonathan Karr</dc:creator><pubDate>Sat, 07 Aug 2021 21:56:44 -0000</pubDate><guid>https://sourceforge.net/p/sbo/term-request/141/</guid></item><item><title>Jonathan Karr posted a comment on ticket #141</title><link>https://sourceforge.net/p/sbo/term-request/141/?limit=25#7c8a</link><description>Added to SBO</description><dc:creator xmlns:dc="http://purl.org/dc/elements/1.1/">Jonathan Karr</dc:creator><pubDate>Sat, 07 Aug 2021 21:56:44 -0000</pubDate><guid>https://sourceforge.net/p/sbo/term-request/141/?limit=25#7c8a</guid></item><item><title>Jonathan Karr modified ticket #142</title><link>https://sourceforge.net/p/sbo/term-request/142/</link><description>New term for deterministic non-spatial continuous framework</description><dc:creator xmlns:dc="http://purl.org/dc/elements/1.1/">Jonathan Karr</dc:creator><pubDate>Sat, 07 Aug 2021 21:56:37 -0000</pubDate><guid>https://sourceforge.net/p/sbo/term-request/142/</guid></item><item><title>Jonathan Karr posted a comment on ticket #142</title><link>https://sourceforge.net/p/sbo/term-request/142/?limit=25#2e72</link><description>Added to SBO</description><dc:creator xmlns:dc="http://purl.org/dc/elements/1.1/">Jonathan Karr</dc:creator><pubDate>Sat, 07 Aug 2021 21:56:37 -0000</pubDate><guid>https://sourceforge.net/p/sbo/term-request/142/?limit=25#2e72</guid></item><item><title>Jonathan Karr modified ticket #143</title><link>https://sourceforge.net/p/sbo/term-request/143/</link><description>New term for stochastic non-spatial continuous framework</description><dc:creator xmlns:dc="http://purl.org/dc/elements/1.1/">Jonathan Karr</dc:creator><pubDate>Sat, 07 Aug 2021 21:56:29 -0000</pubDate><guid>https://sourceforge.net/p/sbo/term-request/143/</guid></item><item><title>Jonathan Karr posted a comment on ticket #143</title><link>https://sourceforge.net/p/sbo/term-request/143/?limit=25#3e69</link><description>Added to SBO</description><dc:creator xmlns:dc="http://purl.org/dc/elements/1.1/">Jonathan Karr</dc:creator><pubDate>Sat, 07 Aug 2021 21:56:29 -0000</pubDate><guid>https://sourceforge.net/p/sbo/term-request/143/?limit=25#3e69</guid></item><item><title>Jonathan Karr modified ticket #144</title><link>https://sourceforge.net/p/sbo/term-request/144/</link><description>New term for deterministic non-spatial continuous framework</description><dc:creator xmlns:dc="http://purl.org/dc/elements/1.1/">Jonathan Karr</dc:creator><pubDate>Sat, 07 Aug 2021 21:56:19 -0000</pubDate><guid>https://sourceforge.net/p/sbo/term-request/144/</guid></item><item><title>Jonathan Karr posted a comment on ticket #144</title><link>https://sourceforge.net/p/sbo/term-request/144/?limit=25#8efc</link><description>Added to SBO</description><dc:creator xmlns:dc="http://purl.org/dc/elements/1.1/">Jonathan Karr</dc:creator><pubDate>Sat, 07 Aug 2021 21:56:19 -0000</pubDate><guid>https://sourceforge.net/p/sbo/term-request/144/?limit=25#8efc</guid></item><item><title>Jonathan Karr modified ticket #145</title><link>https://sourceforge.net/p/sbo/term-request/145/</link><description>stochastic non-spatial continuous framework</description><dc:creator xmlns:dc="http://purl.org/dc/elements/1.1/">Jonathan Karr</dc:creator><pubDate>Sat, 07 Aug 2021 21:56:12 -0000</pubDate><guid>https://sourceforge.net/p/sbo/term-request/145/</guid></item><item><title>Jonathan Karr posted a comment on ticket #145</title><link>https://sourceforge.net/p/sbo/term-request/145/?limit=25#129f</link><description>Added to SBO</description><dc:creator xmlns:dc="http://purl.org/dc/elements/1.1/">Jonathan Karr</dc:creator><pubDate>Sat, 07 Aug 2021 21:56:12 -0000</pubDate><guid>https://sourceforge.net/p/sbo/term-request/145/?limit=25#129f</guid></item><item><title>Jonathan Karr modified ticket #137</title><link>https://sourceforge.net/p/sbo/term-request/137/</link><description>New modeling framework for particle-based discrete spatial simulation</description><dc:creator xmlns:dc="http://purl.org/dc/elements/1.1/">Jonathan Karr</dc:creator><pubDate>Sat, 07 Aug 2021 21:56:01 -0000</pubDate><guid>https://sourceforge.net/p/sbo/term-request/137/</guid></item><item><title>Jonathan Karr posted a comment on ticket #137</title><link>https://sourceforge.net/p/sbo/term-request/137/?limit=25#4b85</link><description>Added to SBO</description><dc:creator xmlns:dc="http://purl.org/dc/elements/1.1/">Jonathan Karr</dc:creator><pubDate>Sat, 07 Aug 2021 21:56:01 -0000</pubDate><guid>https://sourceforge.net/p/sbo/term-request/137/?limit=25#4b85</guid></item><item><title>Jonathan Karr modified ticket #146</title><link>https://sourceforge.net/p/sbo/term-request/146/</link><description>Summary of tickets 137-145</description><dc:creator xmlns:dc="http://purl.org/dc/elements/1.1/">Jonathan Karr</dc:creator><pubDate>Sat, 07 Aug 2021 21:55:02 -0000</pubDate><guid>https://sourceforge.net/p/sbo/term-request/146/</guid></item><item><title>Jonathan Karr posted a comment on ticket #146</title><link>https://sourceforge.net/p/sbo/term-request/146/?limit=25#d923</link><description>Added to SBO</description><dc:creator xmlns:dc="http://purl.org/dc/elements/1.1/">Jonathan Karr</dc:creator><pubDate>Sat, 07 Aug 2021 21:55:02 -0000</pubDate><guid>https://sourceforge.net/p/sbo/term-request/146/?limit=25#d923</guid></item><item><title>Anonymous posted a comment on ticket #139</title><link>https://sourceforge.net/p/sbo/term-request/139/?limit=25#e883</link><description>Revised request: (a) name: hybrid framework parent: SBO_0000004 description: Modelling approach which combines multiple canonical modeling frameworks. For example, a hybrid model could consider both continuous (represented by real values) and discrete (represented by integers) participants. Hybrid models are executed with hybrid simulation algorithms. For example, a hybrid continuous-discrete model may be simulation using a combination of stochastic simulation and ordinary differential equations....</description><dc:creator xmlns:dc="http://purl.org/dc/elements/1.1/">Anonymous</dc:creator><pubDate>Sun, 13 Jun 2021 22:22:59 -0000</pubDate><guid>https://sourceforge.net/p/sbo/term-request/139/?limit=25#e883</guid></item><item><title>Jonathan Karr posted a comment on ticket #139</title><link>https://sourceforge.net/p/sbo/term-request/139/?limit=25#18ce</link><description>Revised request: (a) name: hybrid framework parent: SBO_0000004 description: Modelling approach which combines multiple canonical modeling frameworks. For example, a hybrid model could consider both continuous (represented by real values) and discrete (represented by integers) participants. Hybrid models are executed with hybrid simulation algorithms. For example, a hybrid continuous-discrete model may be simulation using a combination of stochastic simulation and ordinary differential equations....</description><dc:creator xmlns:dc="http://purl.org/dc/elements/1.1/">Jonathan Karr</dc:creator><pubDate>Sun, 13 Jun 2021 22:22:58 -0000</pubDate><guid>https://sourceforge.net/p/sbo/term-request/139/?limit=25#18ce</guid></item><item><title>Jonathan Karr created ticket #146</title><link>https://sourceforge.net/p/sbo/term-request/146/</link><description>Summary of tickets 137-145</description><dc:creator xmlns:dc="http://purl.org/dc/elements/1.1/">Jonathan Karr</dc:creator><pubDate>Sun, 13 Jun 2021 22:19:55 -0000</pubDate><guid>https://sourceforge.net/p/sbo/term-request/146/</guid></item><item><title>Jonathan Karr created ticket #145</title><link>https://sourceforge.net/p/sbo/term-request/145/</link><description>stochastic non-spatial continuous framework</description><dc:creator xmlns:dc="http://purl.org/dc/elements/1.1/">Jonathan Karr</dc:creator><pubDate>Sun, 13 Jun 2021 22:15:23 -0000</pubDate><guid>https://sourceforge.net/p/sbo/term-request/145/</guid></item><item><title>Jonathan Karr created ticket #144</title><link>https://sourceforge.net/p/sbo/term-request/144/</link><description>New term for deterministic non-spatial continuous framework</description><dc:creator xmlns:dc="http://purl.org/dc/elements/1.1/">Jonathan Karr</dc:creator><pubDate>Sun, 13 Jun 2021 22:14:55 -0000</pubDate><guid>https://sourceforge.net/p/sbo/term-request/144/</guid></item><item><title>Anonymous created ticket #143</title><link>https://sourceforge.net/p/sbo/term-request/143/</link><description>New term for stochastic non-spatial continuous framework</description><dc:creator xmlns:dc="http://purl.org/dc/elements/1.1/">Anonymous</dc:creator><pubDate>Sun, 13 Jun 2021 17:54:41 -0000</pubDate><guid>https://sourceforge.net/p/sbo/term-request/143/</guid></item><item><title>Anonymous created ticket #142</title><link>https://sourceforge.net/p/sbo/term-request/142/</link><description>New term for deterministic non-spatial continuous framework</description><dc:creator xmlns:dc="http://purl.org/dc/elements/1.1/">Anonymous</dc:creator><pubDate>Sun, 13 Jun 2021 17:53:28 -0000</pubDate><guid>https://sourceforge.net/p/sbo/term-request/142/</guid></item><item><title>Anonymous created ticket #141</title><link>https://sourceforge.net/p/sbo/term-request/141/</link><description>population-based discrete spatial simulation</description><dc:creator xmlns:dc="http://purl.org/dc/elements/1.1/">Anonymous</dc:creator><pubDate>Sun, 13 Jun 2021 17:25:36 -0000</pubDate><guid>https://sourceforge.net/p/sbo/term-request/141/</guid></item><item><title>Anonymous created ticket #140</title><link>https://sourceforge.net/p/sbo/term-request/140/</link><description>population-based discrete non-spatial simulation</description><dc:creator xmlns:dc="http://purl.org/dc/elements/1.1/">Anonymous</dc:creator><pubDate>Sun, 13 Jun 2021 17:24:43 -0000</pubDate><guid>https://sourceforge.net/p/sbo/term-request/140/</guid></item><item><title>Anonymous created ticket #139</title><link>https://sourceforge.net/p/sbo/term-request/139/</link><description>New terms for  hybrid frameworks</description><dc:creator xmlns:dc="http://purl.org/dc/elements/1.1/">Anonymous</dc:creator><pubDate>Sun, 13 Jun 2021 17:11:56 -0000</pubDate><guid>https://sourceforge.net/p/sbo/term-request/139/</guid></item><item><title>Jonathan Karr created ticket #138</title><link>https://sourceforge.net/p/sbo/term-request/138/</link><description>New modeling framework for particle-based discrete spatial simulation</description><dc:creator xmlns:dc="http://purl.org/dc/elements/1.1/">Jonathan Karr</dc:creator><pubDate>Thu, 10 Jun 2021 22:22:22 -0000</pubDate><guid>https://sourceforge.net/p/sbo/term-request/138/</guid></item><item><title>Jonathan Karr created ticket #137</title><link>https://sourceforge.net/p/sbo/term-request/137/</link><description>New modeling framework for particle-based discrete spatial simulation</description><dc:creator xmlns:dc="http://purl.org/dc/elements/1.1/">Jonathan Karr</dc:creator><pubDate>Thu, 10 Jun 2021 22:21:02 -0000</pubDate><guid>https://sourceforge.net/p/sbo/term-request/137/</guid></item><item><title>Krishna Tiwari modified ticket #136</title><link>https://sourceforge.net/p/sbo/term-request/136/</link><description>Apparent kcat values</description><dc:creator xmlns:dc="http://purl.org/dc/elements/1.1/">Krishna Tiwari</dc:creator><pubDate>Wed, 21 Apr 2021 17:35:39 -0000</pubDate><guid>https://sourceforge.net/p/sbo/term-request/136/</guid></item><item><title>Krishna Tiwari posted a comment on ticket #136</title><link>https://sourceforge.net/p/sbo/term-request/136/?limit=25#aefa</link><description>New SBO entry created for forward and reverse catalytic rates.</description><dc:creator xmlns:dc="http://purl.org/dc/elements/1.1/">Krishna Tiwari</dc:creator><pubDate>Wed, 21 Apr 2021 17:35:39 -0000</pubDate><guid>https://sourceforge.net/p/sbo/term-request/136/?limit=25#aefa</guid></item><item><title>Anonymous created ticket #136</title><link>https://sourceforge.net/p/sbo/term-request/136/</link><description>Apparent kcat values</description><dc:creator xmlns:dc="http://purl.org/dc/elements/1.1/">Anonymous</dc:creator><pubDate>Sun, 14 Mar 2021 15:52:36 -0000</pubDate><guid>https://sourceforge.net/p/sbo/term-request/136/</guid></item><item><title>Krishna Tiwari posted a comment on ticket #135</title><link>https://sourceforge.net/p/sbo/term-request/135/?limit=25#b4a2</link><description>SBO:0000672 term created for Spontaneous reaction.</description><dc:creator xmlns:dc="http://purl.org/dc/elements/1.1/">Krishna Tiwari</dc:creator><pubDate>Fri, 05 Mar 2021 10:23:15 -0000</pubDate><guid>https://sourceforge.net/p/sbo/term-request/135/?limit=25#b4a2</guid></item><item><title>Krishna Tiwari modified ticket #135</title><link>https://sourceforge.net/p/sbo/term-request/135/</link><description>spontaneous reaction</description><dc:creator xmlns:dc="http://purl.org/dc/elements/1.1/">Krishna Tiwari</dc:creator><pubDate>Fri, 05 Mar 2021 10:09:15 -0000</pubDate><guid>https://sourceforge.net/p/sbo/term-request/135/</guid></item><item><title>Andreas Dräger created ticket #135</title><link>https://sourceforge.net/p/sbo/term-request/135/</link><description>spontaneous reaction</description><dc:creator xmlns:dc="http://purl.org/dc/elements/1.1/">Andreas Dräger</dc:creator><pubDate>Fri, 05 Mar 2021 09:15:43 -0000</pubDate><guid>https://sourceforge.net/p/sbo/term-request/135/</guid></item><item><title>Krishna Tiwari modified ticket #134</title><link>https://sourceforge.net/p/sbo/term-request/134/</link><description>Term for non-enzymatic catalysts</description><dc:creator xmlns:dc="http://purl.org/dc/elements/1.1/">Krishna Tiwari</dc:creator><pubDate>Tue, 20 Oct 2020 12:32:54 -0000</pubDate><guid>https://sourceforge.net/p/sbo/term-request/134/</guid></item><item><title>Krishna Tiwari posted a comment on ticket #134</title><link>https://sourceforge.net/p/sbo/term-request/134/?limit=25#02b5</link><description>New term created for Non-enzymatic Catalysts (SBO:0000671) under catalyst.</description><dc:creator xmlns:dc="http://purl.org/dc/elements/1.1/">Krishna Tiwari</dc:creator><pubDate>Tue, 20 Oct 2020 12:32:54 -0000</pubDate><guid>https://sourceforge.net/p/sbo/term-request/134/?limit=25#02b5</guid></item><item><title>Krishna Tiwari posted a comment on ticket #134</title><link>https://sourceforge.net/p/sbo/term-request/134/?limit=25#c3be</link><description>non-enzymatic catalysts term (SBO:0000671) created under catalyst as child</description><dc:creator xmlns:dc="http://purl.org/dc/elements/1.1/">Krishna Tiwari</dc:creator><pubDate>Tue, 20 Oct 2020 12:30:24 -0000</pubDate><guid>https://sourceforge.net/p/sbo/term-request/134/?limit=25#c3be</guid></item><item><title>Eike Pertuch created ticket #134</title><link>https://sourceforge.net/p/sbo/term-request/134/</link><description>Term for non-enzymatic catalysts</description><dc:creator xmlns:dc="http://purl.org/dc/elements/1.1/">Eike Pertuch</dc:creator><pubDate>Tue, 06 Oct 2020 16:44:58 -0000</pubDate><guid>https://sourceforge.net/p/sbo/term-request/134/</guid></item><item><title>Krishna Tiwari modified ticket #131</title><link>https://sourceforge.net/p/sbo/term-request/131/</link><description>Protein chain length</description><dc:creator xmlns:dc="http://purl.org/dc/elements/1.1/">Krishna Tiwari</dc:creator><pubDate>Mon, 24 Feb 2020 11:50:48 -0000</pubDate><guid>https://sourceforge.net/p/sbo/term-request/131/</guid></item><item><title>Krishna Tiwari modified ticket #132</title><link>https://sourceforge.net/p/sbo/term-request/132/</link><description>Yield</description><dc:creator xmlns:dc="http://purl.org/dc/elements/1.1/">Krishna Tiwari</dc:creator><pubDate>Mon, 24 Feb 2020 11:50:14 -0000</pubDate><guid>https://sourceforge.net/p/sbo/term-request/132/</guid></item><item><title>Krishna Tiwari created ticket #133</title><link>https://sourceforge.net/p/sbo/term-request/133/</link><description>Feedback regulation</description><dc:creator xmlns:dc="http://purl.org/dc/elements/1.1/">Krishna Tiwari</dc:creator><pubDate>Fri, 06 Dec 2019 12:17:54 -0000</pubDate><guid>https://sourceforge.net/p/sbo/term-request/133/</guid></item><item><title>Krishna Tiwari modified ticket #126</title><link>https://sourceforge.net/p/sbo/term-request/126/</link><description>Request ontology "Inactivation"</description><dc:creator xmlns:dc="http://purl.org/dc/elements/1.1/">Krishna Tiwari</dc:creator><pubDate>Fri, 06 Dec 2019 11:58:53 -0000</pubDate><guid>https://sourceforge.net/p/sbo/term-request/126/</guid></item><item><title>Krishna Tiwari posted a comment on ticket #126</title><link>https://sourceforge.net/p/sbo/term-request/126/?limit=25#db65</link><description>http://wwwdev.ebi.ac.uk/sbo/main/search?query=SBO%3A0000665</description><dc:creator xmlns:dc="http://purl.org/dc/elements/1.1/">Krishna Tiwari</dc:creator><pubDate>Fri, 06 Dec 2019 11:58:53 -0000</pubDate><guid>https://sourceforge.net/p/sbo/term-request/126/?limit=25#db65</guid></item><item><title>Krishna Tiwari posted a comment on ticket #126</title><link>https://sourceforge.net/p/sbo/term-request/126/?limit=25#3f29</link><description>added in SBO term with id SBO:0000665</description><dc:creator xmlns:dc="http://purl.org/dc/elements/1.1/">Krishna Tiwari</dc:creator><pubDate>Fri, 06 Dec 2019 11:58:14 -0000</pubDate><guid>https://sourceforge.net/p/sbo/term-request/126/?limit=25#3f29</guid></item><item><title>Krishna Tiwari modified ticket #126</title><link>https://sourceforge.net/p/sbo/term-request/126/</link><description>Request ontology "Inactivation"</description><dc:creator xmlns:dc="http://purl.org/dc/elements/1.1/">Krishna Tiwari</dc:creator><pubDate>Fri, 06 Dec 2019 10:37:34 -0000</pubDate><guid>https://sourceforge.net/p/sbo/term-request/126/</guid></item><item><title>Anonymous created ticket #132</title><link>https://sourceforge.net/p/sbo/term-request/132/</link><description>Yield</description><dc:creator xmlns:dc="http://purl.org/dc/elements/1.1/">Anonymous</dc:creator><pubDate>Fri, 22 Nov 2019 17:08:50 -0000</pubDate><guid>https://sourceforge.net/p/sbo/term-request/132/</guid></item><item><title>Anonymous created ticket #131</title><link>https://sourceforge.net/p/sbo/term-request/131/</link><description>Protein chain length</description><dc:creator xmlns:dc="http://purl.org/dc/elements/1.1/">Anonymous</dc:creator><pubDate>Fri, 22 Nov 2019 17:05:54 -0000</pubDate><guid>https://sourceforge.net/p/sbo/term-request/131/</guid></item><item><title>Anonymous created ticket #130</title><link>https://sourceforge.net/p/sbo/term-request/130/</link><description>self-regulation</description><dc:creator xmlns:dc="http://purl.org/dc/elements/1.1/">Anonymous</dc:creator><pubDate>Mon, 04 Nov 2019 13:29:17 -0000</pubDate><guid>https://sourceforge.net/p/sbo/term-request/130/</guid></item><item><title>Anonymous created ticket #129</title><link>https://sourceforge.net/p/sbo/term-request/129/</link><description>Logistic Growth </description><dc:creator xmlns:dc="http://purl.org/dc/elements/1.1/">Anonymous</dc:creator><pubDate>Wed, 19 Sep 2018 11:14:23 -0000</pubDate><guid>https://sourceforge.net/p/sbo/term-request/129/</guid></item><item><title>Nicolas Le Novère modified ticket #128</title><link>https://sourceforge.net/p/sbo/term-request/128/</link><description>Object role for SBO:Containment</description><dc:creator xmlns:dc="http://purl.org/dc/elements/1.1/">Nicolas Le Novère</dc:creator><pubDate>Fri, 13 Jul 2018 09:47:54 -0000</pubDate><guid>https://sourceforge.net/p/sbo/term-request/128/</guid></item><item><title>Anonymous created ticket #128</title><link>https://sourceforge.net/p/sbo/term-request/128/</link><description>Object role for SBO:Containment</description><dc:creator xmlns:dc="http://purl.org/dc/elements/1.1/">Anonymous</dc:creator><pubDate>Mon, 02 Jul 2018 21:32:09 -0000</pubDate><guid>https://sourceforge.net/p/sbo/term-request/128/</guid></item><item><title>Andreas Dräger posted a comment on ticket #127</title><link>https://sourceforge.net/p/sbo/term-request/127/?limit=25#3be0</link><description>We will also need mutant and wild type.</description><dc:creator xmlns:dc="http://purl.org/dc/elements/1.1/">Andreas Dräger</dc:creator><pubDate>Thu, 28 Jun 2018 13:22:30 -0000</pubDate><guid>https://sourceforge.net/p/sbo/term-request/127/?limit=25#3be0</guid></item><item><title>Andreas Dräger created ticket #127</title><link>https://sourceforge.net/p/sbo/term-request/127/</link><description>Terms for describing of higher-level entities</description><dc:creator xmlns:dc="http://purl.org/dc/elements/1.1/">Andreas Dräger</dc:creator><pubDate>Thu, 28 Jun 2018 13:21:14 -0000</pubDate><guid>https://sourceforge.net/p/sbo/term-request/127/</guid></item><item><title>Nicolas Le Novère posted a comment on ticket #125</title><link>https://sourceforge.net/p/sbo/term-request/125/?limit=25#70bf</link><description>It might be so, but "charge" is universally used in chemistry and biochemistry, including in FBA models, for the electric charge. It would be incredibly confusing to use the term for another meaning.</description><dc:creator xmlns:dc="http://purl.org/dc/elements/1.1/">Nicolas Le Novère</dc:creator><pubDate>Wed, 09 May 2018 10:43:24 -0000</pubDate><guid>https://sourceforge.net/p/sbo/term-request/125/?limit=25#70bf</guid></item><item><title>Nicolas Rodriguez modified ticket #125</title><link>https://sourceforge.net/p/sbo/term-request/125/</link><description>Charge</description><dc:creator xmlns:dc="http://purl.org/dc/elements/1.1/">Nicolas Rodriguez</dc:creator><pubDate>Wed, 09 May 2018 10:43:13 -0000</pubDate><guid>https://sourceforge.net/p/sbo/term-request/125/</guid></item><item><title>Anonymous posted a comment on ticket #125</title><link>https://sourceforge.net/p/sbo/term-request/125/?limit=25#c6c9</link><description>The definition of charge in this form can be found in the textbook by Palsson (2011) "Systems Biology: Simulation of Dynamic Network States," p. 27, eq. 2.17: charge = occupancy / capacity. There you can also find explanation about the energy charge, the catabolic and anabolic redox charges, and many more. It would be nice if aggregate variables in biological models could be annotated using the exact same term that is used in relevant textbooks.</description><dc:creator xmlns:dc="http://purl.org/dc/elements/1.1/">Anonymous</dc:creator><pubDate>Wed, 09 May 2018 10:38:36 -0000</pubDate><guid>https://sourceforge.net/p/sbo/term-request/125/?limit=25#c6c9</guid></item><item><title>Anonymous created ticket #126</title><link>https://sourceforge.net/p/sbo/term-request/126/</link><description>Request ontology "Inactivation"</description><dc:creator xmlns:dc="http://purl.org/dc/elements/1.1/">Anonymous</dc:creator><pubDate>Tue, 08 May 2018 14:00:15 -0000</pubDate><guid>https://sourceforge.net/p/sbo/term-request/126/</guid></item><item><title>Varun Kothamachu modified ticket #125</title><link>https://sourceforge.net/p/sbo/term-request/125/</link><description>Charge</description><dc:creator xmlns:dc="http://purl.org/dc/elements/1.1/">Varun Kothamachu</dc:creator><pubDate>Mon, 30 Apr 2018 18:57:20 -0000</pubDate><guid>https://sourceforge.net/p/sbo/term-request/125/</guid></item><item><title>Varun Kothamachu posted a comment on ticket #125</title><link>https://sourceforge.net/p/sbo/term-request/125/?limit=25#61fa</link><description>Dear Andreas, Thank you for the term request. I am weary to use "charge" to represent the definition that you are after. Instead, I have created a new term called "fractional occupancy" SBO:0000663. I hope this works for you.</description><dc:creator xmlns:dc="http://purl.org/dc/elements/1.1/">Varun Kothamachu</dc:creator><pubDate>Mon, 30 Apr 2018 18:57:20 -0000</pubDate><guid>https://sourceforge.net/p/sbo/term-request/125/?limit=25#61fa</guid></item><item><title>Varun Kothamachu posted a comment on ticket #124</title><link>https://sourceforge.net/p/sbo/term-request/124/?limit=25#7594</link><description>Hi Andreas, I have now created a new term SBO:0000662 in response to your request.</description><dc:creator xmlns:dc="http://purl.org/dc/elements/1.1/">Varun Kothamachu</dc:creator><pubDate>Sun, 29 Apr 2018 19:50:02 -0000</pubDate><guid>https://sourceforge.net/p/sbo/term-request/124/?limit=25#7594</guid></item><item><title>Varun Kothamachu modified ticket #124</title><link>https://sourceforge.net/p/sbo/term-request/124/</link><description>Occupancy</description><dc:creator xmlns:dc="http://purl.org/dc/elements/1.1/">Varun Kothamachu</dc:creator><pubDate>Sun, 29 Apr 2018 19:50:02 -0000</pubDate><guid>https://sourceforge.net/p/sbo/term-request/124/</guid></item><item><title>Varun Kothamachu modified ticket #123</title><link>https://sourceforge.net/p/sbo/term-request/123/</link><description>Capacity</description><dc:creator xmlns:dc="http://purl.org/dc/elements/1.1/">Varun Kothamachu</dc:creator><pubDate>Sun, 29 Apr 2018 19:34:18 -0000</pubDate><guid>https://sourceforge.net/p/sbo/term-request/123/</guid></item><item><title>Varun Kothamachu posted a comment on ticket #123</title><link>https://sourceforge.net/p/sbo/term-request/123/?limit=25#289e</link><description>Dear Andreas, Thank you for the term request. I have created a new term SBO:0000661 in response.</description><dc:creator xmlns:dc="http://purl.org/dc/elements/1.1/">Varun Kothamachu</dc:creator><pubDate>Sun, 29 Apr 2018 19:34:18 -0000</pubDate><guid>https://sourceforge.net/p/sbo/term-request/123/?limit=25#289e</guid></item><item><title>Andreas Dräger created ticket #4</title><link>https://sourceforge.net/p/sbo/bugs-report/4/</link><description>Support for activation and inhibition in population-based models</description><dc:creator xmlns:dc="http://purl.org/dc/elements/1.1/">Andreas Dräger</dc:creator><pubDate>Wed, 25 Apr 2018 09:31:47 -0000</pubDate><guid>https://sourceforge.net/p/sbo/bugs-report/4/</guid></item><item><title>Andreas Dräger posted a comment on ticket #123</title><link>https://sourceforge.net/p/sbo/term-request/123/?limit=25#5899</link><description>In short, the "capacity" can be describe as the total amount that can be contained or produced by a specific entity.</description><dc:creator xmlns:dc="http://purl.org/dc/elements/1.1/">Andreas Dräger</dc:creator><pubDate>Wed, 25 Apr 2018 09:23:40 -0000</pubDate><guid>https://sourceforge.net/p/sbo/term-request/123/?limit=25#5899</guid></item><item><title>Andreas Dräger created ticket #125</title><link>https://sourceforge.net/p/sbo/term-request/125/</link><description>Charge</description><dc:creator xmlns:dc="http://purl.org/dc/elements/1.1/">Andreas Dräger</dc:creator><pubDate>Wed, 25 Apr 2018 09:21:55 -0000</pubDate><guid>https://sourceforge.net/p/sbo/term-request/125/</guid></item><item><title>Andreas Dräger created ticket #124</title><link>https://sourceforge.net/p/sbo/term-request/124/</link><description>Occupancy</description><dc:creator xmlns:dc="http://purl.org/dc/elements/1.1/">Andreas Dräger</dc:creator><pubDate>Wed, 25 Apr 2018 09:21:03 -0000</pubDate><guid>https://sourceforge.net/p/sbo/term-request/124/</guid></item><item><title>Andreas Dräger created ticket #123</title><link>https://sourceforge.net/p/sbo/term-request/123/</link><description>Capacity</description><dc:creator xmlns:dc="http://purl.org/dc/elements/1.1/">Andreas Dräger</dc:creator><pubDate>Wed, 25 Apr 2018 09:18:34 -0000</pubDate><guid>https://sourceforge.net/p/sbo/term-request/123/</guid></item><item><title>Varun Kothamachu posted a comment on ticket #121</title><link>https://sourceforge.net/p/sbo/term-request/121/?limit=25#11c2</link><description>Hi Vasundra, I have created new terms for polymerisation (SBO:0000652) and de-polymerisation (SBO:0000653). For co-transport we now have the term SBO:0000654 which is currently described for 2 substances. I am not aware of examples of co-transport being used for more than 2 substances. Could you share some examples ? Will wait for more responses on the other terms.</description><dc:creator xmlns:dc="http://purl.org/dc/elements/1.1/">Varun Kothamachu</dc:creator><pubDate>Mon, 12 Feb 2018 10:37:17 -0000</pubDate><guid>https://sourceforge.net/p/sbo/term-request/121/?limit=25#11c2</guid></item><item><title>Varun Kothamachu posted a comment on ticket #121</title><link>https://sourceforge.net/p/sbo/term-request/121/?limit=25#1cd5</link><description>Posting on behalf of Vasundra: Hi Varun and Nicolas, Polymerization/Depolymerization looks good to me. Co-transport: "simultaneous transport of two substances" : isn't "two" a bit restrictive here? There could be more than two substances co-transported, right? Could we say "of two or more substances"? Regarding the term Transfers to, the definition in the paper was: "a chemical group is transferred from a high-energy donor to a recipient, forming a covalently bonded modification." So I don't think...</description><dc:creator xmlns:dc="http://purl.org/dc/elements/1.1/">Varun Kothamachu</dc:creator><pubDate>Mon, 12 Feb 2018 10:32:24 -0000</pubDate><guid>https://sourceforge.net/p/sbo/term-request/121/?limit=25#1cd5</guid></item><item><title>Nicolas Le Novère posted a comment on ticket #121</title><link>https://sourceforge.net/p/sbo/term-request/121/?limit=25#67e3/8a15</link><description>[adding Vasundra to the discussion. I think the initial mail only went to SF] On 20/01/18 23:49, Varun Kothamachu wrote: 3. Co-transport (Parent term: SBO:0000185 - transport reaction) A biochemical process involving the simultaneous transport of two substances across a membrane via a protein or protein complex. I will change SBO:0000185 - transport reaction to SBO:0000185: translocation reaction (Parent term: SBO:0000167 - biochemical or transport reaction) and create child terms to translocation...</description><dc:creator xmlns:dc="http://purl.org/dc/elements/1.1/">Nicolas Le Novère</dc:creator><pubDate>Wed, 24 Jan 2018 11:15:12 -0000</pubDate><guid>https://sourceforge.net/p/sbo/term-request/121/?limit=25#67e3/8a15</guid></item><item><title>Varun Kothamachu posted a comment on ticket #121</title><link>https://sourceforge.net/p/sbo/term-request/121/?limit=25#67e3</link><description>Hi Nicolas, Vasundra, I have the following definitions and proposed changes for the terms that you both have been discussing. Kindly let me know if you have any feedback on the proposed definitions before I create the terms. I will create new terms 1. Polymerization (Parent term: SBO:0000182 - conversion) A chemical reaction involving two or more molecules combining to form a larger molecule with repeated structural units. 2. De-polymerization (Parent term: SBO:0000182 - conversion) A chemical reaction...</description><dc:creator xmlns:dc="http://purl.org/dc/elements/1.1/">Varun Kothamachu</dc:creator><pubDate>Sat, 20 Jan 2018 23:49:46 -0000</pubDate><guid>https://sourceforge.net/p/sbo/term-request/121/?limit=25#67e3</guid></item><item><title>Varun Kothamachu posted a comment on ticket #122</title><link>https://sourceforge.net/p/sbo/term-request/122/?limit=25#a485</link><description>Hi Nicolas, I agree on moving SBO:0000376 - hydrolysis as a child term to SBO:0000178 - cleavage. Have made this change and am now closing the ticket now.</description><dc:creator xmlns:dc="http://purl.org/dc/elements/1.1/">Varun Kothamachu</dc:creator><pubDate>Sat, 20 Jan 2018 21:41:47 -0000</pubDate><guid>https://sourceforge.net/p/sbo/term-request/122/?limit=25#a485</guid></item><item><title>Varun Kothamachu modified ticket #122</title><link>https://sourceforge.net/p/sbo/term-request/122/</link><description>Make "hydrolysis" a child of "conversion"</description><dc:creator xmlns:dc="http://purl.org/dc/elements/1.1/">Varun Kothamachu</dc:creator><pubDate>Sat, 20 Jan 2018 21:41:47 -0000</pubDate><guid>https://sourceforge.net/p/sbo/term-request/122/</guid></item><item><title>Nicolas Le Novère created ticket #122</title><link>https://sourceforge.net/p/sbo/term-request/122/</link><description>Make "hydrolysis" a child of "conversion"</description><dc:creator xmlns:dc="http://purl.org/dc/elements/1.1/">Nicolas Le Novère</dc:creator><pubDate>Thu, 23 Nov 2017 09:07:08 -0000</pubDate><guid>https://sourceforge.net/p/sbo/term-request/122/</guid></item><item><title>Nicolas Le Novère posted a comment on ticket #121</title><link>https://sourceforge.net/p/sbo/term-request/121/?limit=25#6a8e</link><description>Thank you Vasundra. Many of those terms are already in SBO, but some would indeed be welcome additions. SBO terms are nouns, not verbs. I think the difference comes from the fact that despite its name, Reactome is not a reaction database but a physical entityffunction database (initialy gene product - its original name was the "Genome Knowledge Base"). So the terms characterise a gene product or a chemical compound. But we can draw equivalences. TRANSFORMS TO ? seems to be SBO:0000167 - biochemical...</description><dc:creator xmlns:dc="http://purl.org/dc/elements/1.1/">Nicolas Le Novère</dc:creator><pubDate>Thu, 23 Nov 2017 09:02:22 -0000</pubDate><guid>https://sourceforge.net/p/sbo/term-request/121/?limit=25#6a8e</guid></item><item><title>Vasundra Toure created ticket #121</title><link>https://sourceforge.net/p/sbo/term-request/121/</link><description>Terms request for Event/Reaction representation in Reactome</description><dc:creator xmlns:dc="http://purl.org/dc/elements/1.1/">Vasundra Toure</dc:creator><pubDate>Wed, 15 Nov 2017 09:48:00 -0000</pubDate><guid>https://sourceforge.net/p/sbo/term-request/121/</guid></item><item><title>Varun Kothamachu posted a comment on ticket #63</title><link>https://sourceforge.net/p/sbo/term-request/63/?limit=25#c0ee</link><description>SBO:0000492 - amplitude with a parent SBO:0000002 - quantitative systems description parameter was created.</description><dc:creator xmlns:dc="http://purl.org/dc/elements/1.1/">Varun Kothamachu</dc:creator><pubDate>Tue, 26 Sep 2017 10:51:46 -0000</pubDate><guid>https://sourceforge.net/p/sbo/term-request/63/?limit=25#c0ee</guid></item><item><title>Varun Kothamachu modified ticket #79</title><link>https://sourceforge.net/p/sbo/term-request/79/</link><description>sbo terms for reaction rates</description><dc:creator xmlns:dc="http://purl.org/dc/elements/1.1/">Varun Kothamachu</dc:creator><pubDate>Tue, 26 Sep 2017 10:45:10 -0000</pubDate><guid>https://sourceforge.net/p/sbo/term-request/79/</guid></item><item><title>Varun Kothamachu modified a comment on ticket #79</title><link>https://sourceforge.net/p/sbo/term-request/79/?limit=25#cb4f</link><description>Closing this ticket as it has been dealt with in ticket #105</description><dc:creator xmlns:dc="http://purl.org/dc/elements/1.1/">Varun Kothamachu</dc:creator><pubDate>Tue, 26 Sep 2017 10:45:00 -0000</pubDate><guid>https://sourceforge.net/p/sbo/term-request/79/?limit=25#cb4f</guid></item><item><title>Varun Kothamachu posted a comment on ticket #79</title><link>https://sourceforge.net/p/sbo/term-request/79/?limit=25#cb4f</link><description>Closing this ticket as it has been dealt with in #105</description><dc:creator xmlns:dc="http://purl.org/dc/elements/1.1/">Varun Kothamachu</dc:creator><pubDate>Tue, 26 Sep 2017 10:44:48 -0000</pubDate><guid>https://sourceforge.net/p/sbo/term-request/79/?limit=25#cb4f</guid></item><item><title>Varun Kothamachu modified ticket #83</title><link>https://sourceforge.net/p/sbo/term-request/83/</link><description>refining SBO:0000475 - "periodic light forcing function"</description><dc:creator xmlns:dc="http://purl.org/dc/elements/1.1/">Varun Kothamachu</dc:creator><pubDate>Tue, 26 Sep 2017 10:31:50 -0000</pubDate><guid>https://sourceforge.net/p/sbo/term-request/83/</guid></item><item><title>Varun Kothamachu posted a comment on ticket #83</title><link>https://sourceforge.net/p/sbo/term-request/83/?limit=25#f0d1</link><description>ticket will be closed now due to no further comments or updates.</description><dc:creator xmlns:dc="http://purl.org/dc/elements/1.1/">Varun Kothamachu</dc:creator><pubDate>Tue, 26 Sep 2017 10:31:42 -0000</pubDate><guid>https://sourceforge.net/p/sbo/term-request/83/?limit=25#f0d1</guid></item><item><title>Varun Kothamachu modified ticket #89</title><link>https://sourceforge.net/p/sbo/term-request/89/</link><description>transport reaction direction</description><dc:creator xmlns:dc="http://purl.org/dc/elements/1.1/">Varun Kothamachu</dc:creator><pubDate>Tue, 26 Sep 2017 10:25:52 -0000</pubDate><guid>https://sourceforge.net/p/sbo/term-request/89/</guid></item><item><title>Varun Kothamachu posted a comment on ticket #89</title><link>https://sourceforge.net/p/sbo/term-request/89/?limit=25#d545</link><description>ticket will be closed now due to no further comments or updates.</description><dc:creator xmlns:dc="http://purl.org/dc/elements/1.1/">Varun Kothamachu</dc:creator><pubDate>Tue, 26 Sep 2017 10:25:42 -0000</pubDate><guid>https://sourceforge.net/p/sbo/term-request/89/?limit=25#d545</guid></item><item><title>Varun Kothamachu modified a comment on ticket #95</title><link>https://sourceforge.net/p/sbo/term-request/95/?limit=25#9424</link><description>Ticket will be closed as there has been no further discussion or update to these terms.</description><dc:creator xmlns:dc="http://purl.org/dc/elements/1.1/">Varun Kothamachu</dc:creator><pubDate>Mon, 25 Sep 2017 15:52:50 -0000</pubDate><guid>https://sourceforge.net/p/sbo/term-request/95/?limit=25#9424</guid></item><item><title>Varun Kothamachu modified ticket #95</title><link>https://sourceforge.net/p/sbo/term-request/95/</link><description>Sideproduct and sidesubstrate</description><dc:creator xmlns:dc="http://purl.org/dc/elements/1.1/">Varun Kothamachu</dc:creator><pubDate>Mon, 25 Sep 2017 15:52:32 -0000</pubDate><guid>https://sourceforge.net/p/sbo/term-request/95/</guid></item><item><title>Varun Kothamachu posted a comment on ticket #95</title><link>https://sourceforge.net/p/sbo/term-request/95/?limit=25#9424</link><description>Ticket closed as there has been no further discussion or update to these terms.</description><dc:creator xmlns:dc="http://purl.org/dc/elements/1.1/">Varun Kothamachu</dc:creator><pubDate>Mon, 25 Sep 2017 15:52:22 -0000</pubDate><guid>https://sourceforge.net/p/sbo/term-request/95/?limit=25#9424</guid></item><item><title>Varun Kothamachu modified ticket #96</title><link>https://sourceforge.net/p/sbo/term-request/96/</link><description>Reversible and irreversible reaction or process</description><dc:creator xmlns:dc="http://purl.org/dc/elements/1.1/">Varun Kothamachu</dc:creator><pubDate>Mon, 25 Sep 2017 15:15:20 -0000</pubDate><guid>https://sourceforge.net/p/sbo/term-request/96/</guid></item><item><title>Varun Kothamachu modified ticket #96</title><link>https://sourceforge.net/p/sbo/term-request/96/</link><description>Reversible and irreversible reaction or process</description><dc:creator xmlns:dc="http://purl.org/dc/elements/1.1/">Varun Kothamachu</dc:creator><pubDate>Mon, 25 Sep 2017 15:15:06 -0000</pubDate><guid>https://sourceforge.net/p/sbo/term-request/96/</guid></item><item><title>Varun Kothamachu modified a comment on ticket #96</title><link>https://sourceforge.net/p/sbo/term-request/96/?limit=25#f590</link><description>Created SBO:0000650 - reversible process and SBO:0000651 - irreversible process. Best, Varun</description><dc:creator xmlns:dc="http://purl.org/dc/elements/1.1/">Varun Kothamachu</dc:creator><pubDate>Mon, 25 Sep 2017 15:14:40 -0000</pubDate><guid>https://sourceforge.net/p/sbo/term-request/96/?limit=25#f590</guid></item><item><title>Varun Kothamachu modified a comment on ticket #96</title><link>https://sourceforge.net/p/sbo/term-request/96/?limit=25#f590</link><description>Created terms SBO:0000650 - reversible process and SBO:0000651 - irreversible process. Best, Varun</description><dc:creator xmlns:dc="http://purl.org/dc/elements/1.1/">Varun Kothamachu</dc:creator><pubDate>Mon, 25 Sep 2017 15:14:18 -0000</pubDate><guid>https://sourceforge.net/p/sbo/term-request/96/?limit=25#f590</guid></item><item><title>Varun Kothamachu posted a comment on ticket #96</title><link>https://sourceforge.net/p/sbo/term-request/96/?limit=25#f590</link><description>Created terms SBO:0000650 - reversible reaction and SBO:0000651 - irreversible reaction. Best, Varun</description><dc:creator xmlns:dc="http://purl.org/dc/elements/1.1/">Varun Kothamachu</dc:creator><pubDate>Mon, 25 Sep 2017 15:13:57 -0000</pubDate><guid>https://sourceforge.net/p/sbo/term-request/96/?limit=25#f590</guid></item><item><title>Varun Kothamachu modified ticket #97</title><link>https://sourceforge.net/p/sbo/term-request/97/</link><description>Enzymatic catalysis</description><dc:creator xmlns:dc="http://purl.org/dc/elements/1.1/">Varun Kothamachu</dc:creator><pubDate>Mon, 25 Sep 2017 14:38:05 -0000</pubDate><guid>https://sourceforge.net/p/sbo/term-request/97/</guid></item><item><title>Varun Kothamachu posted a comment on ticket #97</title><link>https://sourceforge.net/p/sbo/term-request/97/?limit=25#8251</link><description>Please have a look at the term for catalysis SBO:0000172. This can be useful for this purpose. Best, Varun</description><dc:creator xmlns:dc="http://purl.org/dc/elements/1.1/">Varun Kothamachu</dc:creator><pubDate>Mon, 25 Sep 2017 14:36:03 -0000</pubDate><guid>https://sourceforge.net/p/sbo/term-request/97/?limit=25#8251</guid></item></channel></rss>