Merge pull request #147 from asapdiscovery/updates-2024-01-03

Update discovery programs, their statuses, and publications
asapdiscovery · Jan 4, 2024 · eeb250c · eeb250c
2 parents 38c8a1f + 820c26c
commit eeb250c
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diff --git a/content/outputs/publications/img/moonshot-paper-cover-mockup.jpg b/content/outputs/publications/img/moonshot-paper-cover-mockup.jpg
diff --git a/content/outputs/publications/img/science.abo7201-fa.jpg b/content/outputs/publications/img/science.abo7201-fa.jpg
diff --git a/content/pipeline/img/status/coronaviridae_paused.png b/content/pipeline/img/status/coronaviridae_paused.png
diff --git a/content/pipeline/img/status/coronaviridae_play.png b/content/pipeline/img/status/coronaviridae_play.png
diff --git a/content/pipeline/img/status/flaviviridae_paused.png b/content/pipeline/img/status/flaviviridae_paused.png
diff --git a/content/pipeline/img/status/flaviviridae_play.png b/content/pipeline/img/status/flaviviridae_play.png
diff --git a/content/pipeline/img/status/picornaviridae_paused.png b/content/pipeline/img/status/picornaviridae_paused.png
diff --git a/content/pipeline/img/status/picornaviridae_play.png b/content/pipeline/img/status/picornaviridae_play.png
diff --git a/content/pipeline/img/status/togaviridae_paused.png b/content/pipeline/img/status/togaviridae_paused.png
diff --git a/content/pipeline/img/status/togaviridae_play.png b/content/pipeline/img/status/togaviridae_play.png
diff --git a/content/pipeline/img/targets/enterovirus-VP1-capsid.png b/content/pipeline/img/targets/enterovirus-VP1-capsid.png
diff --git a/data/outputs/TCPs.yaml b/data/outputs/TCPs.yaml
@@ -1,6 +1,6 @@
 ASAP-COV-MPRO:
   permalink: http://asapdiscovery.org/outputs/target-candidate-profiles/#ASAP-TCP-COV-MPRO
-  name: MERS-CoV and SARS-CoV-2 Oral MPro protease inhibitor
+  name: MERS-CoV / SARS-CoV-2 MPro protease oral inhibitor
   type: Target Candidate Profile
   status: completed
   projects: [Project 5]
@@ -27,7 +27,7 @@ MOONSHOT-COV-MPRO:
 
 ASAP-SARS-COV-2-NSP3-MAC1:
   permalink: http://asapdiscovery.org/outputs/target-candidate-profiles/#ASAP-TCP-SARS-COV-2-NSP3-MAC1
-  name: SARS-CoV-2 Oral nsp3 Mac1 macrodomain inhibitor
+  name: SARS-CoV-2 nsp3 Mac1 macrodomain oral inhibitor
   type: Target Candidate Profile
   projects: [Project 3, Project 5]
   status: completed
@@ -40,25 +40,40 @@ ASAP-SARS-COV-2-NSP3-MAC1:
 
 ASAP-EVD68-3CLPRO:
   permalink: http://asapdiscovery.org/outputs/target-candidate-profiles/#ASAP-EVD68-3CLPRO
-  name: EV-D68/A71 Oral 3C protease inhibitor
+  name: EV-D68/A71 3C protease oral inhibitor
   type: Target Candidate Profile
   projects: [Project 3, Project 5]
   status: completed
   links:
   - name: Lead Transition Profile
     url: https://docs.google.com/presentation/d/1uZht18ZJnHuwMtwxY4prDBSl4SFMK-ics4ERhDgiJ2s/edit#slide=id.g2881a7b0765_4_0
   - name: Target Candidate Profile
-    url: https://docs.google.com/presentation/d/1uZht18ZJnHuwMtwxY4prDBSl4SFMK-ics4ERhDgiJ2s/edit#slide=id.g285bac68500_0_165
+    url: https://docs.google.com/presentation/d/1uZht18ZJnHuwMtwxY4prDBSl4SFMK-ics4ERhDgiJ2s/edit#slide=id.g285bac68500_0_427
   events:
     - date: 2023-06-22
       description: Initial drafts
 
+ASAP-EVD68-EVA71-VP1-CAPSID:
+  permalink: http://asapdiscovery.org/outputs/target-candidate-profiles/#ASAP-EVD68-EVA71-VP1-CAPSID
+  name: EV-D68/A71 VP1 capsid assembly oral inhibitor
+  type: Target Candidate Profile
+  projects: [Project 3, Project 5]
+  status: completed
+  links:
+  - name: Lead Transition Profile
+    url: https://docs.google.com/presentation/d/1uZht18ZJnHuwMtwxY4prDBSl4SFMK-ics4ERhDgiJ2s/edit#slide=id.g2a71abbb706_0_10
+  - name: Target Candidate Profile
+    url: https://docs.google.com/presentation/d/1uZht18ZJnHuwMtwxY4prDBSl4SFMK-ics4ERhDgiJ2s/edit#slide=id.g2a71abbb706_0_0
+  events:
+    - date: 2023-12-15
+      description: Initial drafts      
+
 ASAP-ZIKA-NS2B-NS3:
   permalink: http://asapdiscovery.org/outputs/target-candidate-profiles/#ASAP-ZIKA-NS2B-NS3
-  name: Target Candidate Profile Dengue & Zika NS2B-NS3 Protease Oral Community
+  name: DENV/ZIKV NS2B/3 protease oral inhibitor
   type: Target Candidate Profile
   projects: [Project 3, Project 5]
-  status: completed
+  status: draft
   links:
   - name: Target Candidate Profile
     url: https://docs.google.com/presentation/d/1uZht18ZJnHuwMtwxY4prDBSl4SFMK-ics4ERhDgiJ2s/edit#slide=id.g285bac68500_0_340

diff --git a/data/outputs/TPPs.yaml b/data/outputs/TPPs.yaml
@@ -44,12 +44,12 @@ ASAP-TPP-EVD68-PEDIATRIC:
   projects: [Project 6, Project 5]
   links:
   - name: Target Product Profile
-    url: https://docs.google.com/presentation/d/1uZht18ZJnHuwMtwxY4prDBSl4SFMK-ics4ERhDgiJ2s/edit#slide=id.g217bd676945_0_0
+    url: https://docs.google.com/presentation/d/1uZht18ZJnHuwMtwxY4prDBSl4SFMK-ics4ERhDgiJ2s/edit#slide=id.g285bac68500_0_417
   events:
     - date: 2023-03-08
       description: Initial draft
     - date: 2023-06-22
-      description: EV-D68 and EV-A71 combined TPP
+      description: Combined TPPs for EV-D68 and EV-A71
 
 ASAP-TPP-ZIKA:
   permalink: http://asapdiscovery.org/outputs/target-product-profile/#ASAP-TPP-ZIKA

diff --git a/data/programs/ASAP-COV-MPRO.yaml b/data/programs/ASAP-COV-MPRO.yaml
@@ -1,7 +1,7 @@
 overview:
   # viral family: one of ['coronaviridae', 'flaviviridae', 'picornaviridae', 'togaviridae']
   family: coronaviridae
-  name: "SARS-CoV-2 / MERS-CoV Mpro protease"
+  name: "MERS-CoV/SARS-CoV-2 Mpro protease"
   target: Mpro
   program_code: ASAPPTGTTM
   program_nickname: ASAP-COV-MPRO
@@ -35,8 +35,8 @@ assay_cascade:
   id: ASAP-ASSAY-COV-MPRO
 
 TEP:
-  # TODO: Can we pull the status rom the TEP itself?
-  status: in-progress
+  # TODO: Can we pull the status from the TEP itself?
+  status: completed
 
 hit_to_lead:
   status: completed
@@ -46,14 +46,11 @@ covalent_targeting:
   #url: https://covid.postera.ai/covid/activity_data
 
 lead_optimization:
-  status: in-progress
+  status: play
 
 molecules:
   status: in-progress
 
-publications:
-  status: completed
-
 
 
 

diff --git a/data/programs/ASAP-DENV-NS2B-NS3.yaml b/data/programs/ASAP-DENV-NS2B-NS3.yaml
@@ -1,12 +1,16 @@
 overview:
   # viral family: one of ['coronaviridae', 'flaviviridae', 'picornaviridae', 'togaviridae']
   family: flaviviridae
-  name: "Dengue NS2B-NS3 protease"
+  name: "DENV/ZIKV NS2B/3 protease"
   target: NS2B-NS3
-  program_code: ASAPPOWITW
-  program_nickname: ASAP-DENV-NS2B-NS3 
+  program_code: ASAPPADTOT
+  program_nickname: ASAP-DENV-ZIKA-NS2B-NS3 
   viruses:
-    - Dengue serotype 2
+    - DENV-1
+    - DENV-2
+    - DENV-3
+    - DENV-4
+    - ZIKV
   img: "DENV-ns2b-ns3.png"
 
 funding_source:  
@@ -18,6 +22,10 @@ funding_source:
 targeting_opportunity:
   status: completed
 
+# TODO: Share the Fitness Viewer and DMS data
+circulating_variants:
+  status: completed
+
 TPP:
   status: completed
   id: ASAP-TPP-DENV
@@ -26,6 +34,13 @@ TEP:
   # TODO: Can we pull the status rom the TEP itself?
   status: in-progress
 
+TCP:
+  status: completed
+  id: ASAP-ZIKA-NS2B-NS3
+
+hit_to_lead:
+  status: play
+
 assay_cascade:
   status: in-progress
   #url: https://covid.postera.ai/covid/activity_data

diff --git a/data/programs/ASAP-DENV-NS3-PROTEASE-HELICASE.yaml b/data/programs/ASAP-DENV-NS3-PROTEASE-HELICASE.yaml
diff --git a/data/programs/ASAP-EVD68-2APRO.yaml b/data/programs/ASAP-EVD68-2APRO.yaml
@@ -25,5 +25,6 @@ TPP:
   id: ASAP-TPP-EVD68-PEDIATRIC
 
 TEP:
-  status: not-started
+  status: play
+  id: ASAP-TEP-EVA71-2APRO
 
diff --git a/data/programs/ASAP-EVD68-3CLPRO.yaml b/data/programs/ASAP-EVD68-3CLPRO.yaml
@@ -24,7 +24,7 @@ TPP:
   id: ASAP-TPP-EVD68-PEDIATRIC
 
 TEP:
-  status: completed
+  status: not-started
 
 TCP:
   status: completed
@@ -35,7 +35,7 @@ assay_cascade:
   id: ASAP-ASSAY-EVD68-3CLPRO
 
 hit_to_lead:
-  status: in-progress
+  status: play
 
 molecules:
   status: in-progress

diff --git a/data/programs/ASAP-SARS-COV-2-ENDORIBONUCLEASE.yaml b/data/programs/ASAP-SARS-COV-2-ENDORIBONUCLEASE.yaml
@@ -27,7 +27,7 @@ TPP:
 
 TEP:
   # TODO: Can we pull the status rom the TEP itself?
-  status: in-progress
+  status: play
 
 publications:
   status: in-progress

diff --git a/data/programs/ASAP-SARS-COV-2-NPROTEIN.yaml b/data/programs/ASAP-SARS-COV-2-NPROTEIN.yaml
@@ -26,8 +26,18 @@ TPP:
   id: ASAP-TPP-SARS-CoV-2
 
 TEP:
-  status: in-progress
+  status: completed
+
+TCP:
+  status: completed
+  id: ASAP-TCP-SARS-COV-2-NPROTEIN
+
+assay_cascade:
+  status: completed
+  id: ASAP-ASSAY-SARS-COV-2-NPROTEIN
 
+hit_to_lead:
+  status: paused
 
 publications:
   status: in-progress
diff --git a/data/programs/ASAP-SARS-COV-2-NSP3-MAC1.yaml b/data/programs/ASAP-SARS-COV-2-NSP3-MAC1.yaml
@@ -30,19 +30,23 @@ TCP:
   id: ASAP-TCP-SARS-COV-2-NSP3-MAC1
 
 assay_cascade:
-  status: in-progress
+  status: completed
   id: ASAP-ASSAY-SARS-COV-2-NSP3-MAC1
 
 TEP:
   # TODO: Can we pull the status rom the TEP itself?
   status: completed
 
 hit_to_lead:
-  status: in-progress
+  status: completed
+  url: https://app.postera.ai/account/molecule-set/a8376db4-ed03-4a03-8a4d-30aa6a986827
+
+lead_optimization:
+  status: paused
   url: https://app.postera.ai/account/molecule-set/a8376db4-ed03-4a03-8a4d-30aa6a986827
 
 molecules:
-  status: in-progress
+  status: completed
 
 publications:
   status: in-progress

diff --git a/data/programs/ASAP-WNV-NS2B-NS3.yaml b/data/programs/ASAP-WNV-NS2B-NS3.yaml
diff --git a/data/programs/ASAP-WNV-NS3-PROTEASE-HELICASE.yaml b/data/programs/ASAP-WNV-NS3-PROTEASE-HELICASE.yaml
diff --git a/data/programs/ASAP-ZIKA-NS2B-NS3.yaml b/data/programs/ASAP-ZIKA-NS2B-NS3.yaml