65e4ffda81e8925e2f5a45629769fc95472e3b95
brianlee
  Wed May 21 15:46:28 2025 -0700
SSPsyGene Broad ADGC4 timeline update per NIMH Milestone responses 2025

diff --git src/hg/cirm/gateway/htdocs/sspsygeneTimeline.html src/hg/cirm/gateway/htdocs/sspsygeneTimeline.html
index 48625c3fdf1..6f87b66a60a 100755
--- src/hg/cirm/gateway/htdocs/sspsygeneTimeline.html
+++ src/hg/cirm/gateway/htdocs/sspsygeneTimeline.html
@@ -199,53 +199,57 @@
       <pre class="mermaid">    
         gantt
         dateFormat  YYYY-MM-DD
         axisFormat  %Y-Q%q
         title       ADGC4  Broad
 
         section Grant Year
         Start Grant Year 2     :milestone, m1, 2024-03-31, 0d
         Start Grant Year 3     :milestone, m1, 2025-03-31, 0d
         Start Grant Year 4     :milestone, m1, 2026-03-31, 0d
         Start Grant Year 5     :milestone, m1, 2027-04-01, 0d
 
         section Aim 1
         Performed pilot morpholgy screen in 20 genes : done, IVt1, 2024-01-01,13w
         Perform perturb-seq screen of ~150 genes in 4 cell types : IVt2, 2024-04-01,52w
-        Develop protocol for scaling up screen size : IVt5, 2024-04-01,52w
-        Validation of initial 20 gene morphological screen : IVt3, 2024-04-01,52w
-        Submit image dataset of 40 TB : crit, IVt4, after IVt3,3w 
-        Submit image dataset of 40 TB : crit, IVt6, 2026-03-15,3w
-        Submit image dataset of 80 TB : crit, IVt7, 2027-03-15,3w 
+        Submit 100,000 scRNA-seq profiles per cell type (fastq) - PARTIALLY COMPLETE (191 GENES, 3 CELL TYPES)/ TRANSFER STARTED : crit, IVt2b, after IVt2,3w
+        Submit 100,000 scRNA-seq profiles per cell type (fastq) of 191 genes in 3 cell types : crit, IVt2_year4, 2026-03-15,3w
+        Develop protocol for scaling up screen size : done, IVt5, 2024-04-01,52w
+        Validation of initial 20 gene morphological screen : done, IVt3, 2024-04-01,52w
+        Submit image dataset of 40 TB - DONE, DATA TRANSFER STARTED : crit, IVt4, after IVt3,3w
+        Submit image dataset of 120 TB (443 genes in 3 cells 5 million profiles) : crit, IVt6, 2026-03-15,3w
+        Submit remaining image datasets : crit, IVt7, 2027-03-15,3w
 
         section Aim 2
         Developed Perturb-FISH screens : done, IVt8, 2024-01-01,13w
-        Perform perturb-seq screen of ~150 genes in 4 cell types : IVt9, 2024-04-01,52w
-        Perform Perturb-FISH screen of ASD genes in iPS derived astrocytes : IVt10, 2024-04-01, 52w
-        Submit 50 TB of calcium imaging and MERFISH data :crit, IVt11, after IVt10, 3w
-        Perform pilot 10 gene electrophysiology screen : IVt12, 2024-04-01,52w
-        Submit 5 TB of optical electrophysiology data : crit,  IVt13, after IVt12, 3w
+        Perform perturb-seq screen of ~150 genes in 4 cell types - PARTIALLY COMPLETE : IVt9, 2024-04-01,52w
+        Submit 100,000 scRNA-seq profiles per cell type of 191 genes in 3 cell types (fastq) : crit, IVt9b_year4, 2026-03-15,3w
+        Perform Perturb-FISH screen of ASD genes in iPS derived astrocytes : done, IVt10, 2024-04-01, 52w
+        Submit 50 TB of calcium imaging and MERFISH data : done, IVt11, after IVt10, 3w
+        Perform pilot 10 gene electrophysiology screen - PARTIALLY COMPLETE : IVt12, 2024-04-01,52w
+        Submit 5 TB of optical electrophysiology data - DATA QUALITY BEING ASSESSED : crit,  IVt13, after IVt12, 3w
         Submit 5 TB of optical electrophysiology data : crit,  IVt14, 2026-03-15,3w
-        Submit 5 TB of optical electrophysiology data : crit,  IVt15, 2027-03-15,3w
+        Submit remaining optical electrophysiology data : crit,  IVt15, 2027-03-15,3w
 
         section Aim 3
-        Perform census-seq screen of 40 line village RNA-seq : IVt16, 2024-04-01,52w
-        Submit census-seq RNA-seq profiles : crit, IVt16b, after IVt16, 3w
-        Submit 2 TB of morphology imaging : crit, IVt17, 2026-03-15,3w
-        Submit 2 TB of optical ephys : crit, IVt18, 2026-03-15,3w
-        Submit 2 TB of morphology imaging : crit, IVt19, 2027-03-15,3w
-        Submit 2 TB of optical ephys : crit, IVt20, 2027-03-15,3w
+        Perform scRNAseq (dropulation) screen of ~40 line village of CIRM lines  - PARTIALLY COMPLETE : IVt16, 2024-04-01,52w
+        Submit RNA-seq profiles - ANALYSIS / SUBMISSION UNDERWAY : crit, IVt16b, after IVt16, 3w
+        Submit RNA-seq profiles from >10,000 cells : crit, IVt17, 2026-03-15,3w
+        Submit remaining RNA-seq profiles : crit, IVt17_yearEnd, 2027-03-15,3w
+        Morphological profiles of ~40 line village of CIRM lines : IVt18a, 2025-04-01,52w
+        Submit ~10 TB of associated images to DRACC : crit, IVt18b, after IVt18a,3w
+        Submit remaining morphology imaging : crit, IVt19, 2027-03-15,3w
 
       </pre>
     </div>
   </div>
     <a name="ADGC5"></a>
     <!-- Start of ADGC5 Henry Gantt Chart-->
   <div class="cirm-page-title back-light-blue"><h5 class="cirm-page-title-text">ADGC5 Scripps/Broad timeline</h5></div>
   <div class="row">
     <div class="col-md-12">
       <pre class="mermaid">
         gantt
         dateFormat  YYYY-MM-DD
         axisFormat  %Y-Q%q
         title       ADGC5  Scripps/Broad