Update model card

README.md

@@ -23,8 +23,12 @@ training, and evaluation instructions.
 ## Layout
 
 ```
-pathways/                              shared curated Reactome + Hallmark pathways
-cohorts/{cohort}/
+pathways/pathways_base_*.pkl           curated Reactome + Hallmark pathway graph
+raw_inputs/                            raw files for re-running preprocessing from scratch
+    Reactome/                          Reactome hierarchy files (GMT, relations, names)
+    Hallmark/                          MSigDB Hallmark gene sets
+    {cohort}/                          rna_clean.csv, clinical CSV, SurvPath splits
+cohorts/{cohort}/                      preprocessed cohort data and trained models
     gene_expression.csv                preprocessed expression matrix
     bipartite_graph.pt                 cohort-specific gene-pathway graph
     labels.csv                         survival times, events, and bins
@@ -57,8 +61,9 @@ snapshot_download(
 
 ```bibtex
 @article{protopathway2026,
-  title   = {ProtoPathway: Biologically Structured Prototype-Pathway Fusion for Multimodal Cancer Survival Prediction},
-  author  = {Amaya Gallagher-Syed, Costantino Pitzalis, Myles J. Lewis, Michael R. Barnes, Gregory Slabaugh},
+  title   = {ProtoPathway: Interpretable Multimodal Cancer Survival Prediction
+             via Prototype-Pathway Cross-Modal Attention},
+  author  = {...},
   year    = {2026}
 }
 ```