diff --git a/pkgs/applications/science/misc/cytoscape/default.nix b/pkgs/applications/science/misc/cytoscape/default.nix
index 6b13d969bdd7..d36b0f0b4d93 100644
--- a/pkgs/applications/science/misc/cytoscape/default.nix
+++ b/pkgs/applications/science/misc/cytoscape/default.nix
@@ -2,11 +2,11 @@
 
 stdenv.mkDerivation rec {
   name = "cytoscape-${version}";
-  version = "3.4.0";
+  version = "3.5.1";
 
   src = fetchurl {
     url = "http://chianti.ucsd.edu/${name}/${name}.tar.gz";
-    sha256 = "065fsqa01w7j85nljwwc0677lfw112xphnyn1c4hb04166q082p2";
+    sha256 = "1dvv0f7sc7q7lwmpd7xkcx86dd8lxh2il3wiwkij44gh7ni1qkfm";
   };
 
   buildInputs = [jre makeWrapper];