diff --git a/cpp/bench/prims/neighbors/cagra_bench.cuh b/cpp/bench/prims/neighbors/cagra_bench.cuh
index bb405088bb..c534d12c63 100644
--- a/cpp/bench/prims/neighbors/cagra_bench.cuh
+++ b/cpp/bench/prims/neighbors/cagra_bench.cuh
@@ -20,6 +20,7 @@
 #include <raft/neighbors/cagra.cuh>
 #include <raft/random/rng.cuh>
 #include <raft/util/itertools.hpp>
+#include <thrust/sequence.h>
 
 #include <optional>
 
@@ -40,6 +41,8 @@ struct params {
   int block_size;
   int search_width;
   int max_iterations;
+  /** Ratio of removed indices. */
+  double removed_ratio;
 };
 
 template <typename T, typename IdxT>
@@ -49,7 +52,8 @@ struct CagraBench : public fixture {
       params_(ps),
       queries_(make_device_matrix<T, int64_t>(handle, ps.n_queries, ps.n_dims)),
       dataset_(make_device_matrix<T, int64_t>(handle, ps.n_samples, ps.n_dims)),
-      knn_graph_(make_device_matrix<IdxT, int64_t>(handle, ps.n_samples, ps.degree))
+      knn_graph_(make_device_matrix<IdxT, int64_t>(handle, ps.n_samples, ps.degree)),
+      removed_indices_(make_device_vector<IdxT, int64_t>(handle, ps.removed_ratio * ps.n_samples))
   {
     // Generate random dataset and queriees
     raft::random::RngState state{42};
@@ -74,8 +78,14 @@ struct CagraBench : public fixture {
 
     auto metric = raft::distance::DistanceType::L2Expanded;
 
-    index_.emplace(raft::neighbors::cagra::index<T, IdxT>(
-      handle, metric, make_const_mdspan(dataset_.view()), make_const_mdspan(knn_graph_.view())));
+    auto index = raft::neighbors::cagra::index<T, IdxT>(
+      handle, metric, make_const_mdspan(dataset_.view()), make_const_mdspan(knn_graph_.view()));
+    thrust::sequence(
+      resource::get_thrust_policy(handle),
+      thrust::device_pointer_cast(removed_indices_.data_handle()),
+      thrust::device_pointer_cast(removed_indices_.data_handle() + removed_indices_.extent(0)));
+    raft::neighbors::cagra::remove(handle, index, raft::make_const_mdspan(removed_indices_.view()));
+    index_.emplace(std::move(index));
   }
 
   void run_benchmark(::benchmark::State& state) override
@@ -120,6 +130,7 @@ struct CagraBench : public fixture {
     state.counters["block_size"]    = params_.block_size;
     state.counters["search_width"]  = params_.search_width;
     state.counters["iterations"]    = iterations;
+    state.counters["removed_ratio"] = params_.removed_ratio;
   }
 
  private:
@@ -128,6 +139,7 @@ struct CagraBench : public fixture {
   raft::device_matrix<T, int64_t, row_major> queries_;
   raft::device_matrix<T, int64_t, row_major> dataset_;
   raft::device_matrix<IdxT, int64_t, row_major> knn_graph_;
+  raft::device_vector<IdxT, int64_t> removed_indices_;
 };
 
 inline const std::vector<params> generate_inputs()
@@ -141,7 +153,8 @@ inline const std::vector<params> generate_inputs()
                                            {64},                   // itopk_size
                                            {0},                    // block_size
                                            {1},                    // search_width
-                                           {0}                     // max_iterations
+                                           {0},                    // max_iterations
+                                           {0.0}                   // removed_ratio
     );
   auto inputs2 = raft::util::itertools::product<params>({2000000ull, 10000000ull},  // n_samples
                                                         {128},                      // dataset dim
@@ -151,7 +164,22 @@ inline const std::vector<params> generate_inputs()
                                                         {64},  // itopk_size
                                                         {64, 128, 256, 512, 1024},  // block_size
                                                         {1},                        // search_width
-                                                        {0}  // max_iterations
+                                                        {0},   // max_iterations
+                                                        {0.0}  // removed_ratio
+  );
+  inputs.insert(inputs.end(), inputs2.begin(), inputs2.end());
+
+  inputs2 = raft::util::itertools::product<params>(
+    {2000000ull},                              // n_samples
+    {128},                                     // dataset dim
+    {1000},                                    // n_queries
+    {32},                                      // k
+    {64},                                      // knn graph degree
+    {64},                                      // itopk_size
+    {128, 256},                                // block_size
+    {2},                                       // search_width
+    {0},                                       // max_iterations
+    {0.0, 0.02, 0.04, 0.08, 0.16, 0.32, 0.64}  // removed_ratio
   );
   inputs.insert(inputs.end(), inputs2.begin(), inputs2.end());
   return inputs;