diff --git a/pandasaurus_cxg/anndata_analyzer.py b/pandasaurus_cxg/anndata_analyzer.py
index d9a102d..47d111f 100644
--- a/pandasaurus_cxg/anndata_analyzer.py
+++ b/pandasaurus_cxg/anndata_analyzer.py
@@ -108,11 +108,12 @@ def co_annotation_report(
         """
         # Call the core method to generate the full DataFrame
         full_df = self._generate_co_annotation_dataframe(disease, enrich)
-
         # Return only the first 5 columns
         return full_df.iloc[:, :5]
 
-    def _generate_co_annotation_dataframe(self, disease: Optional[str] = None, enrich: bool = False):
+    def _generate_co_annotation_dataframe(
+        self, disease: Optional[str] = None, enrich: bool = False
+    ):
         """
         Core method to generate a full co-annotation dataframe.
 
@@ -171,7 +172,7 @@ def _generate_co_annotation_dataframe(self, disease: Optional[str] = None, enric
             for record in temp_result
         ]
         # unique_result = AnndataAnalyzer._remove_duplicates(result)
-        self.report_df = pd.DataFrame(
+        report_df = pd.DataFrame(
             [
                 inner_list[:2]
                 + inner_list[5:6]
@@ -190,6 +191,9 @@ def _generate_co_annotation_dataframe(self, disease: Optional[str] = None, enric
                 "field_name2_cell_count",
             ],
         )
+        self.report_df = report_df.sort_values(
+            ["field_name1", "value1", "predicate", "field_name2", "value2"]
+        ).reset_index(drop=True)
         return self.report_df
 
     def enriched_co_annotation_report(self, disease: Optional[str] = None):
diff --git a/pandasaurus_cxg/graph_generator/graph_generator.py b/pandasaurus_cxg/graph_generator/graph_generator.py
index ab9bee0..1f268f6 100644
--- a/pandasaurus_cxg/graph_generator/graph_generator.py
+++ b/pandasaurus_cxg/graph_generator/graph_generator.py
@@ -91,7 +91,42 @@ def generate_rdf_graph(self, merge: bool = False):
         """
         if len(self.graph) != 0:
             return
-        # preprocess
+
+        # generate dataset entity and has_source property
+        citation_dict = {}
+        uns = self.ea.enricher_manager.anndata.uns
+        if citation_field_name in uns.keys():
+            citation_dict = parse_citation_field_into_dict(uns[citation_field_name])
+            cxg_versioned_dataset_id = (
+                citation_dict.get("download_link").split("/")[-1].split(".")[0]
+            )
+            dataset_class = URIRef(get_cxg_dataset_url(cxg_versioned_dataset_id))
+        else:
+            # if citation_field_name doesn't exist we use random uuid as cxg_versioned_dataset_id
+            cxg_versioned_dataset_id = str(uuid.uuid4())
+            dataset_class = URIRef(self.ns[cxg_versioned_dataset_id])
+        self.graph.add((dataset_class, RDF.type, URIRef(DATASET.get("iri"))))
+        self.graph.add((dataset_class, RDFS.label, Literal(DATASET.get("label"))))
+        for key, value in uns.items():
+            if not isinstance(value, str):
+                continue
+            if key == citation_field_name:
+                for citation_key, citation_value in citation_dict.items():
+                    self.graph.add(
+                        (
+                            dataset_class,
+                            URIRef(self.ns[remove_special_characters(citation_key)]),
+                            Literal(citation_value),
+                        )
+                    )
+
+            self.graph.add(
+                (dataset_class, URIRef(self.ns[remove_special_characters(key)]), Literal(value))
+            )
+        has_source = URIRef(HAS_SOURCE["iri"])
+        self.graph.add((has_source, RDFS.label, Literal(HAS_SOURCE["label"])))
+
+        # preprocess for cell clusters
         column_group = ["field_name1", "value1"]
         df = self.df.sort_values(by=column_group).reset_index(drop=True)
         grouped_df = df.groupby(column_group)
@@ -124,38 +159,9 @@ def generate_rdf_graph(self, merge: bool = False):
                         ) else temp_dict.update({key: value})
 
             if temp_dict not in grouped_dict_uuid.values():
-                grouped_dict_uuid[str(uuid.uuid4())] = temp_dict
-
-        # generate dataset entity and has_source property
-        uns = self.ea.enricher_manager.anndata.uns
-        citation_dict = {}
-        if citation_field_name in uns.keys():
-            citation_dict = parse_citation_field_into_dict(uns[citation_field_name])
-            dataset_class = URIRef(
-                get_cxg_dataset_url(citation_dict.get("download_link").split("/")[-1].split(".")[0])
-            )
-        else:
-            dataset_class = URIRef(self.ns[str(uuid.uuid4())])
-        self.graph.add((dataset_class, RDF.type, URIRef(DATASET.get("iri"))))
-        self.graph.add((dataset_class, RDFS.label, Literal(DATASET.get("label"))))
-        for key, value in uns.items():
-            if not isinstance(value, str):
-                continue
-            if key == citation_field_name:
-                for citation_key, citation_value in citation_dict.items():
-                    self.graph.add(
-                        (
-                            dataset_class,
-                            URIRef(self.ns[remove_special_characters(citation_key)]),
-                            Literal(citation_value),
-                        )
-                    )
-
-            self.graph.add(
-                (dataset_class, URIRef(self.ns[remove_special_characters(key)]), Literal(value))
-            )
-        has_source = URIRef(HAS_SOURCE["iri"])
-        self.graph.add((has_source, RDFS.label, Literal(HAS_SOURCE["label"])))
+                grouped_dict_uuid[
+                    str(uuid.uuid5(uuid.UUID(cxg_versioned_dataset_id), str(temp_dict)))
+                ] = temp_dict
 
         # generate a resource for each free-text cell_type annotation and cell_type_ontology_term annotation
         cell_set_class = URIRef(CLUSTER.get("iri"))
diff --git a/poetry.lock b/poetry.lock
index 3dfe4fe..df10cd3 100644
--- a/poetry.lock
+++ b/poetry.lock
@@ -836,61 +836,61 @@ test = ["pytest"]
 
 [[package]]
 name = "fonttools"
-version = "4.55.0"
+version = "4.55.1"
 description = "Tools to manipulate font files"
 optional = false
 python-versions = ">=3.8"
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 name = "mccabe"
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 ]
 
 [[package]]
@@ -3903,13 +3917,13 @@ url = ["furl (>=0.4.1)"]
 
 [[package]]
 name = "sssom"
-version = "0.4.13"
+version = "0.4.14"
 description = "Operations on SSSOM mapping tables"
 optional = false
 python-versions = "<4.0.0,>=3.9"
 files = [
-    {file = "sssom-0.4.13-py3-none-any.whl", hash = "sha256:6cd521ed7039bb01ec117a68c0c2ccf1863b79a96b2f6300bb01a91f849c06e7"},
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+    {file = "sssom-0.4.14.tar.gz", hash = "sha256:97d09bbf4c4025b3977c26c846f517efeac06c4b852ade688b1c50224760f786"},
 ]
 
 [package.dependencies]
@@ -3945,13 +3959,43 @@ linkml-runtime = "*"
 
 [[package]]
 name = "tomli"
-version = "2.1.0"
+version = "2.2.1"
 description = "A lil' TOML parser"
 optional = false
 python-versions = ">=3.8"
 files = [
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-    {file = "tomli-2.1.0.tar.gz", hash = "sha256:3f646cae2aec94e17d04973e4249548320197cfabdf130015d023de4b74d8ab8"},
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+    {file = "tomli-2.2.1-cp313-cp313-win_amd64.whl", hash = "sha256:a38aa0308e754b0e3c67e344754dff64999ff9b513e691d0e786265c93583c69"},
+    {file = "tomli-2.2.1-py3-none-any.whl", hash = "sha256:cb55c73c5f4408779d0cf3eef9f762b9c9f147a77de7b258bef0a5628adc85cc"},
+    {file = "tomli-2.2.1.tar.gz", hash = "sha256:cd45e1dc79c835ce60f7404ec8119f2eb06d38b1deba146f07ced3bbc44505ff"},
 ]
 
 [[package]]
diff --git a/pyproject.toml b/pyproject.toml
index 8eade60..ae1f03c 100644
--- a/pyproject.toml
+++ b/pyproject.toml
@@ -1,6 +1,6 @@
 [tool.poetry]
 name = "pandasaurus-cxg"
-version = "0.2.2"
+version = "0.2.3"
 description = "Ontology enrichment tool for CxG standard AnnData files."
 authors = ["Ugur Bayindir <ugur@ebi.ac.uk>"]
 license = "http://www.apache.org/licenses/LICENSE-2.0"
diff --git a/test/graph_generator/test_graph_generator.py b/test/graph_generator/test_graph_generator.py
index 5fb9b01..98b068b 100644
--- a/test/graph_generator/test_graph_generator.py
+++ b/test/graph_generator/test_graph_generator.py
@@ -54,6 +54,107 @@ def graph_generator_instance_for_kidney(enrichment_analyzer_instance_for_kidney_
     return GraphGenerator(ea)
 
 
+@pytest.fixture()
+def expected_stable_ids():
+    return {
+        URIRef("http://example.org/6b8c6e7a-60e1-5272-bc96-6263fbcc5396"),
+        URIRef("http://example.org/6637426a-b650-5d93-abee-99e8e52e763e"),
+        URIRef("http://example.org/35a0d03d-7ce2-597e-8878-da67bb0b23b5"),
+        URIRef("http://example.org/026ea297-be37-54a4-933e-29279c5385f1"),
+        URIRef("http://example.org/d7d8ede3-841a-5b20-9cd3-d20a5aa4be63"),
+        URIRef("http://example.org/70d96be3-736b-58c9-b8d8-ab57a1535698"),
+        URIRef("http://example.org/040a09dc-9219-5812-8f0b-112935b0f21c"),
+        URIRef("http://example.org/f28734b4-1c97-54a1-890f-0086dacbd7a3"),
+        URIRef("http://example.org/61a31377-a156-538c-b24f-f0f4ec0c55bc"),
+        URIRef("http://example.org/e239d685-8130-5260-a1cc-cae8875b916e"),
+        URIRef("http://example.org/0e6fba5e-4d94-51ec-a413-7c4ff8b0192d"),
+        URIRef("http://example.org/febe1fce-f128-5214-9acc-c98b1dc032d0"),
+        URIRef("http://example.org/a584510c-57c1-5341-80c4-25e2357fb1cb"),
+        URIRef("http://example.org/4aedaf72-be05-57a4-ad83-357742650904"),
+        URIRef("http://example.org/910c088b-0f76-5440-b4af-4c5d1c575b6c"),
+        URIRef("http://example.org/db34b5c9-921d-52bc-8f09-3393784fdd76"),
+        URIRef("http://example.org/2e6aaf57-616b-5bc1-95e3-be985c9efddc"),
+        URIRef("http://example.org/74b615a3-ced3-5cc3-9b34-6805b84c80cc"),
+        URIRef("http://example.org/dd578556-05ed-59f6-b734-fb1bba5b3d67"),
+        URIRef("http://example.org/7ae9cc3e-c9d4-5072-bb23-73703abbd61f"),
+        URIRef("http://example.org/e215cbb5-ce0c-51b5-b146-06cac99d1d00"),
+        URIRef("http://example.org/2bb80824-e368-5127-a5b0-512f4b495c14"),
+        URIRef("http://example.org/38df699e-26e6-558f-a0c8-b6df9211adee"),
+        URIRef("http://example.org/df2bb7b4-7154-52e4-8c02-13e8b8b43250"),
+        URIRef("http://example.org/ffbacf1a-59f6-5aa2-bbf0-2327afa969a7"),
+        URIRef("http://example.org/443b83af-ae41-5879-94fe-de7093ece241"),
+        URIRef("http://example.org/85360cdc-6cff-52ac-b0bc-4b6f0b5fd5b3"),
+        URIRef("http://example.org/409cb2da-d9d5-52f9-b1c1-af5a08ea6295"),
+        URIRef("http://example.org/caf45aa6-2c7d-5ce4-9f46-2acb6c5a305f"),
+        URIRef("http://example.org/daafa670-cc22-56dc-8fb3-3fba2390a350"),
+        URIRef("http://example.org/b5687b1f-be71-5b31-914a-2070a129297b"),
+        URIRef("http://example.org/1c4a6bb0-63d7-5102-813a-0e6378244a34"),
+        URIRef("http://example.org/7ae5fcb4-5df8-5214-a150-2cfc6fa5c06c"),
+        URIRef("http://example.org/646ca9dd-ffc6-5fb7-859b-3bbac7dbbdca"),
+        URIRef("http://example.org/710ab24d-e2ed-56ee-855a-9ff086cb8a97"),
+        URIRef("http://example.org/2c20973f-10c8-5ca4-8623-64e38d98458e"),
+        URIRef("http://example.org/52e3fa21-f1ed-5ef7-b47e-5c4b875e18c2"),
+        URIRef("http://example.org/ab520336-e633-5c4e-8086-c7e4e281a3fc"),
+        URIRef("http://example.org/16b614ec-f0f1-5cc2-931d-2e8465b237ce"),
+        URIRef("http://example.org/1ed21fba-45d3-5b43-93c0-0f9b27490b00"),
+        URIRef("http://example.org/f1d3abc5-a927-5371-a3a2-61f35dc69ff2"),
+        URIRef("http://example.org/a8682c5b-f4f1-5baf-9a7a-5987bbd678b9"),
+        URIRef("http://example.org/f2ce8660-15be-5fbb-a53e-e43df111b5bf"),
+        URIRef("http://example.org/511e7f73-91f2-5067-9dd4-f76b6ca093c7"),
+        URIRef("http://example.org/943de3dd-3168-5e81-9e1a-298c1952ca31"),
+        URIRef("http://example.org/51aef30d-c8f7-5d17-abcd-2c5bd3ba8570"),
+        URIRef("http://example.org/0e116e68-2d16-56c3-9a38-43ae82834333"),
+        URIRef("http://example.org/9652d787-b02c-521a-9374-a46295cd47dc"),
+        URIRef("http://example.org/5bad5df9-d070-5403-a558-154b4e95168c"),
+        URIRef("http://example.org/72a14bbd-7dbf-5f08-8f5b-cb5e778b239c"),
+        URIRef("http://example.org/3f8e56f4-adde-564f-8274-b84df593873b"),
+        URIRef("http://example.org/2f73506d-024a-572a-a202-08cf6222e5c6"),
+        URIRef("http://example.org/9aaff9c9-a276-5260-bd7b-f570c4f4ac0a"),
+        URIRef("http://example.org/c667ad1d-82f9-5b21-8bae-539a9e6d85d1"),
+        URIRef("http://example.org/d549505a-3770-50f3-8af1-7f81035343a0"),
+        URIRef("http://example.org/b87d3e84-20a3-50b1-87e2-f2ef66c505ba"),
+        URIRef("http://example.org/ba2ee8d3-47a9-54c1-b14c-d1c92b905bb4"),
+        URIRef("http://example.org/c4e5e19b-3440-5453-ae53-ac9d12348784"),
+        URIRef("http://example.org/78914c73-b50b-5dd8-85f0-0af2b6584458"),
+        URIRef("http://example.org/2b302895-6be3-5953-be23-2e51015ae18e"),
+        URIRef("http://example.org/c99bfa83-ca47-58e6-9007-e984b17fc73d"),
+        URIRef("http://example.org/177d7178-f313-5cc6-a31c-7207893a4d9a"),
+        URIRef("http://example.org/c82e2caf-10c2-5ca2-822d-1c7e8fe60ac6"),
+        URIRef("http://example.org/57fccc58-dc4c-5c18-b846-35e4a464f31a"),
+        URIRef("http://example.org/3cf3e135-a988-52ac-aaae-bbf68ec3e059"),
+        URIRef("http://example.org/f6cbfed7-3643-5907-a772-142902cfbcc5"),
+        URIRef("http://example.org/2f7b8d0e-0fe0-5262-8218-2cee932617c4"),
+        URIRef("http://example.org/2a1a7dd5-2344-5553-8c35-3c4ea7541e60"),
+        URIRef("http://example.org/f598ef7d-b1c0-577d-9b73-7e9ae386d360"),
+        URIRef("http://example.org/f9fdf3a4-82d7-5252-a209-755e69f12d01"),
+        URIRef("http://example.org/07f0f2d0-3cf4-5a3a-8d05-dd9207a02a4d"),
+        URIRef("http://example.org/a0d7cd01-04b2-539c-b729-21bc12cb18db"),
+        URIRef("http://example.org/f472ede6-934f-5d16-a5ab-50fec5bea633"),
+        URIRef("http://example.org/f9a44ae3-3b9f-5ed2-aee4-efeeccc1621c"),
+        URIRef("http://example.org/fb25afeb-5c06-50c7-9334-577d898b800a"),
+        URIRef("http://example.org/5979f500-3479-5ffb-9f04-4ae819a5972e"),
+        URIRef("http://example.org/2a41fbaf-96f2-554f-b6ce-730279320ca6"),
+        URIRef("http://example.org/f7e68907-b939-522e-b180-93695ae29d7e"),
+        URIRef("http://example.org/4956d317-f11d-563e-91dc-2f582bd25ec4"),
+        URIRef("http://example.org/7c45b81c-590a-54ed-90e2-3ea74baee514"),
+        URIRef("http://example.org/c8cfedf2-9bfe-5c5f-a58f-b7d641d62005"),
+        URIRef("http://example.org/583af61e-9c09-5f34-b8aa-8dfd31845521"),
+        URIRef("http://example.org/bf6ce9ee-02d0-5c27-b2ab-99ec3b27b835"),
+        URIRef("http://example.org/a0a64307-92df-5f08-9a0f-65bafa0ac9cb"),
+        URIRef("http://example.org/c96bd95d-3274-582d-b306-26643f43920f"),
+        URIRef("http://example.org/e9c3bd54-68ff-5ff9-909e-24a347bc00c1"),
+        URIRef("http://example.org/fc9e7a46-3dd2-5abc-acbb-2803c1b0cee2"),
+        URIRef("http://example.org/0e2d71c1-2be3-5add-8e31-a6138b03ab10"),
+        URIRef("http://example.org/caeac903-9a94-5f8e-a84e-8d67f3c7a549"),
+        URIRef("http://example.org/0ad4689d-b35a-5c69-8cc4-4c88f602b74d"),
+        URIRef("http://example.org/845ffc96-dce4-5716-9fcf-6e161b83c1bd"),
+        URIRef("http://example.org/9d841256-fc35-58b8-92a1-b327e9be2be6"),
+        URIRef("http://example.org/3b747ebd-1c94-5e03-9514-e3c10195e746"),
+        URIRef("http://example.org/4d0626e4-f2c8-53ec-83dd-794fd44ab20a"),
+        URIRef("http://example.org/43aa9f66-d61b-59b2-a059-bdb03aaa082c"),
+    }
+
+
 def test_graph_generator_init_missing_analysis_process(
     enrichment_analyzer_instance_for_immune_data,
 ):
@@ -87,10 +188,18 @@ def test_graph_generator_init_with_valid_input(enrichment_analyzer_instance_for_
     assert graph_generator.label_priority is None
 
 
-def test_generate_rdf_graph_with_merge(graph_generator_instance_for_kidney):
+def test_generate_rdf_graph_with_merge(graph_generator_instance_for_kidney, expected_stable_ids):
     graph_generator = graph_generator_instance_for_kidney
     graph_generator.generate_rdf_graph(merge=True)
-    assert len(graph_generator.graph) == 743
+    assert (
+        set(
+            graph_generator.graph.subjects(
+                predicate=RDF.type, object=URIRef("http://purl.obolibrary.org/obo/PCL_0010001")
+            )
+        )
+        == expected_stable_ids
+    )
+    assert len(graph_generator.graph) == 747
     assert (
         len([[s, p, o] for s, p, o in graph_generator.graph.triples((None, RDF.type, None))]) == 146
     )
@@ -132,7 +241,7 @@ def test_generate_rdf_graph_with_merge(graph_generator_instance_for_kidney):
 def test_generate_rdf_graph_without_merge(graph_generator_instance_for_kidney):
     graph_generator = graph_generator_instance_for_kidney
     graph_generator.generate_rdf_graph()
-    assert len(graph_generator.graph) == 2173
+    assert len(graph_generator.graph) == 2177
     assert (
         len([[s, p, o] for s, p, o in graph_generator.graph.triples((None, RDF.type, None))]) == 312
     )
@@ -161,11 +270,11 @@ def test_enrich_rdf_graph_with_merge(graph_generator_instance_for_kidney):
     graph_generator = graph_generator_instance_for_kidney
     graph_generator.generate_rdf_graph(merge=True)
 
-    assert len(graph_generator.graph) == 743
+    assert len(graph_generator.graph) == 747
 
     graph_generator.enrich_rdf_graph()
 
-    assert len(graph_generator.graph) == 1242
+    assert len(graph_generator.graph) == 1246
     assert (
         URIRef(CONSIST_OF.get("iri")),
         RDFS.label,
@@ -190,11 +299,11 @@ def test_enrich_rdf_graph_without_merge(graph_generator_instance_for_kidney):
     graph_generator = graph_generator_instance_for_kidney
     graph_generator.generate_rdf_graph()
 
-    assert len(graph_generator.graph) == 2173
+    assert len(graph_generator.graph) == 2177
 
     graph_generator.enrich_rdf_graph()
 
-    assert len(graph_generator.graph) == 2672
+    assert len(graph_generator.graph) == 2676
 
 
 def test_save_rdf_graph(graph_generator_instance_for_kidney):