diff --git a/.pre-commit-config.yaml b/.pre-commit-config.yaml
index 6855c3159..29ccabc36 100644
--- a/.pre-commit-config.yaml
+++ b/.pre-commit-config.yaml
@@ -9,7 +9,7 @@ repos:
     -   id: check-yaml
     -   id: check-added-large-files
 -   repo: https://github.com/psf/black
-    rev: 24.10.0
+    rev: 25.1.0
     hooks:
     - id: black
 -   repo: https://github.com/pre-commit/pre-commit-hooks
@@ -17,6 +17,6 @@ repos:
     hooks:
     - id: flake8
 -   repo: https://github.com/pycqa/isort
-    rev: 5.13.2
+    rev: 6.0.0
     hooks:
     - id: isort
diff --git a/graphein/ml/conversion.py b/graphein/ml/conversion.py
index 2cb013d04..993c96266 100644
--- a/graphein/ml/conversion.py
+++ b/graphein/ml/conversion.py
@@ -1,5 +1,4 @@
-"""Utilities for converting Graphein Networks to Geometric Deep Learning formats.
-"""
+"""Utilities for converting Graphein Networks to Geometric Deep Learning formats."""
 
 # %%
 # Graphein
diff --git a/graphein/molecule/utils.py b/graphein/molecule/utils.py
index 4be3ed9e0..193a542fa 100644
--- a/graphein/molecule/utils.py
+++ b/graphein/molecule/utils.py
@@ -337,7 +337,7 @@ def get_mol_weight(mol: Union[nx.Graph, Chem.Mol]) -> float:
 
 @requires_python_libs("rdkit")
 def get_qed_score(
-    mol: Union[nx.Graph, rdkit.Chem.rdchem.Mol]
+    mol: Union[nx.Graph, rdkit.Chem.rdchem.Mol],
 ) -> Union[float, None]:
     """Computes the Quantitative Estimate of Druglikeness (QED) score for a molecule or molecular graph.
 
diff --git a/graphein/rna/nussinov.py b/graphein/rna/nussinov.py
index 5c5a8d00b..7db836b05 100644
--- a/graphein/rna/nussinov.py
+++ b/graphein/rna/nussinov.py
@@ -1,5 +1,5 @@
 """Nussinov algorithm for computing RNA secondary structure adopted from
-adopted from https://github.com/cgoliver/Nussinov/blob/master/nussinov.py """
+adopted from https://github.com/cgoliver/Nussinov/blob/master/nussinov.py"""
 
 # %%
 # Graphein
diff --git a/graphein/utils/utils.py b/graphein/utils/utils.py
index 700eda56f..8f2500a87 100644
--- a/graphein/utils/utils.py
+++ b/graphein/utils/utils.py
@@ -358,7 +358,7 @@ def ping(host: str) -> bool:
 
 
 def parse_aggregation_type(
-    aggregation_type: Literal["sum", "mean", "max", "min", "median"]
+    aggregation_type: Literal["sum", "mean", "max", "min", "median"],
 ) -> Callable:
     """Returns an aggregation function by name