diff --git a/src/requirements-dev.txt b/src/requirements-dev.txt
index eaf0f3a922..85f335bd7c 100644
--- a/src/requirements-dev.txt
+++ b/src/requirements-dev.txt
@@ -1,7 +1,7 @@
-coverage==7.6.12
-pytest==8.3.4
-pytest-cov==6.0.0
-pytest-recording==0.13.2
+coverage==7.11.0
+pytest==8.4.2
+pytest-cov==7.0.0
+pytest-recording==0.13.4
 requests-mock==1.12.1
-ruff==0.9.9
+ruff==0.14.3
 vcrpy==7.0.0
diff --git a/src/requirements.txt b/src/requirements.txt
index f57d4fbb42..0a2142ea36 100644
--- a/src/requirements.txt
+++ b/src/requirements.txt
@@ -1,52 +1,52 @@
 appdirs==1.4.4
-beautifulsoup4==4.13.3
-biopython==1.85
-bokeh==3.6.2
-certifi==2025.1.31
+beautifulsoup4==4.14.2
+biopython==1.86
+bokeh==3.8.0
+certifi==2025.10.5
 chardet==5.2.0
 chart_studio==1.1.0
-cryptography==44.0.1
+cryptography==46.0.3
 decorator==5.2.1
 ete3==3.1.3
 html5lib==1.1
-idna==3.10
-jsonschema==4.23.0
-markdown==3.7
-markupsafe==3.0.2
+idna==3.11
+jsonschema==4.25.1
+markdown==3.9
+markupsafe==3.0.3
 ndg-httpsclient==0.5.1
-networkx==3.4.2
-numpy==2.2.3
+networkx==3.5
+numpy==2.3.4
 pexpect==4.9.0
 pickleshare==0.7.5
-pillow==11.1.0
-plotly==5.24.1
+pillow==12.0.0
+plotly==6.3.1
 pyasn1==0.6.1
-pycurl==7.45.4
-pygments==2.19.1
-pyopenssl==25.0.0
+pycurl==7.45.7
+pygments==2.19.2
+pyopenssl==25.3.0
 python-daemon==3.1.2
 python-dateutil==2.9.0.post0
 qgrid==1.3.1
-rsa==4.9
-scipy==1.15.2
+rsa==4.9.1
+scipy==1.16.3
 seaborn==0.13.2
-setuptools==75.8.2
+setuptools==80.9.0
 six==1.17.0
-sympy==1.13.3
+sympy==1.14.0
 terminado==0.18.1
 wordcloud==1.9.4
 
 # Narrative/Jupyter requirements
 clustergrammer2==0.18.0
-ipython==8.33.0
-ipywidgets==8.1.5
-jinja2==3.1.5
+ipython==9.6.0
+ipywidgets==8.1.7
+jinja2==3.1.6
 # N.b. notebook version must stay under 7
 notebook==6.5.7
-pandas==2.2.3
-pymongo==4.11.1
-pyyaml==6.0.2
-requests==2.32.3
-scikit-learn==1.6.1
-statsmodels==0.14.4
-tornado==6.4.2
+pandas==2.3.3
+pymongo==4.15.3
+pyyaml==6.0.3
+requests==2.32.5
+scikit-learn==1.7.2
+statsmodels==0.14.5
+tornado==6.5.2