diff --git a/Dockerfile.dataset_submissions b/Dockerfile.dataset_submissions
index aa93bf98b8cf1..56982f53e3472 100644
--- a/Dockerfile.dataset_submissions
+++ b/Dockerfile.dataset_submissions
@@ -1,4 +1,4 @@
-FROM public.ecr.aws/lambda/python:3.9
+FROM public.ecr.aws/lambda/python:3.12
 
 COPY backend/layers/processing/submissions .
 COPY backend/layers ./backend/layers
diff --git a/Dockerfile.upload_failures b/Dockerfile.upload_failures
index 357ee64a7fbe7..4d5e3e3a57585 100644
--- a/Dockerfile.upload_failures
+++ b/Dockerfile.upload_failures
@@ -1,4 +1,4 @@
-FROM public.ecr.aws/lambda/python:3.8
+FROM public.ecr.aws/lambda/python:3.12
 
 COPY backend/layers/processing/upload_failures .
 COPY backend/layers ./backend/layers
diff --git a/Dockerfile.upload_success b/Dockerfile.upload_success
index a4d48307f65b9..6927588113c4a 100644
--- a/Dockerfile.upload_success
+++ b/Dockerfile.upload_success
@@ -1,4 +1,4 @@
-FROM public.ecr.aws/lambda/python:3.8
+FROM public.ecr.aws/lambda/python:3.12
 
 COPY backend/layers/processing/upload_failures backend/layers/processing/upload_failures
 COPY backend/layers/processing/upload_success .
diff --git a/python_dependencies/processing/requirements.txt b/python_dependencies/processing/requirements.txt
index 5396acfd9dc69..31327b3369278 100644
--- a/python_dependencies/processing/requirements.txt
+++ b/python_dependencies/processing/requirements.txt
@@ -1,24 +1,24 @@
-anndata==0.8.0
+anndata==0.10.7
 awscli
 boto3>=1.11.17
 botocore>=1.14.17
 cellxgene-schema
 dataclasses-json
-ddtrace==2.1.4
-numba==0.56.2
-numpy==1.23.2
-pandas==1.4.4
+ddtrace==2.8.5
+numba==0.59.1
+numpy==1.26.4
+pandas==2.2.2
 psutil>=5.9.0
 psycopg2-binary==2.*
 pyarrow>=1.0
 pydantic>=1.9.0
 python-json-logger
-pyvips==2.2.2
+pyvips==2.2.3
 requests>=2.22.0
 rpy2==3.5.16
 rsa>=4.7 # not directly required, pinned by Snyk to avoid a vulnerability
-s3fs==0.4.2
-scanpy==1.9.3
+s3fs==2024.6.0
+scanpy==1.10.1
 SQLAlchemy==2.*
 tenacity
-tiledb==0.25.0  # Portal's tiledb version should always be the same or older than Explorer's
+tiledb==0.29.0  # Portal's tiledb version should always be the same or older than Explorer's