diff --git a/biology/py-pydeseq2/Makefile b/biology/py-pydeseq2/Makefile
index e31c4eb3d0ab..79df1d1ad48c 100644
--- a/biology/py-pydeseq2/Makefile
+++ b/biology/py-pydeseq2/Makefile
@@ -1,26 +1,26 @@
 PORTNAME=	pydeseq2
-DISTVERSION=	0.5.1
+DISTVERSION=	0.5.2
 CATEGORIES=	biology python
 MASTER_SITES=	PYPI
 PKGNAMEPREFIX=	${PYTHON_PKGNAMEPREFIX}
 
 MAINTAINER=	jwb@FreeBSD.org
 COMMENT=	Python implementation of the popular DESeq2 R package
 WWW=		https://github.com/owkin/PyDESeq2
 
 LICENSE=	MIT
 LICENSE_FILE=	${WRKSRC}/LICENSE
 
 RUN_DEPENDS=	${PYTHON_PKGNAMEPREFIX}anndata>=0.8.0:devel/py-anndata@${PY_FLAVOR} \
 		${PYTHON_PKGNAMEPREFIX}formulaic>=1.0.2:math/py-formulaic@${PY_FLAVOR} \
 		${PYTHON_PKGNAMEPREFIX}formulaic_contrasts>=0.2.0:math/py-formulaic-contrasts@${PY_FLAVOR} \
 		${PYTHON_PKGNAMEPREFIX}matplotlib>=3.6.2:math/py-matplotlib@${PY_FLAVOR} \
 		${PYNUMPY} \
 		${PYTHON_PKGNAMEPREFIX}pandas>=1.4.0:math/py-pandas@${PY_FLAVOR} \
 		${PYTHON_PKGNAMEPREFIX}scikit-learn>=1.1.0:science/py-scikit-learn@${PY_FLAVOR} \
 		${PYTHON_PKGNAMEPREFIX}scipy>1.11.0:science/py-scipy@${PY_FLAVOR}
 
 USES=		python
 USE_PYTHON=	autoplist distutils
 
 .include <bsd.port.mk>
diff --git a/biology/py-pydeseq2/distinfo b/biology/py-pydeseq2/distinfo
index 026ce31f8ca4..4ecfeca8f0d3 100644
--- a/biology/py-pydeseq2/distinfo
+++ b/biology/py-pydeseq2/distinfo
@@ -1,3 +1,3 @@
-TIMESTAMP = 1749586728
-SHA256 (pydeseq2-0.5.1.tar.gz) = 1ec79299f9134748b18bd8242ee4f7f6ccc9407dd18bf32562e051ae5cca626e
-SIZE (pydeseq2-0.5.1.tar.gz) = 51390
+TIMESTAMP = 1751029007
+SHA256 (pydeseq2-0.5.2.tar.gz) = 9a124793f3155e40863f63cb92d73f815d01c6e0b3cc0d8e8730141c134c16f4
+SIZE (pydeseq2-0.5.2.tar.gz) = 51377