10x Genomics Support/Visium CytAssist Spatial Gene Expression/Documentation/Tissue Prep/

Visium CytAssist Spatial Gene Expression for FFPE Tested Tissues

Tested Tissue List

List of tissue types that were tested by 10x and found to perform well with the Visium CytAssist Spatial Gene Expression for FFPE assay. Tissues tested in-house were acquired from biobanks. Please note: sample preparation variability (such as fixation and embedding techniques) may impact assay performance.

Datasets from a subset of tested tissues are available here.

OrganismTissueUnknown, Healthy, Diseased (Region, if known)Important Considerations
HumanBrainHealthy (Cortex)
HumanBrainDiseased, Glioblastoma
HumanBreastDiseased, Cancer
HumanKidneyHealthy
HumanLarge IntestineDiseased, Colorectal Cancer
HumanLiverDiseased, Hepatocellular Carcinoma
HumanLungDiseased, Cancer
HumanLymph NodeHealthy
HumanOvaryDiseased, Cancer
HumanPancreasDiseased, Invasive Adenocarcinoma
HumanPancreasDiseased, Metastatic Pancreatic Ductal Adenocarcinoma (Resection of splenic metastasis)
HumanProstateDiseased, Cancer
HumanSkinDiseased, Melanoma
HumanThymusHealthy
HumanTonsilDiseased, Tonsilitis
HumanTonsilDiseased, Follicular Hyperplasia
Human (TMA)Breast
(11 x 6 Array, 1 mm Diameter, 1 mm Edge-to-Edge Distance)
CancerExpertise required for generating TMA blocks, sectioning and tissue placement. See Q&A article for further details.
MouseBrainHealthy
MouseEmbryoHealthy
MouseEyeHealthy
MouseHeartHealthy
MouseKidneyHealthy
MouseLiverHealthy
MouseSmall IntestineHealthy
MouseSpleenHealthy
MouseTestesHealthy
MouseThymusHealthy
Mouse (TMA)Brain & Kidney
(5 x 5 Array, 1 mm Diameter, 1 mm Edge-to-Edge Distance)
HealthyExpertise required for generating TMA blocks, sectioning and tissue placement. See Q&A article for further details.
Mouse (TMA)Brain & Lung
(3 x 3 Arrays, 2 mm Diameter, 1 or 2 mm Edge-to-Edge Distance)
HealthyExpertise required for generating TMA blocks, sectioning and tissue placement. See Q&A article for further details.

Challenging Tissues

List of tissue types tested by 10x with the Visium CytAssist Spatial Gene Expression for FFPE assay that were found to not perform well with 10x protocols.

OrganismTissueUnknown, Healthy, Diseased (Region, if known)Additional Information
HumanBoneHealthy (Femur)See Q&A article for further details if interested in processing this tissue type.
HumanHeartHealthyObserved low sensitivity and poor clustering in a subset of samples tested from this tissue type.
HumanSkinHealthySee Q&A article for further details if interested in processing this tissue type.
HumanSpleenHealthyObserved a high percentage of UMI reads from gDNA which varied depending upon tissue block.
MouseBoneHealthy (Femur), Healthy (Tibia)See Q&A article for further details if interested in processing this tissue type.
MouseSkinHealthySee Q&A article for further details if interested in processing this tissue type.
Document Type
Specifications

Last Modified
July 21, 2023