SNT863.MSBB.658 (Collection)

Taxon:

Homo sapiens

Taxonomy (Entity type)

Dcc Asset:

sennet c2m2 jun26.zip

Processed File (Entity type)

Dcc:

SenNet

DCC (Entity type)

Anatomy:

right lung

Anatomy (Entity type)

Persistent Id:https://doi.org/10.60586/SNT863.MSBB.658

Has Time Series Data:0

Description:The human tissue slides profiling with Xenium V1 In Situ Spatial Gene Expression with Segmentation Kit and a custom gene panel enables high-resolution mapping of transcriptomic profiles within intact tissue architecture, making it particularly powerful for studying cellular senescence, where spatial context is essential for understanding cell–cell interactions. In addition to the expression for 371 genes in this custom panel, Xenium profiles tissue morphology using DAPI staining and antibodies (to ATP1A1, CD45, and E-cadherin) within the segmentation kit to delineate individual cell boundaries, allowing precise spatial allocation of transcripts to cells. Its standardized workflow and reproducible output also support cross-laboratory benchmarking, enabling consistent comparisons of spatial gene expression patterns and assay performance across research groups.

Creation Time:2025-06-10 18:32:34.854000

Results found

Linked to

	Label	Description
	cell boundaries.csv.gz File (Entity type)	A 108 MB file from SenNet produced from OBI:0001985 as part of the TMC UConn Health project
	nucleus boundaries.csv.gz File (Entity type)	A 101 MB file from SenNet produced from OBI:0001985 as part of the TMC UConn Health project
	cells.csv.gz File (Entity type)	A 24.3 MB file from SenNet produced from OBI:0001985 as part of the TMC UConn Health project
	features.tsv.gz File (Entity type)	A 4.01 KB file from SenNet produced from OBI:0001985 as part of the TMC UConn Health project
	barcodes.tsv.gz File (Entity type)	A 1.72 MB file from SenNet produced from OBI:0001985 as part of the TMC UConn Health project
	matrix.mtx.gz File (Entity type)	A 111 MB file from SenNet produced from OBI:0001985 as part of the TMC UConn Health project
	morphology fov locations.json File (Entity type)	A 61.0 KB file from SenNet produced from OBI:0001985 as part of the TMC UConn Health project
	cell feature matrix.h5 File (Entity type)	A 27.9 MB file from SenNet produced from OBI:0001985 as part of the TMC UConn Health project
	cycle 11 blu.tiff File (Entity type)	A 7.29 MB file from SenNet produced from OBI:0001985 as part of the TMC UConn Health project
	differential expression.csv File (Entity type)	A 365 KB file from SenNet produced from OBI:0001985 as part of the TMC UConn Health project

cell boundaries.csv.gz

File (Entity type)

A 108 MB file from SenNet produced from OBI:0001985 as part of the TMC UConn Health project

nucleus boundaries.csv.gz

File (Entity type)

A 101 MB file from SenNet produced from OBI:0001985 as part of the TMC UConn Health project

cells.csv.gz

File (Entity type)

A 24.3 MB file from SenNet produced from OBI:0001985 as part of the TMC UConn Health project

features.tsv.gz

File (Entity type)

A 4.01 KB file from SenNet produced from OBI:0001985 as part of the TMC UConn Health project

barcodes.tsv.gz

File (Entity type)

A 1.72 MB file from SenNet produced from OBI:0001985 as part of the TMC UConn Health project

matrix.mtx.gz

File (Entity type)

A 111 MB file from SenNet produced from OBI:0001985 as part of the TMC UConn Health project

morphology fov locations.json

File (Entity type)

A 61.0 KB file from SenNet produced from OBI:0001985 as part of the TMC UConn Health project

cell feature matrix.h5

File (Entity type)

A 27.9 MB file from SenNet produced from OBI:0001985 as part of the TMC UConn Health project

cycle 11 blu.tiff

File (Entity type)

A 7.29 MB file from SenNet produced from OBI:0001985 as part of the TMC UConn Health project

differential expression.csv

File (Entity type)

A 365 KB file from SenNet produced from OBI:0001985 as part of the TMC UConn Health project

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@CFDE Workbench 2026

The CFDE Workbench is actively being developed and maintained by the CFDE Data Resource Center (DRC).The DRC is funded by OT2OD036435 from the Common Fund at the National Institutes of Health.

Consortium

Community

Resources

CFDE Workbench

The CFDE Workbench is actively being developed and maintained by the CFDE Data Resource Center (DRC).The DRC is funded by OT2OD036435 from the Common Fund at the National Institutes of Health.

@CFDE Workbench 2026

This repository is under review for potential modification in compliance with Administration directives.