Human Cervical Cancer (FFPE)

5 µm section from squamous cell carcinoma of human cervical cancer. FFPE tissue purchased from Discovery Life Sciences.

Block C00084155.1a
Cervical Cancer, Invasive. Squamous cell carcinoma T1bN0M0 IB
Brightfield camera, Magnification: 20x
Sequencing instrument: Illumina NovaSeq 6000, flow cell HVFG7DSXY (lanes 1-4)
Sequencing depth: 73,046 reads per spot
Sequencing configuration: 28 bp read 1 (16 bp Visium spatial barcode, 12 bp UMI), 50 bp read 2 (transcript), 10 bp i7 sample barcode and 10 bp i5 sample barcode
Dual-Index set: SI-TS-E5
Slide: V10L13-019
Area: A1

Key metrics were:

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Output Files Format details	Size	md5sum
Genome-aligned BAM	10.1 GB	d795594ee91dcac379fda736a40b0c38
Genome-aligned BAM index	2.46 MB	40067b155ff0d8f1355937e8c4d1cc69
Per-molecule read information	320 MB	0fb3161c18abb71f4b5b10605d6775df
Feature / barcode matrix HDF5 (filtered)	19.3 MB	d5da1800aa9b4365127fb92419e25f1b
Feature / barcode matrix (filtered)	59.8 MB	409b5e4aa67b3a011bb282339f895b90
Feature / barcode matrix HDF5 (raw)	31.6 MB	148925840d71ad53e00c325ee2bf9b4a
Feature / barcode matrix (raw)	84.8 MB	4cc2b8ea9af8cde2e5caf396cddaeb7f
Clustering analysis	26.9 MB	7e48374b5d24ef6213cd6382e38b6914
Spatial imaging data	15.4 MB	b3c5405f1606089967de4f965dde1f78
Spatial Enrichment (Moran's I)	1.78 MB	560cb174fa4c3681a705e3f33df4043c
Summary CSV	921 B	f24855d73ccd30eac5f82a5ffc8fccac
Summary HTML	8.63 MB	4acec1b5d16d6364861d09764607e52c
Loupe Browser file	679 MB	474a9e20120b7632c504a537aa932a89

Spatial Gene Expression Dataset by Space Ranger 1.3.0