Human Ovarian Cancer (FFPE)

5 µm section from serous papillary carcinoma of human ovarian. FFPE tissue purchased from iSpecimen.

Block 108906
Ovarian Cancer, Serous papillary carcinoma
Brightfield camera, Magnification: 20x
Sequencing instrument: Illumina NovaSeq 6000, flow cell HCCVHDSX2 (lanes 1-4)
Sequencing depth: 63,836 reads per spot
Sequencing configuration: 28 bp read 1 (16 bp Visium spatial barcode, 12 bp UMI), 75 bp read 2 (transcript), 10 bp i7 sample barcode and 10 bp i5 sample barcode
Dual-Index set: SI-TS-H1
Slide: V10L13-020
Area: D1

Key metrics were:

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Output Files Format details	Size	md5sum
Genome-aligned BAM	11.7 GB	1e904695455069d068e1703ebad1a8f1
Genome-aligned BAM index	8.97 MB	7fbbdc4037c843fcb2f14976110a1921
Per-molecule read information	461 MB	22c74aeb3cc2c5ff40b6aa5b948545a4
Feature / barcode matrix HDF5 (filtered)	26.5 MB	9fc0d49dc65156506925e36b9638b3d6
Feature / barcode matrix (filtered)	82.9 MB	d6df58549c8c9e26a89cf2f92541426e
Feature / barcode matrix HDF5 (raw)	40.9 MB	46fd75c13a13c0ea51ff54a417eddc68
Feature / barcode matrix (raw)	111 MB	e61f633982df4a6845c6f7006a22bdf5
Clustering analysis	27.2 MB	02439e5ee9aa43fd6e87333f22d4d75d
Spatial imaging data	16.1 MB	99fb9f0f261f086915601c6c5918b96c
Spatial Enrichment (Moran's I)	1.75 MB	189073bbbfa9ea705f7a1e786422971c
Summary CSV	921 B	529594c86005c5d736a96416fe4ead02
Summary HTML	9.42 MB	ad1813dcd88f37e149bfa5b36c36af49
Loupe Browser file	634 MB	f04ee268617b81833a7be0177b7a5407

Spatial Gene Expression Dataset by Space Ranger 1.3.0