Mouse brain C04138G3

Spatial Gene Expression of Mouse Brain Formalin-fixed Paraffin Embedded Tissue

Stereo-seq N FFPE V1.0, software version: SAW 8.1 & StereoMap 4.1

Stereo-seq OMNI Solution

Mouse brain Demo Data

Chip SN: C04138G3

Sample information

Kit information

Experiment information

Sequencing

Analysis result

Input file & Output and supplemental files

Data Details

Sample information

Species :

Mouse (Strain: C57BL/6; Sex: Male; Age: 6-8 week)

Tissue :

Whole Brain

Embedding method :

Formalin-fixed paraffin embedded

DV200 :

＞70%

Kit information

Product :

Stereo-seq OMNI FFPE

Kit version :

Stereo-seq N FFPE V1.0

Chip size :

1 cm × 1 cm

Experiment information

Section thickness :

5 μm

Staining type :

H&E staining

Permeabilization time :

30 min

Sequencing

Total reads :

3,188,213,166

Sequencer :

DNBSEQ-T7RS

Analysis result

Heatmap

Analyze Software Version : SAW V8.1, StereoMap V4.1
Bin200 Median MID : 41,791
Bin200 Median Gene Type : 6,174

Sequencing Saturation : 78.70%
Fraction MID in Spots Under Tissue : 95.61%
Manual tissue segmentation was performed.

Explore View report >

Input files Output and supplemental files

Input files	Format	Size	md5sum
C04138G3_input_command_download	TXT	7.13KB	9d6bb4f9f6eee2c6dc4fc4898ad26201
E250018257_L01_104_1.fq.gz	FQ	9.61GB	00caf31f15490aba2e9af2d689dc8c8e
E250018257_L01_104_2.fq.gz	FQ	17.20GB	e537a55a97846da81a8fc9775325b0b7
E250018257_L01_103_1.fq.gz	FQ	9.08GB	0a0acbda380b8340896bc476c9d73ddd
E250018257_L01_103_2.fq.gz	FQ	16.91GB	7bcb96d6d927161030c61bc2c66ccea7
E250018257_L01_102_1.fq.gz	FQ	11.34GB	b7bb41142a0c751c565efdf346755a44
E250018257_L01_102_2.fq.gz	FQ	20.34GB	ea8beb830eb0f20c2fc406c4b0f401d3
E250018257_L01_101_1.fq.gz	FQ	10.21GB	d64fd72bd4ed432923aeee3b4a8e6789
E250018257_L01_101_2.fq.gz	FQ	18.18GB	8cac01fe84ed66226f17b70a51904f9b
E250018257_L01_100_1.fq.gz	FQ	492.25MB	003472ca13ad7c717d867db102d6434c
E250018257_L01_100_2.fq.gz	FQ	877.98MB	734caef88f4d49f4c15547270a8320f7
E250018257_L01_99_1.fq.gz	FQ	5.77GB	40bebee5529ae36f1023268efa6665a2
E250018257_L01_99_2.fq.gz	FQ	10.33GB	ba85b7e420c03af1dd0374123c2cd974
E250018257_L01_98_1.fq.gz	FQ	15.03GB	edafade4a092a0ff6ff9bf8ede69285e
E250018257_L01_98_2.fq.gz	FQ	26.99GB	fb3e79dc9aa18f963069dc76379e1590
E250018257_L01_97_2.fq.gz	FQ	12.02GB	0f34a89d642b122eecf675435c1b7644
E250018257_L01_97_1.fq.gz	FQ	6.74GB	9085f015181e049e772a42705bd88159
E250018209_L01_8_2.fq.gz	FQ	29.40GB	87a200c7fdecf168dca87ebef4d64c95
E250018209_L01_8_1.fq.gz	FQ	16.02GB	85b7b32535e8801bc7e98da1b3913fe1
C04138G3_SC_20250306_093009_4.1.2.tar.gz	TAR	1.15GB	0bf69b92a10ad8d726d4d47a3daf1bc5
C04138G3.barcodeToPos.h5	H5	2.76GB	7b8e1523cdc5e10f86bea3bafec86022

Output and supplemental files	Format	Size	md5sum
C04138G3_output_command_download	TXT	2.20KB	ded791a84ff9c3c67f0f996b705215ec
C04138G3_HE_regist.tif	TIFF	901.48MB	d50e169b99f9cf845325e52fe42ddfc7
C04138G3.tissue.gem.gz	GEM	616.66MB	afcb148d2b576a260e583ad125b86bd4
C04138G3.tissue.gef	GEF	7.88GB	74f3ebd0f1387f9fefa1337b0534c892
C04138G3.raw.gef	GEF	1.27GB	b9f0c5058f9e3562eed645b862de8f10
C04138G3.report.html	HTML	54.75MB	119dd667d308ffd4621cf1e59b031417
C04138G3.visualization.tar.gz	TAR	5.35GB	e0be0dd93d34481f5312e1d04fd68439

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