Mouse brain C04042E2

Spatial Gene Expression of Mouse Brain Fresh Frozen Tissue

Stereo-seq T FF V1.3, software version: SAW 8.1 & StereoMap 4.1

Stereo-seq Transcriptomics Solution

Mouse brain Demo Data

Chip SN: C04042E2

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: 8-9 week)

Tissue :

Whole brain

Embedding method :

Fresh frozen

RIN value :

Kit information

Product :

Stereo-seq FF

Kit version :

Stereo-seq T FF V1.3

Chip size :

1 cm × 1 cm

Experiment information

Section thickness :

10 μm

Staining type :

ssDNA staining

Permeabilization time :

12 min

Sequencing

Total reads :

1,763,421,296

Sequencer :

DNBSEQ-G400RS; DNBSEQ-T7RS

Analysis result

Clustering map

Analyze Software Version : SAW V8.1, StereoMap V4.1
Bin200 Median MID : 51,538
Bin200 Median Gene Type : 8,983
Bin20 Median MID : 480
Bin20 Median Gene Type : 354
Cell Bin Gene Type : 698
Cell Bin MID : 1,051
Sequencing Saturation : 65.10%
Fraction MID in Spots Under Tissue : 92.06%

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Input files Output and supplemental files

Input files	Format	Size	md5sum
C04042E2_input_command_download	TXT	2.8KB	01dd69900ab6144b0c265a277b91def2
S_E250018404_L01_read_1.fq.gz	FQ	33.40GB	cd40f3533f39c23f2f4145fd18c775e6
S_E250018404_L01_read_2.fq.gz	FQ	34.47GB	f752dcdc9091ea1e1e0d50331570ee77
V350272816_L02_read_1.fq.gz	FQ	10.37GB	3a6dcf0c4459d13111eda599d3fe6cdf
V350272816_L02_read_2.fq.gz	FQ	13.34GB	589c9ac6642f9b91f10eee70e7ef99e4
V350272816_L01_read_1.fq.gz	FQ	10.77GB	23760aa784c929cdab7129d024f25a0c
V350272816_L01_read_2.fq.gz	FQ	13.95GB	5e5b39dacf86a20742b0c4190fbe232f
C04042E2_SC_20240925_144329_4.1.0.tar.gz	TAR	168.88MB	c3adb92aeba00137c782e75f4c818065
C04042E2.barcodeToPos.h5	H5	3.03GB	62c4052da95604939ae2aff66d0cc94b

Output and supplemental files	Format	Size	md5sum
C04042E2_output_command_download	TXT	2.84KB	64cd94616e0abfc8f61b693fa9081e43
C04042E2_ssDNA_regist.tif	TIFF	152.78MB	0791314d424a076dd6e274e6a2a0d800
C04042E2.adjusted.cellbin.gef	GEF	175GB	05b13960715d4582d4afba343e5747ea
C04042E2.cellbin.gef	GEF	837.75MB	fa1bc6552cac5e5c4b7bfa7cb44bbd59
C04042E2.tissue.gem.gz	GEM	1.17GB	de1691ac754fb1aaa72e3b16f56ed12a
C04042E2.tissue.gef	GEF	14.92GB	dedb43bfbde09961028bc2ac93766951
C04042E2.raw.gef	GEF	2.54GB	2c91c7f0cd06eff13502fa0883a4acad
C04042E2.report.tar.gz	TAR (HTML)	28.49MB	acd98099ce71a1581253e64a7b06b18f
C04042E2.visualization.tar.gz	TAR	8.85GB	7b379ce3f05f6da3f9cbd2aedd524d18

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