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Sample GSM4780399 Query DataSets for GSM4780399
Status Public on Oct 11, 2021
Title Stabilin-double-deficient LSECs, replicate 3
Sample type RNA
 
Source name C57BL/6J LSECs
Organism Mus musculus
Characteristics strain: C57BL/6J
genotype: Stab DKO
cell type: liver sinusoidal endothelial cells (LSECs)
Treatment protocol Murine LSECs from different groups were isolated and purified using CD146 (LSEC) MicroBeads. Purity was assessed using FACS. Three mice per genotype were pooled per biological replicate in Microarray analyis.
Growth protocol RNA was extracted from primary murine LSECs immediately after isolation
Extracted molecule total RNA
Extraction protocol RNA was extracted from primary endothelial cells using E.Z.N.A. TM Total-RNA-Kit I (OMEGA Biotec, Norcross, GA, USA).
Label Biotin
Label protocol Biotinylated cRNA were prepared according to the standard Affymetrix protocol.
 
Hybridization protocol Hybridization (16h x 45°C) was processed according to the standard Affymetrix protocol.
Scan protocol Affymetrix GeneArray Scanner3000
Description Gene expression data from Stabilin-double-deficient LSECs
Data processing The data were analyzed with a commercial software called JMP Genomics, version 6, from SAS. Gene expression profiling was performed using arrays of mouse Mogene-2_0-type from Affymetrix. A Custom CDF Version 19 with Entrez based gene definitions was used to annotate the arrays. The Raw fluorescence intensity values were normalized applying quantile normalization, RMA background correction and Medianpolish Probeset Summary
 
Submission date Sep 14, 2020
Last update date Oct 11, 2021
Contact name Carsten Sticht
Organization name University Heidelberg
Department ZMF
Street address Theodor-Kutzer-Ufer
City Mannheim
ZIP/Postal code 68169
Country Germany
 
Platform ID GPL20710
Series (1)
GSE157900 Analysis of Scavenger-Receptor Type H deficient liver sinusoidal endothelial cells

Data table header descriptions
ID_REF
VALUE RMA signal intensity

Data table
ID_REF VALUE
100009600 4.112304688
100009609 3.1953125
100009614 3.72265625
100009664 3.826660156
100012 3.604492188
100017 9.123046875
100019 6.098632813
100033459 6.4375
100034251 9.927734375
100034675 3.588378906
100034729 4.48046875
100034739 3.878417969
100034748 4.012695313
100036518 3.505371094
100036520 4.139648438
100036521 5.313476563
100036523 6.70703125
100036537 4.116210938
100036569 3.359863281
100036768 6.052734375

Total number of rows: 24973

Table truncated, full table size 444 Kbytes.




Supplementary file Size Download File type/resource
GSM4780399_Koch_190214_12-Stab_DKO_MoGene-2_0-st_.CEL.gz 9.2 Mb (ftp)(http) CEL
Processed data included within Sample table

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