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Sample GSM103452 Query DataSets for GSM103452
Status Public on Sep 01, 2006
Title HUVEC_1h_rep1_1103b
Sample type RNA
Source name Human Umbilical Vein Endothelial Cells (HUVEC)
Organism Homo sapiens
Characteristics Tissue: endothelial cells
Biomaterial provider PromoCell Cat. no. C-12200-human umbilical vein endothelial cells
Treatment protocol Monolayers of HUVECs in 9 cm Petri dishes were washed and collected into Trizol by cell-scraper
Growth protocol Confluent monolayers of HUVECs in 9 cm Petri dishes were cultivated in RPMI medium, 5% CO2, humidified atmosphere, 37°C, 1 hour
Extracted molecule total RNA
Extraction protocol Trizol extraction of total RNA was performed according to the manufacturer's instructions. Total RNA was purified on RNeasy minicolumns (Qiagen) and by NaOAc/ethanol precipitation.
Label biotin
Label protocol Biotinylated cRNA were prepared according to the standard Affymetrix protocol
Hybridization protocol Following fragmentation, cRNA was hybridized for 16 hr at 45C on Affymetrix Human Genome HG-U133A GeneChip. GeneChips were washed and stained in the Affymetrix Fluidics Station.
Scan protocol GeneChips were scanned using the Agilent GeneArray scanner.
Description Gene expression data from HUVEC, 1 hour incubation
Data processing The data were analyzed with RMA and MAS 5.0 algorithms using Biocondutor 1.7 and default analysis settings.
Submission date Apr 06, 2006
Last update date Apr 10, 2006
Contact name Marek Basler
Phone +420 2 4106 2762
Organization name Institute of Microbiology, Czech Academy of Sciences
Department Cell and Molecular Microbiology Division
Lab Laboratory of Molecular Biology of Bacterial Pathogens
Street address Videnska 1083
City Prague 4
ZIP/Postal code CZ-142 20
Country Czech Republic
Platform ID GPL96
Series (1)
GSE4646 Signaling of Neisseria meningitidis MC58 mutants to primary human umbilical vein endothelial cells (HUVEC)

Data table header descriptions
VALUE RMA-calculated Signal intensity
ABS_CALL indicates if the transcript was present (P), absent (A), marginal (M), based on MAS 5.0
DETECTION P-VALUE the significance level of the detection call, based on MAS 5.0
LOG2_VALUE Log2 transformed RMA-calculated Signal intensity, used for identification of significantly regulated genes

Data table
1007_s_at 146.5577043 P 0.039365362 7.195325
1053_at 75.06884547 P 0.00222774 6.23014239
117_at 59.15030091 A 0.234556513 5.886313603
121_at 263.6091032 P 0.007542912 8.042256382
1255_g_at 12.68313125 A 0.175989408 3.664839061
1294_at 142.2445874 A 0.066864977 7.152229947
1316_at 16.79822386 A 0.150527117 4.070236794
1320_at 39.32073328 A 0.418069378 5.297218321
1405_i_at 14.46790101 A 0.842770884 3.854783727
1431_at 10.28983868 A 0.250723677 3.36314846
1438_at 99.97262591 A 0.302547472 6.643461211
1487_at 129.8622171 A 0.060419342 7.020837935
1494_f_at 118.1976099 A 0.073830173 6.885057053
1598_g_at 363.3446454 P 0.007542912 8.505194835
160020_at 427.7914709 P 0.003584915 8.740763909
1729_at 168.1339461 M 0.054470435 7.393467223
177_at 54.71098521 A 0.066864977 5.77375863
1773_at 81.12360115 A 0.066864977 6.342049791
179_at 543.0422948 A 0.081336714 9.084920756
1861_at 63.0123363 P 0.019303461 5.977562396

Total number of rows: 22283

Table truncated, full table size 1055 Kbytes.

Supplementary file Size Download File type/resource
GSM103452.CEL.gz 3.3 Mb (ftp)(http) CEL

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