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Sample GSM104484 Query DataSets for GSM104484
Status Public on Sep 01, 2006
Title HUVEC/NmenMC58_WT_6h_rep1_1102
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; INSERM U570, Faculté de Médecine René Descartes, Paris, France, prof. Xavier Nassif - Neisseria meningitidis MC58
Treatment protocol Monolayers of HUVECs in 9 cm Petri dishes infected with Neisseria meningitidis MC58 WT were washed and collected into Trizol by cell-scraper
Growth protocol Confluent monolayers of HUVECs in 9 cm Petri dishes were infected with Neisseria meningitidis MC58 WT (MOI=10) and cultivated in RPMI medium, 5% CO2, humidified atmosphere, 37°C, 6 hours
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 infected with Neisseria meningitidis MC58 WT, 6 hours infection
Data processing The data were analyzed with RMA and MAS 5.0 algorithms using Biocondutor 1.7 and default analysis settings.
Submission date Apr 10, 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 149.8330511 P 0.027859596 7.227212087
1053_at 68.98294986 P 0.019303461 6.108167918
117_at 61.49450793 A 0.218983229 5.942385664
121_at 282.6996699 P 0.024710915 8.143126388
1255_g_at 13.3554138 A 0.175989408 3.739352771
1294_at 157.4793763 P 0.035162814 7.299019093
1316_at 21.2163601 A 0.098054163 4.407105262
1320_at 46.25960202 A 0.138765168 5.531680949
1405_i_at 14.71951328 A 0.948934175 3.879658063
1431_at 11.58501037 A 0.162935019 3.534187431
1438_at 107.3637464 A 0.35869052 6.746363109
1487_at 154.4147699 A 0.066864977 7.270666944
1494_f_at 130.2979873 M 0.054470435 7.025670989
1598_g_at 365.9347642 P 0.009985415 8.51544267
160020_at 448.2616629 P 0.00189169 8.808197309
1729_at 136.6655129 A 0.127645309 7.09450542
177_at 66.04082099 P 0.01309178 6.04528615
1773_at 61.97802691 A 0.378184515 5.953684922
179_at 589.7291082 A 0.150527117 9.203908595
1861_at 50.34060811 A 0.066864977 5.653650739

Total number of rows: 22283

Table truncated, full table size 1055 Kbytes.

Supplementary file Size Download File type/resource
GSM104484.CEL.gz 3.2 Mb (ftp)(http) CEL

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