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Sample GSM104480 Query DataSets for GSM104480
Status Public on Sep 01, 2006
Title HUVEC/NmenMC58_WT_1h_rep2_1108
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, 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 infected with Neisseria meningitidis MC58 WT, 1 hour 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 143.2154129 M 0.048994635 7.162042954
1053_at 71.80643925 P 0.005642809 6.166041319
117_at 54.51019918 A 0.3395579 5.768454287
121_at 267.0590257 P 0.011447358 8.061014833
1255_g_at 13.9669325 A 0.234556513 3.803943297
1294_at 157.612937 P 0.039365362 7.300242147
1316_at 18.88761298 M 0.043967773 4.23936848
1320_at 43.65905692 A 0.3395579 5.448209062
1405_i_at 14.41931 A 0.948934175 3.849930224
1431_at 11.37322375 A 0.26746256 3.50756934
1438_at 100.1746565 A 0.35869052 6.646373752
1487_at 142.4112318 A 0.117160552 7.153919125
1494_f_at 121.9786213 P 0.039365362 6.930484504
1598_g_at 382.1395714 P 0.004180367 8.577955849
160020_at 396.8741109 P 0.003584915 8.632537644
1729_at 141.7227043 A 0.218983229 7.14692709
177_at 57.12534802 A 0.060419342 5.836059144
1773_at 67.25599232 A 0.089405078 6.071590908
179_at 599.1959621 M 0.048994635 9.226884091
1861_at 56.9535636 A 0.060419342 5.83171421

Total number of rows: 22283

Table truncated, full table size 1055 Kbytes.

Supplementary file Size Download File type/resource
GSM104480.CEL.gz 3.3 Mb (ftp)(http) CEL

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