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Sample GSM104495 Query DataSets for GSM104495
Status Public on Sep 01, 2006
Title HUVEC/NmenMC58_frpC/frpA_4h_rep3_1117
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 delta frpC/frpA 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 delta frpC/frpA (MOI=10) and cultivated in RPMI medium, 5% CO2, humidified atmosphere, 37°C, 4 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 delta frpC/frpA, 4 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 304.5465285 P 0.004180367 8.250518849
1053_at 79.72572547 P 0.006531992 6.316973415
117_at 86.9018868 P 0.035162814 6.441315596
121_at 670.4037346 P 0.011447358 9.388886376
1255_g_at 22.23103007 A 0.234556513 4.474502891
1294_at 126.1479499 P 0.024710915 6.97897295
1316_at 54.24407537 M 0.043967773 5.761393667
1320_at 75.48761603 A 0.089405078 6.23816808
1405_i_at 28.0290473 A 0.714243702 4.808850803
1431_at 20.82434402 A 0.098054163 4.380199145
1438_at 90.39094457 A 0.621815485 6.498106345
1487_at 263.3872758 P 0.039365362 8.041041841
1494_f_at 153.5404084 P 0.039365362 7.26247458
1598_g_at 1518.596604 P 0.00038826 10.56852297
160020_at 401.246555 P 0.014936519 8.648345196
1729_at 274.0241114 P 0.00189169 8.098159031
177_at 77.69411209 P 0.00868917 6.279733366
1773_at 67.96916679 A 0.150527117 6.086808532
179_at 636.611206 M 0.043967773 9.314268742
1861_at 60.98305225 A 0.066864977 5.930336455

Total number of rows: 22283

Table truncated, full table size 1056 Kbytes.

Supplementary file Size Download File type/resource
GSM104495.CEL.gz 3.5 Mb (ftp)(http) CEL

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