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Sample GSM104493 Query DataSets for GSM104493
Status Public on Sep 01, 2006
Title HUVEC/NmenMC58_frpC/frpA_4h_rep1_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 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 274.7807066 P 0.004862793 8.1021369
1053_at 66.87418288 P 0.027859596 6.063377453
117_at 85.31372507 A 0.066864977 6.414705952
121_at 566.0458071 P 0.024710915 9.144774997
1255_g_at 22.81762286 A 0.150527117 4.512076594
1294_at 128.0338225 P 0.019303461 7.000381165
1316_at 56.57432309 P 0.006531992 5.822075513
1320_at 67.96486138 A 0.107301013 6.086717144
1405_i_at 26.58636865 A 0.916687153 4.732614832
1431_at 18.77223853 A 0.138765168 4.230528792
1438_at 96.6771389 A 0.621815485 6.595102873
1487_at 218.9671111 M 0.043967773 7.774570383
1494_f_at 140.5112462 P 0.035162814 7.134541795
1598_g_at 1366.422607 P 0.000467603 10.41618803
160020_at 333.7444712 P 0.027859596 8.382600127
1729_at 210.3297109 P 0.009985415 7.716508848
177_at 70.72732294 P 0.024710915 6.144195751
1773_at 51.13933756 A 0.500000024 5.676361567
179_at 600.1188339 A 0.073830173 9.229104397
1861_at 58.57895145 A 0.060419342 5.872310464

Total number of rows: 22283

Table truncated, full table size 1056 Kbytes.

Supplementary file Size Download File type/resource
GSM104493.CEL.gz 3.4 Mb (ftp)(http) CEL

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