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Sample GSM104485 Query DataSets for GSM104485
Status Public on Sep 01, 2006
Title HUVEC/NmenMC58_WT_6h_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, 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 131.4715469 A 0.107301013 7.038606794
1053_at 62.68837218 A 0.066864977 5.970125963
117_at 58.98330125 A 0.089405078 5.882234666
121_at 263.8905239 P 0.031335632 8.043795735
1255_g_at 13.87813501 A 0.250723677 3.794741801
1294_at 145.5201788 M 0.043967773 7.18507541
1316_at 18.56389763 P 0.017000453 4.214427742
1320_at 43.94068562 A 0.250723677 5.457485476
1405_i_at 14.18678979 A 0.9066256 3.826476266
1431_at 10.80288124 A 0.35869052 3.43334424
1438_at 102.7041514 A 0.26746256 6.682350687
1487_at 142.3830375 M 0.048994635 7.153633474
1494_f_at 132.2195954 P 0.031335632 7.046792195
1598_g_at 315.0423525 P 0.01309178 8.299401979
160020_at 376.9105832 P 0.002617014 8.558078494
1729_at 134.7936554 A 0.418069378 7.074608781
177_at 55.51659113 P 0.014936519 5.79484708
1773_at 59.78476714 A 0.284747112 5.901706035
179_at 580.9321571 A 0.175989408 9.182225881
1861_at 45.57207846 M 0.048994635 5.510078266

Total number of rows: 22283

Table truncated, full table size 1055 Kbytes.

Supplementary file Size Download File type/resource
GSM104485.CEL.gz 3.3 Mb (ftp)(http) CEL

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