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Sample GSM1944043 Query DataSets for GSM1944043
Status Public on Nov 19, 2015
Title Lung_MWCNT, 3 days
Sample type RNA
 
Source name Rat lungs, 3 days, MWCNT, replicate 4
Organism Rattus norvegicus
Characteristics gender: male
post-instillation period: 3 days
tissue: lung
Treatment protocol 0.32 mg of SWCNT or MWCNT was suspended in 0.4 ml of 10mg/mL BSA. Each material suspension was intratracheally instilled once in rats. The animals were dissected at 1day, 3 days, 7 days, 30 days, and 90 days after instillation.
Growth protocol Nine-week-old male Wistar rats purchased from Japan SLC, Inc. (Shizuoka, Japan) were divided into groups (n = 4 per group per time point). SWCNT or MWCNT were intratracheally administered into rats as a single injection, respectively. The vehicle control
Extracted molecule total RNA
Extraction protocol The right lungs (n = 4 per group per time point) were homogenized using QIAzol lysis reagent with a Tissue Ruptor (Qiagen, Tokyo, Japan). Total RNA from the homogenates was extracted using the RNeasy Midi kit (Qiagen) following the manufacturer’s instruct
Label Cy3
Label protocol Cyanine-3 (Cy3) labeled cRNA was prepared from RNA using the One-Color Low RNA Input Linear Amplification PLUS kit (Agilent) according to the manufacturer's instructions, followed by RNAeasy column purification (QIAGEN, Tokyo, Japan). Dye incorporation an
 
Hybridization protocol Cy3-labelled cRNA was fragmented at 60°C for 30 minutes in a reaction volume of 250 ml containing 1x Agilent fragmentation buffer and 2x Agilent blocking agent following the manufacturers instructions. On completion of the fragmentation reaction, 250 ml o
Scan protocol Slides were scanned immediately after washing on the Agilent DNA Microarray Scanner (G2505C) using one color scan setting for 4x44k array slides (Scan resolution 5um).
Description Gene expression after 3 days in MWCNT-instilled rat lungs
Data processing The scanned images were analyzed with Feature Extraction Software 10.7.3.1 (Agilent) using default parameters (protocol GE1_107_Sep09 and Grid: 014879_D_F_20110906). Background detrend: On (Feat NCRange, LoPass). Multiplicative detrend: True. Features fla
 
Submission date Nov 18, 2015
Last update date Nov 19, 2015
Contact name Katsuhide Fujita
E-mail(s) ka-fujita@aist.go.jp
Organization name National Institute of Advanced Industrial Science and Technology
Department Research Institute of Science for Safety and Sustainability
Street address Onogawa 16-1
City Tsukuba
ZIP/Postal code 3058569
Country Japan
 
Platform ID GPL7294
Series (1)
GSE75148 Gene expression profiles in rat lung following intratracheal instillation with short size single-wall and multi-wall carbon nanotubes

Data table header descriptions
ID_REF
VALUE log2 average normalized signal intensity

Data table
ID_REF VALUE
A_44_P465448 -0.542163
A_44_P514796 -0.572618
A_44_P409518 0.42166352
A_44_P279262 -1.1010208
A_44_P375042 0.70127606
A_44_P269499 1.4324882
A_44_P204808 -0.61380196
A_44_P438090 0.1907394
A_44_P330643 -0.048294306
A_44_P421941 -0.18842816
A_42_P504653 2.3020387
A_44_P260580 -0.99517643
A_44_P445440 -0.27183664
A_44_P313825 -0.7697396
A_44_P788423 -0.908646
A_44_P549509 -0.052028418
A_43_P12354 -0.008387089
A_43_P14989 0.24011016
A_44_P172767 -1.056133
A_44_P884555 -1.0252078

Total number of rows: 41103

Table truncated, full table size 964 Kbytes.




Supplementary file Size Download File type/resource
GSM1944043_CN700_23_1.txt.gz 370.5 Kb (ftp)(http) TXT
GSM1944043_CN700_23_1_RawData.txt.gz 9.1 Mb (ftp)(http) TXT
GSM1944043_CN700_23_2.txt.gz 370.5 Kb (ftp)(http) TXT
GSM1944043_CN700_23_2_RawData.txt.gz 9.0 Mb (ftp)(http) TXT
GSM1944043_CN700_23_3.txt.gz 373.1 Kb (ftp)(http) TXT
GSM1944043_CN700_23_3_RawData.txt.gz 9.1 Mb (ftp)(http) TXT
GSM1944043_CN700_23_4.txt.gz 369.0 Kb (ftp)(http) TXT
GSM1944043_CN700_23_4_RawData.txt.gz 9.0 Mb (ftp)(http) TXT
Processed data provided as supplementary file
Processed data included within Sample table

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