NCBI Logo
GEO Logo
   NCBI > GEO > Accession DisplayHelp Not logged in | LoginHelp
GEO help: Mouse over screen elements for information.
          Go
Sample GSM1340662 Query DataSets for GSM1340662
Status Public on Jun 01, 2015
Title WT in the dark at 30min (1st)
Sample type RNA
 
Source name Synechococcus wild type cells incubated for 30 min in the dark after the start point (hour 12 under continuous light after the two LD cycles)
Organism Synechococcus elongatus PCC 7942 = FACHB-805
Characteristics protocol: Dark_30min
Treatment protocol Cells were collected at indicated times and stored at -80C until use
Growth protocol Synechococcus cells were grown in continuous culture systems in any conditions at 30C under the light (40 micromol/m^2/sec)
Extracted molecule total RNA
Extraction protocol Total RNAs were extracted with a modified hot-phenol extraction method
Label biotin
Label protocol Biotinylated cDNA were prepared according to the standard Affymetrix prokaryotic protocol from 10 ug total RNA (Expression Analysis Technical Manual)
 
Hybridization protocol Following fragmentation, 1.5 ug of cDNA were hybridized for 16 hr at 45C on GeneChip Synechococcus Custom Arrays (Syel6301a520114F). GeneChips were washed and stained in the Affymetrix Fluidics Station 400.
Scan protocol GeneChips were scanned using the Affymetrix GeneChip Scanner 3000.
Description Gene expression data from Synechococcus elongatus PCC 7942
Data processing The data were analyzed with GeneChip Operating Software (GCOS) ver 1.2.1.001 using Affymetrix default analysis settings to obtain raw data.
 
Submission date Mar 06, 2014
Last update date Jun 01, 2015
Contact name Hideo Iwasaki
E-mail(s) hideo-iwasaki@waseda.jp
Organization name Waseda University
Department Electrical Engineering & Bioscience
Street address TWIns 1F 2-2 Wakamatsu-cho, Shinjuku
City Tokyo
ZIP/Postal code 162-8480
Country Japan
 
Platform ID GPL8012
Series (1)
GSE55637 Transcriptional profile of Synechococcus in the dark or light with or without photosynthesis inhibitors

Data table header descriptions
ID_REF
VALUE GCOS intensity normalized as described above (data processing)

Data table
ID_REF VALUE
syc0001-h_at 126.4
syc0002-h_at 350.1
syc0003-m_at 88.2
syc0004-m_at 96.8
syc0005-m_at 56.9
syc0006-h_at 121.2
syc0007-m_at 71.1
syc0008-m_at 157.9
syc0009-m_at 178.4
syc0010-h_at 256.3
syc0011-m_at 59
syc0012-h_at 436.5
syc0013-m_at 292.3
syc0014-m_at 398.3
syc0015-h_at 2090.3
syc0016-m_at 78.4
syc0017-m_at 148.5
syc0018-m_at 45.1
syc0019-h_at 762.3
syc0020-h_at 266.7

Total number of rows: 2515

Table truncated, full table size 45 Kbytes.




Supplementary file Size Download File type/resource
GSM1340662_WT_Dark_30min_1.CEL.gz 907.4 Kb (ftp)(http) CEL
Processed data included within Sample table

| NLM | NIH | GEO Help | Disclaimer | Accessibility |
NCBI Home NCBI Search NCBI SiteMap