NCBI Logo
GEO Logo
   NCBI > GEO > Accession DisplayHelp Not logged in | LoginHelp
GEO help: Mouse over screen elements for information.
          Go
Sample GSM560461 Query DataSets for GSM560461
Status Public on Jun 29, 2011
Title bodies-dark_dark-CircadianTime40-rep2
Sample type RNA
 
Source name bodies-dark_dark-CircadianTime40
Organism Anopheles gambiae
Characteristics tissue: body
timecollected: CT40
colloquialtimeofday: subjectiveEarlyNight
strain: Pimperena
gender: female
lighttreatment: constantDark
Growth protocol Female mated, but not blood-fed Anopheles gambiae (Pimperena S form) mosquitoes were maintained at 80% humidity and 75°C in either constant dark conditions or 11 hours full light with a 1 hour dawn and one hour dusk transitions. Experiment began with females 7-9 days old. Zeitgeber Time (ZT) with ZT12 defined as time of lights OFF under the light:dark cycle, and ZT0 defined as end of the dawn transition. Circadian Time (CT) with CT0 defined as subjective dawn, inferred from ZT0 of the previous light:dark cycle.
Extracted molecule total RNA
Extraction protocol 20-30 mosquitoes were collected and pooled per timepoint. Heads (including mouth parts and antenae) were separated from bodies (including appendges), and RNA extracted using TRIzol reagent (2 rounds) (Invitrogen) and sodium acetate precipitation.
Label Streptavidin Phycoerythrin (SAPE)
Label protocol Sample labeled using the Affymetrix 3'IVT Express Kit per manufaturer's protocol.
 
Hybridization protocol Sample hybridized to a Plasmodium/Anopheles Affymetrix GeneChip GeneChip expression array (Affymetrix 900511, GEO GLP1321) per manufaturer's protocol.
Scan protocol Sample scanned on an Affymetix GeneChip Scanner 7G running Command Console version 3.0 using manufactuer's protocols.
Description Female Anopheles gambiae bodies from mosquitoes reared under constant dark conditions. Collected at CT40, subjective early night (52 hours after lights off at the beginning of experiment)
Data processing Expression values were normalized using the GC-RMA algorithm in GeneSpring GX11 (Agilent Technologies) against all other head or body samples.
 
Submission date Jun 25, 2010
Last update date Jun 29, 2011
Contact name Samuel S.C. Rund
E-mail(s) srund@nd.edu
Phone 1-574-631-1869
URL http://www.nd.edu/~srund
Organization name University of Notre Dame
Department Biological Science
Lab Duffield
Street address Galvin Life Science
City Notre Dame
State/province IN
ZIP/Postal code 46556
Country USA
 
Platform ID GPL1321
Series (1)
GSE22585 Genome-wide profiling of diel and circadian gene expression of the malaria vector Anopheles gambiae

Data table header descriptions
ID_REF
VALUE Values expressed are signals calculated by GeneSpring GX11 and are presented in Log2

Data table
ID_REF VALUE
AFFX-BioB-5_at 6.489711
AFFX-BioB-M_at 7.2057724
AFFX-BioB-3_at 7.173147
AFFX-BioC-5_at 7.954015
AFFX-BioC-3_at 8.30818
AFFX-BioDn-5_at 11.0848465
AFFX-BioDn-3_at 12.112352
AFFX-CreX-5_at 13.503268
AFFX-CreX-3_at 14.21632
AFFX-DapX-5_at 7.831787
AFFX-DapX-M_at 9.408575
AFFX-DapX-3_at 10.854967
AFFX-LysX-5_at 5.179642
AFFX-LysX-M_at 5.297631
AFFX-LysX-3_at 7.11183
AFFX-PheX-5_at 5.3691983
AFFX-PheX-M_at 5.3850427
AFFX-PheX-3_at 8.705124
AFFX-ThrX-5_at 4.167579
AFFX-ThrX-M_at 5.7707834

Total number of rows: 22769

Table truncated, full table size 642 Kbytes.




Supplementary file Size Download File type/resource
GSM560461.CEL.gz 1.7 Mb (ftp)(http) CEL
Processed data included within Sample table

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