E-MEXP-3933 - Transcription profiling by array of mouse suprachiasmatic nucleus after exposure to a light pulse

Status
Last updated on 16 December 2013, released on 16 December 2013
Organism
Mus musculus
Samples (36)
Array (1)
Protocols (5)
Description
The aim of the experiment was to identify genes in the mouse suprachiasmatic nucleus whose expression was altered by exposure to a light pulse of 400 lux at CT16 (subjective night). C57BL/6 male mice were entrained to a 12:12 LD cycle and given a 30 min 400 lux light pulse at CT16. Punches of SCN tissue were collected at 30 (LP30), 60 (LP60)and 120 (LP120) mins after the start of the light pulse and flash frozen on dry ice. Sham SCN punches (Sham) were collected from mice not exposed to light at CT16. Total RNA from individual tissue samples was extracted using RNeasy micro kit from Qiagen using the lipid tissue protocol according to manufacturer's recommendations. Individual samples were analyzed for quality using an Agilent Bioanalzyer and only samples with a RIN of 8 and above were used. Samples were quantified by Nanodrop and 300ug of total RNA was used to prepare probes for hybridisation to Affymetrix Mouse Exon arrays. Probe preparation and array hybridisation was carried out according to Affymetrix protocols. Each array represents an individual SCN tissue punch.

Experiment types
transcription profiling by array, co-expression, in vivo, stimulus or stress design, time series design
Contact
Citation
The CRTC1-SIK1 pathway regulates entrainment of the circadian clock. Jagannath A, Butler R, Godinho SI, Couch Y, Brown LA, Vasudevan SR, Flanagan KC, Anthony D, Churchill GC, Wood MJ, Steiner G, Ebeling M, Hossbach M, Wettstein JG, Duffield GE, Gatti S, Hankins MW, Foster RG, Peirson SN. Cell 154(5):1100-1111 (2013), Europe PMC 23993098
MIAME
PlatformsProtocolsFactorsProcessedRaw
Files
Links