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Sample GSM199467 Query DataSets for GSM199467
Status Public on Jun 09, 2007
Title Pancreas at e14.5, Chip C, rep 1
Sample type RNA
 
Source name Pancreas at e14.5
Organism Mus musculus
Characteristics Affymetrix GeneChip Murine Genome U74 Version 2 Set MG-U74C
Growth protocol Time mated NMRI mice (M&B, Ry, Denmark) were killed by cervical dislocation at embryonic day 12.5, 13.5, 14.5, 15.5, or 16.5. Embryos were placed in ice cold PBS and decapitated, and the dorsal pancreas was removed by dissection with DUMONT #SS Biologie forceps (Fine Science Tools) using an inverted microscope. Only dorsal pancreatic buds were isolated due to the difficulty of isolating ventral pancreas at early stages. Dorsal pancreata from a litter were pooled and stored in RNAlater (Ambion) at 4C until RNA isolation (no more than one week).
Extracted molecule total RNA
Extraction protocol Pancreata stored in RNAlater were collected by centrifugation at 100 x g for 15 minutes followed by removal of RNAlater. The tissue was homogenized in Eppendorf tubes by addition of 500μl TRIzol (GibcoBRL/Life Technologies) and grinding with disposable pistils (Buch & Holm, Denmark). Total RNA isolation was performed as described in the standard TRIzol procedure. Following RNA isolation genomic DNA contamination was eliminated using DNAfree (Ambion) according to manufacturer’s instructions and total RNA was purified on RNeasy columns (Qiagen) following the standard protocol. RNA integrity was assessed by gel electrophoresis using 1% ethidium bromide containing agarose gels. The amount of isolated RNA was quantified spectrophotometrically on an UltroSpec 2100pro (Amersham Bioscience).
Label biotin
Label protocol Standard Affymetrix labelling protocol was followed.
 
Hybridization protocol Standard Affymetrix hybridization protocol was followed.
Scan protocol Standard Affymetrix hybridization protocol was followed.
Description Gene expression data from dorsal pancreas at e14.5, MG-U74C version2
Data processing The data were analyzed using the R environment and Bioconductor packages and expression summaries were based on the default RMA algorithm.
 
Submission date Jun 08, 2007
Last update date Jun 08, 2007
Contact name Andreas Petri
E-mail(s) andp@novonordisk.com
Organization name Novo Nordisk A/S
Department Molecualr Genetics
Street address Novo Nordisk Park D6 2.154
City Maaloev
ZIP/Postal code 2760
Country Denmark
 
Platform ID GPL83
Series (1)
GSE8070 Expression profiling of pancreas development

Data table header descriptions
ID_REF
VALUE RMA based expression summary.

Data table
ID_REF VALUE
128520_at 8.793623497
128523_at 2.654053586
128529_at 4.621499958
128550_at 6.621680097
128554_at 3.730582373
128577_s_at 3.226344179
128578_r_at 4.231796037
128579_r_at 4.559560424
128580_at 5.574666155
128582_at 3.527930879
128583_at 3.31454533
128590_at 4.699245098
128624_at 3.57461065
128643_r_at 6.667479611
128644_at 6.095017253
128645_at 5.80717996
128646_at 4.414318409
128647_at 5.037453296
128651_at 6.848086673
128652_at 3.70273881

Total number of rows: 11868

Table truncated, full table size 262 Kbytes.




Supplementary file Size Download File type/resource
GSM199467.CEL.gz 2.6 Mb (ftp)(http) CEL
Processed data included within Sample table

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