SAGE Library SM107


Library Name SM107
Species Mus musculus
Strain C57BL/6J
Mutation Wild Type
Location Endoderm - Foregut
Sex Unknown
Age E8.5
Developmental Stage Theiler Stage 13
Organsim Condition

Sample Collection

Tissue Dissection Photos

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With the aid of a dissecting microscope, the extraembryonic tissue was manually removed from embryos in phosphate buffered saline (PBS). To dissociate the germ layers, embryos were subsequently placed in 500 uL of 1% trypsin in Hanks solution. After 30 minutes of incubation on ice, the digestion was stopped with the addition of 1 mL of 20% fetal bovine serum (FBS) in Hanks solution plus a small amount of DNase I powder. Tungsten needles or fine forceps were used to tease away the whole endoderm from other two germ layers. Then the whole endoderm was cut into foregut and hindgut regions down the line indicated in the image. The foreguts were collected in tubes containing Trizol. 

Creative Commons License
This work is licensed under a Creative Commons Attribution 2.5 License.
Lab BCCRC: Pamela Hoodless Lab
Number of Animals 100

Library Construction

SAGE Protocol SAGE (LongSAGE 21 bp)
Starting RNA 2.5 ug

Tag Extraction

Total Raw Tags (no quality cut-off) 102,995
Total Raw Tags at Q95 82,360
Total Raw Tags at Q99 78,529
Unique Tags 34,580


Library Metadata Library Metadata XML
Tag Counts at Quality 0.95 cut-off tagcounts_SM107_Q95.txt
Tag Counts at Quality 0.99 cut-off tagcounts_SM107_Q99.txt
Clustered Tag Counts and P-Value tagclustered_SM107_Q99.txt

Data Analysis


Data is available for analysis using DiscoverySpace, a cross-platform application that allows comparison between SAGE libraries, tag to gene mapping and results from public datasources.

SAGE Library Help

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