SAGE Library SM039


Library Name SM039
Species Mus musculus
Strain C57BL/6J
Mutation Wild Type
Location Branchial arch - Branchial arch 1
Sex Unknown
Age E10.5
Developmental Stage Theiler Stage 17
Organsim Condition

Sample Collection

Tissue Dissection Photos

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With the aid of a dissecting microscope TS17 embryos were removed from uteri under phosphate buffered saline (PBS). The first branchial arch (see organogenic image) was severed from each embryo using mini-Vannas scissors and was then transferred to Trizol. The first branchial arches of several embryos from multiple litters were pooled together to collect enough RNA for SAGE library construction.

Creative Commons License
This work is licensed under a Creative Commons Attribution 2.5 License.
Lab BCCRC: Pamela Hoodless Lab
Number of Animals 48

Library Construction

SAGE Protocol SAGE (LongSAGE 21 bp)
Starting RNA 5.0 ug

Tag Extraction

Total Raw Tags (no quality cut-off) 136,273
Total Raw Tags at Q95 117,024
Total Raw Tags at Q99 109,349
Unique Tags 35,010


Library Metadata Library Metadata XML
Tag Counts at Quality 0.95 cut-off tagcounts_SM039_Q95.txt
Tag Counts at Quality 0.99 cut-off tagcounts_SM039_Q99.txt
Clustered Tag Counts and P-Value tagclustered_SM039_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

A full explanation of each of the fields displayed on this page is available on the SAGE Library Help page.