SAGE Library SM302

Classification

Library Name SM302
Species Mus musculus
Strain C57BL/6J
Mutation Wild Type
Location Embryonic stem cells - Whole
Sex Unknown
Age Unspecified
Developmental Stage Embronyonic Stem Cell
Organsim Condition

Sample Collection

Tissue Dissection Photos Creative Commons License
This work is licensed under a Creative Commons Attribution 2.5 License.
Lab BCCRC: Pamela Hoodless Lab
Number of Animals Not Available

Library Construction

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

Tag Extraction

SM302 and SM401 were constructed using the same RNA source, with 5000 ng and 50 ng DNase I treated RNA respectively, ditags were amplified for 27 and 37 cycles respectively, tags were extracted and correlated.

Merged Library Name SM302_SM401
Total Raw Tags (no quality cut-off) 85,132
Total Raw Tags at Q95 59,224
Total Raw Tags at Q99 57,014
Unique Tags 26,501

Data

Tag Counts at Quality 0.95 cut-off tagcounts-884_SM302_SM401_Q95.txt
Tag Counts at Quality 0.99 cut-off tagcounts-884_SM302_SM401_Q99.txt
Clustered Tag Counts and P-Value tagclustered-884_SM302_SM401.txt
Original Tag Set
Total Raw Tags (no quality cut-off) 38,973
Total Raw Tags at Q95 30,356
Total Raw Tags at Q99 29,131
Unique Tags 16,049

Data

Library Metadata Library Metadata XML
Tag Counts at Quality 0.95 cut-off tagcounts_SM302_Q95.txt
Tag Counts at Quality 0.99 cut-off tagcounts_SM302_Q99.txt
Clustered Tag Counts and P-Value tagclustered_SM302.txt

Data Analysis

DiscoverySpace

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.