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Status
Public on Jan 17, 2009
Title
WholeCerebellum_1month_Ptc+-_Ink4c--_rep1
Sample type
SRA
Source name
cerebellum
Organism
Mus musculus Characteristics
Ptch1+/-, Ink4c (p18) -/-, age 1 month
Growth protocol
Standard mouse facility
Extracted molecule
total RNA
Extraction protocol
Total RNA extraction by Trizol
Library strategy
RNA-Seq
Library source
transcriptomic
Library selection
size fractionation
Instrument model
Illumina Genome Analyzer
Description
Barcode used in pool: 5MLI
Data processing
The reads were deconvoluted by barcode, collapsed to unique sequences, aligned to the genome and annotated. Read-counts for miRNA sequences were cubic-spline normalized then log-transformed. The R-project software (http://www.R-project.org ), including Bioconductor were used for data analysis.
Submission date
Jan 16, 2009
Last update date
Mar 04, 2023
Contact name
Fedor Karginov
E-mail(s)
karginov@ucr.edu Organization name
UC Riverside
Department
MCSB
Street address
900 University Ave
City
Riverside
State/province
California
ZIP/Postal code
92521
Country
USA
Platform ID
GPL9185 Series (1)
GSE14470 MicroRNA profiling in mouse medulloblastomas and normal cerebellar tissues
Relations BioSample
SAMN02195491
Data table header descriptions SEQUENCE COUNT Read-counts for miRNA sequences were cubic-spline normalized then log-transformed
Data table SEQUENCE COUNT mmu-let-7a (main)
3.050122207
mmu-let-7a (other)
0.037223141
mmu-let-7b (main)
3.152938921
mmu-let-7b (other)
0.037223141
mmu-let-7c (main)
3.857722227
mmu-let-7c (other)
0.037223141
mmu-let-7c$mmu-let-7a (main)
0.262516302
mmu-let-7c$mmu-let-7a (other)
0.037223141
mmu-let-7c$mmu-let-7a$mmu-let-7c$mmu-let-7a (main)
1.806965226
mmu-let-7d (main)
2.85151565
mmu-let-7d (other)
0.471341213
mmu-let-7e (main)
2.445015785
mmu-let-7e (other)
0.169752116
mmu-let-7f (main)
3.130608415
mmu-let-7f (other)
0.037223141
mmu-let-7g (main)
3.005069317
mmu-let-7g (other)
0.169752116
mmu-let-7i (main)
2.861022051
mmu-let-7i (other)
0.037223141
mmu-mir-1 (main)
0.169752116
528 16 Kbytes .Supplementary data files not provided Processed data included within Sample table
