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Sample GSM416611 Query DataSets for GSM416611
Status Public on Aug 25, 2009
Title NIH3T3
Sample type SRA
 
Source name cell line
Organism Mus musculus
Characteristics cell line: NIH3T3
Growth protocol RNA was harvested from exponentially growing cells
Extracted molecule total RNA
Extraction protocol Total RNA extracted using standard Trizol extraction. Total RNA fractionated on 15% polyacrylamide gel and 3' and 5' adaptors sequentially ligated requiring a 3' hydroxyl group and 5' phosphate
 
Library strategy RNA-Seq
Library source transcriptomic
Library selection size fractionation
Instrument model Illumina Genome Analyzer
 
Description none
Data processing Reads containing linker matches were mapped (after removing linkers) to predicted pre-miRNAs (MirBase version 12.0)
 
Submission date Jun 11, 2009
Last update date May 15, 2019
Contact name Christine Mayr
E-mail(s) mayrc@mskcc.org
Organization name Whitehead Institute
Street address 9 Cambridge Center
City Cambridge
State/province MA
ZIP/Postal code 02142
Country USA
 
Platform ID GPL9185
Series (1)
GSE16579 miRNA expression of human cancer and mouse cell lines
Relations
SRA SRX012254
BioSample SAMN00004407

Data table header descriptions
SEQUENCE
COUNT counts

Data table
SEQUENCE COUNT
AGCGTGTAGGGATCCAAATCGTATGCCGTCTTCTGC 214490
AGCGTGTAGGGATCCAAATCGTATGCCGTCTTCTGT 134159
TTAACGCGGCCGCTCTACAATAGTGATCGTATGCCG 117726
GGCATTAACGCGGCCGCTCTACAATAGTGATCGTAT 56915
TAGCTTATCAGACTGATGTTGACTCGTATGCCGTCT 50071
AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA 49618
CATTAACGCGGCCGCTCTACAATAGTGATCGTATGC 40872
TCCCTGAGACCCTAACTTGTGATCGTATGCCGTCTT 40028
AGCGTGTAGGGATCCAAATCGTATGCCGTCTTCTTT 38688
AGCGTGTAGGGATCCAAATCGTATGCCGTCTTCTTC 37459
TAGCTTATCAGACTGATGTTGATCGTATGCCGTCTT 36740
TTCAAGTAATCCAGGATAGGCTTCGTATGCCGTCTT 31153
AGCGTGTAGGGATCCAAATCGTATGCCGTCTTTTGT 29720
TGGCTCAGTTCAGCAGGAACAGTCGTATGCCGTCTT 28003
TGAGGTAGTAGGTTGTATGGTTTCGTATGCCGTCTT 24751
TGGCTCAGTTCAGCAGGAACAGTTCGTATGCCGTCT 21785
AAGCTGCCAGTTGAAGAACTGTTCGTATGCCGTCTT 20178
CAGTGCAATGTTAAAAGGGCATTCGTATGCCGTCTT 19430
AGCGTGTAGGGATCCAAATCGTATGCCGTCTTTTTT 19166
TTAACGCGGCCGCTCTACAATAGTGATCGTATTCCG 18208

Total number of rows: 759837

Table truncated, full table size 28966 Kbytes.




Supplementary data files not provided
SRA Run SelectorHelp
Processed data included within Sample table
Raw data are available in SRA
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