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Sample GSM416758 Query DataSets for GSM416758
Status Public on Aug 25, 2009
Title SW480
Sample type SRA
 
Source name cell line
Organism Homo sapiens
Characteristics cell line: SW480
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 12, 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 GPL9052
Series (1)
GSE16579 miRNA expression of human cancer and mouse cell lines
Relations
SRA SRX012260
BioSample SAMN00004413

Data table header descriptions
SEQUENCE
COUNT counts

Data table
SEQUENCE COUNT
AGCGTGTAGGGATCCAAATCGTATGCCGTCTTCTGC 524860
AGCGTGTAGGGATCCAAATCGTATGCCGTCTTCTGT 285941
TTAACGCGGCCGCTCTACAATAGTGATCGTATGCCG 161157
TAGCTTATCAGACTGATGTTGACTCGTATGCCGTCT 158431
TAGCTTATCAGACTGATGTTGATCGTATGCCGTCTT 151970
GGCATTAACGCGGCCGCTCTACAATAGTGATCGTAT 99905
CATTAACGCGGCCGCTCTACAATAGTGATCGTATGC 48889
TGAGGTAGTAGGTTGTATAGTTTCGTATGCCGTCTT 42294
TAGCACCATCTGAAATCGGTTATCGTATGCCGTCTT 41140
TGAGGTAGTAGATTGTATAGTTTCGTATGCCGTCTT 35823
AGCGTGTAGGGATCCAAATCGTATGCCGTCTTTTGT 30686
TTCAAGTAATCCAGGATAGGCTTCGTATGCCGTCTT 29558
TAGCACCATTTGAAATCAGTGTTTCGTATGCCGTCT 25912
GCGTGTAGGGATCCAAATCGTATGCCGTCTTCTGCT 24592
TTAAGACTTGCAGTGATGTTTTCGTATGCCGTCTTT 23441
TAATACTGCCGGGTAATGATGGATCGTATGCCGTCT 20647
TTAAGACTTGCAGTGATGTTTATCGTATGCCGTCTT 20560
AGCGTGTAGGGATCCAAATCGTATGCCGTCTTCTTT 19834
AGCAGCATTGTACAGGGCTATGATCGTATGCCGTCT 19147
AGCGTGTAGGGATTCGTATGCCGTCTTCTGCTTGAA 18081

Total number of rows: 560242

Table truncated, full table size 21360 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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