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Status |
Public on Feb 15, 2013 |
Title |
HeLa siControl RNASeq |
Sample type |
SRA |
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Source name |
HeLa cells
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Organism |
Homo sapiens |
Characteristics |
passages: 10-15 cell line: HeLa treatment: siControl
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Extracted molecule |
total RNA |
Extraction protocol |
RNA was harvested using Trizol reagent. Illumina TruSeq RNA Sample Prep Kit (Cat#FC-122-1001) was used with 1 ug of total
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Library strategy |
RNA-Seq |
Library source |
transcriptomic |
Library selection |
cDNA |
Instrument model |
Illumina HiSeq 2000 |
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Description |
knock down control
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Data processing |
Illumina Casava 1.8.2 software used for basecalling. Sequenced reads were trimmed for adaptor sequence, and masked for low-complexity or low-quality sequence, then mapped to hg19 and mm9 whole genome using tophat with -n 2 -g 1 Reads Per Kilobase of exon per Megabase of library size (RPKM) were calculated using cuffdiff Genome_build: hg19,mm9 Supplementary_files_format_and_content: tab-delimited text files include RPKM values for each Sample
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Submission date |
Aug 15, 2012 |
Last update date |
May 15, 2019 |
Contact name |
zhike lu |
E-mail(s) |
zhikelu@gmail.com
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Organization name |
University of Chicago
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Department |
department of chemistry
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Street address |
5801 South Ellis Avenue
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City |
Chicago |
State/province |
IL |
ZIP/Postal code |
60637 |
Country |
USA |
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Platform ID |
GPL11154 |
Series (1) |
GSE40132 |
ALKBH5 is a New Mammalian RNA Demethylase |
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Relations |
SRA |
SRX176913 |
BioSample |
SAMN01113364 |
Supplementary file |
Size |
Download |
File type/resource |
GSM986109_HeLa.Conc.gene.txt.gz |
650.0 Kb |
(ftp)(http) |
TXT |
GSM986109_HeLa.Conc.isoform.txt.gz |
753.4 Kb |
(ftp)(http) |
TXT |
SRA Run Selector |
Raw data are available in SRA |
Processed data provided as supplementary file |
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