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| Status |
Public on Sep 26, 2014 |
| Title |
HEK293_microRNAs |
| Sample type |
SRA |
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| Source name |
Human HEK293 cells
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| Organism |
Homo sapiens |
| Characteristics |
cell line: HEK293
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| Extracted molecule |
total RNA |
| Extraction protocol |
Culture medium was aspirated from 35 mm diameter dishes and cells were lysed immediately in Trizol (Invitrogen) for total RNA extraction.
Small RNA sequencing libraries were prepared using Illumina TruSeq Small RNA Sequencing kits (version C); following adapter ligation to total RNA, small RNAs were PCR-amplified and size-selected on 6% TBE PAGE.
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| Library strategy |
RNA-Seq |
| Library source |
transcriptomic |
| Library selection |
cDNA |
| Instrument model |
Illumina HiSeq 2000 |
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| Description |
small RNA (<70 nt)
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| Data processing |
Illumina Casava1.8 software was used for basecalling; all 50 nt reads use phred33 quality scores.
Sequence reads were mapped to the human or rat genome, followed by microRNA assignment and quantitation using sRNAbench
Processed data are supplied as read counts as well as reads per million.
Genome_build: Human GRCh38; rat Rn5
Supplementary_files_format_and_content: tab-delimited text files include read count and reads per million values for each microRNA
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| Submission date |
Sep 25, 2014 |
| Last update date |
May 15, 2019 |
| Contact name |
Scot J Matkovich |
| E-mail(s) |
sjmatkovich@lilly.com
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| Organization name |
Eli Lilly and Company
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| Street address |
Lilly Corporate Center
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| City |
Indianapolis |
| State/province |
IN |
| ZIP/Postal code |
46285 |
| Country |
USA |
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| Platform ID |
GPL11154 |
| Series (1) |
| GSE61770 |
microRNA sequencing of HEK293 and H9c2 cells |
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| Relations |
| BioSample |
SAMN03079754 |
| SRA |
SRX710375 |
| Supplementary file |
Size |
Download |
File type/resource |
| GSM1513689_HEK293_basal_smallRNA_sRNAbench.txt.gz |
4.2 Kb |
(ftp)(http) |
TXT |
SRA Run Selector |
| Raw data are available in SRA |
| Processed data provided as supplementary file |
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