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| Status |
Public on Feb 09, 2016 |
| Title |
A549 RFP |
| Sample type |
SRA |
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| Source name |
A549 cells
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| Organism |
Homo sapiens |
| Characteristics |
cell line: A549
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| Extracted molecule |
total RNA |
| Extraction protocol |
Ribosome profiling
NEBNext small RNA library preparation
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| Library strategy |
RNA-Seq |
| Library source |
transcriptomic |
| Library selection |
size fractionation |
| Instrument model |
Illumina HiSeq 2500 |
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| Description |
ribosome footprints
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| Data processing |
the adapter sequences were removed from all reads
Reads were truncated at their first nucleotides, whose Phred quality scores were less than 10. Reads shorter than 18 nt were then discarded.
The rest high quality reads were aligned to the RefSeq-RNA reference sequence using FANSe2 algorithm (http://bioinformatics.jnu.edu.cn/software/fanse2/) with the parameters –L60 –E2 –U1 –S10.
Genome_build: hg19
Supplementary_files_format_and_content: rpkm
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| Submission date |
Feb 04, 2014 |
| Last update date |
May 15, 2019 |
| Contact name |
Gong Zhang |
| E-mail(s) |
zhanggong@jnu.edu.cn
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| Organization name |
Jinan University
|
| Department |
Institute of Life and Health Engineering
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| Lab |
Translatomics Lab
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| Street address |
Huang-Pu Avenue West 601
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| City |
Guangzhou |
| ZIP/Postal code |
510632 |
| Country |
China |
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| Platform ID |
GPL16791 |
| Series (1) |
| GSE46613 |
Genome-wide and experimental resolution of relative translation elongation speed at individual gene level in human cells |
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| Relations |
| BioSample |
SAMN02617797 |
| SRA |
SRX462782 |
| Supplementary data files not provided |
SRA Run Selector |
| Raw data are available in SRA |
| Processed data are available on Series record |
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