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| Status |
Public on Apr 19, 2017 |
| Title |
HeLa-siCTRL-T-rep1 |
| Sample type |
SRA |
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| Source name |
Human HeLa cells
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| Organism |
Homo sapiens |
| Characteristics |
cell line: HeLa
treatment: siCTRL
age: P7
tissue: carcinoma cervical
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| Extracted molecule |
total RNA |
| Extraction protocol |
RNA was isolated from siCTRL, siNSUN2 and ALYREF-RIP HeLa cells, and mutiple mouse tissues using the TRIzol (Invitrogen) reagent by following the company manual. For all samples the RNA integrity was checked using an Agilent Bioanalyzer 2100
Approximately 2.5 µg of total RNA was then used for library preparation using a TruSeq™ RNA Sample Prep Kit v2 (Illumina, San Diego, CA, USA) according to the manufacturer’s protocol.The libraries were sequenced using HiSeq3000 (Illumina) or HiSeq2500 in paired-read mode, creating reads with a length of 101 or 125 bp
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| Library strategy |
RNA-Seq |
| Library source |
transcriptomic |
| Library selection |
cDNA |
| Instrument model |
Illumina HiSeq 3000 |
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| Description |
normal HeLa cells rep1
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| Data processing |
Reads were aligned to the hg19 or mm10 genome assembly using TopHat v2.0.9
For each sample, reads counts of all genes were computed using HTSeq v0.5.3p9
Genome_build: hg19 or mm10
Supplementary_files_format_and_content: all-samples-reads-count.xls
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| Submission date |
Jan 18, 2017 |
| Last update date |
May 15, 2019 |
| Contact name |
Bao-Fa Sun |
| E-mail(s) |
sunbf@big.ac.cn
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| Organization name |
Beijing Institute of Genomics (BIG) of Chinese Academy of Sciences (CAS)
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| Street address |
Da-Tun Road
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| City |
Beijing |
| ZIP/Postal code |
100101 |
| Country |
China |
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| Platform ID |
GPL21290 |
| Series (2) |
| GSE93750 |
Transcriptomics of siCTRL, siNSUN2 and ALYREF-RIP HeLa cells, and multiple mouse tissues |
| GSE93751 |
5-methylcytosine promotes mRNA export |
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| Relations |
| BioSample |
SAMN06237543 |
| SRA |
SRX2499547 |
| 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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