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GEO help: Mouse over screen elements for information. |
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| Status |
Public on Oct 23, 2018 |
| Title |
M-1 |
| Sample type |
SRA |
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| Source name |
Mouse M-1 cells
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| Organism |
Mus musculus |
| Characteristics |
cell line: M-1
cell type: normal mouse M-1 cells
tissue: kidney
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| Extracted molecule |
total RNA |
| Extraction protocol |
RNA was isolated from siCTRL and siNSUN2 HeLa cells and 3T3-L1 cells, mutiple human other cell lines, mouse other cell lines and 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 HiSeq2000 or HiSeq3000 (Illumina) in paired-read mode, creating reads with a length of 101 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 |
Transcriptome of normal M-1 cells
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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 v0.5.3
Genome_build: mm10
Supplementary_files_format_and_content: txt format with read counts
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| Submission date |
May 13, 2016 |
| 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 |
GPL21493 |
| Series (1) |
| GSE74333 |
Transcriptomics analysis of gene expression in multiple human and mouse cells and tissues |
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| Relations |
| BioSample |
SAMN04998856 |
| SRA |
SRX1760408 |
| Supplementary file |
Size |
Download |
File type/resource |
| GSM2152265_M-1_union.txt.gz |
140.6 Kb |
(ftp)(http) |
TXT |
SRA Run Selector |
| Raw data are available in SRA |
| Processed data provided as supplementary file |
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