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| Status |
Public on Feb 25, 2019 |
| Title |
Control3 |
| Sample type |
SRA |
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| Source name |
AML12
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| Organism |
Mus musculus |
| Characteristics |
cell line: AML12
cell type: Hepatocyte
genotype/variation: Control
treatment: None
treatment time: 0min
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| Treatment protocol |
Cells were serum starved overnight with DMEM + 0.1% BSA, then mock treated or treated with insulin (100 nM) for 6 h.
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| Extracted molecule |
total RNA |
| Extraction protocol |
RNA was isolated via a Qiagen RNeasy mini Kit.
RNA libraries were prepared using NEBNext Sample Prep Master Mix kit.
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| Library strategy |
RNA-Seq |
| Library source |
transcriptomic |
| Library selection |
cDNA |
| Instrument model |
Illumina HiSeq 2500 |
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| Description |
TRA00073542
PolyA RNA
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| Data processing |
Illumina Casava 1.8 software used for basecalling.
Sequenced reads were trimmed for adaptor sequence mapped to GRCm38.p4 whole genome using STAR 2.4.2a with relevant parameters --outFilterIntronMotifs RemoveNoncanonicalUnannotated --twopassMode Basic
Count matrices were generated using the R package featureCounts with parameters useMetaFeatures = TRUE, allowMultiOverlap = FALSE, isPairedEnd = TRUE, countMultiMappingReads = FALSE
Genome_build: GRCm38.p4
Supplementary_files_format_and_content: *.txt: Tab-delimited text files include raw counts for each sample.
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| Submission date |
Feb 13, 2018 |
| Last update date |
Feb 26, 2019 |
| Contact name |
Alfred Ramirez |
| E-mail(s) |
[email protected]
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| Organization name |
Joslin Diabetes Center
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| Street address |
One Joslin Place
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| City |
Boston |
| State/province |
MA |
| ZIP/Postal code |
02215 |
| Country |
USA |
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| Platform ID |
GPL17021 |
| Series (1) |
| GSE110574 |
FoxK1/2 – New Components in Insulin Regulation of Cellular and Mitochondrial Metabolism |
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| Relations |
| BioSample |
SAMN08533313 |
| SRA |
SRX3697268 |
| Supplementary file |
Size |
Download |
File type/resource |
| GSM3003431_Control3_0min.txt.gz |
229.8 Kb |
(ftp)(http) |
TXT |
SRA Run Selector |
| Raw data are available in SRA |
| Processed data provided as supplementary file |
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