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GEO help: Mouse over screen elements for information. |
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| Status |
Public on Jan 25, 2024 |
| Title |
Dp1Tyb, L21, 4 |
| Sample type |
SRA |
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| Source name |
heart
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| Organism |
Mus musculus |
| Characteristics |
developmental stage: E13.5
tissue: heart
genotype: Dp1Tyb
treatment: L21
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| Treatment protocol |
Pregnant mice were treated daily by oral gavage with 30mg/kg of L21 or Iso-L21 from embryonic day 5.5 to E13.5.
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| Extracted molecule |
total RNA |
| Extraction protocol |
E13.5 frozen embryonic hearts were placed in lysis buffer and homogenized using a cordless Pellet pestle (Sigma-Aldrich) followed by RNA extraction using RNAeasy micro kit (Qiagen)
polyA enriched libraries usingNEBNext®Ultra™II Directional RNA Library Prep Kit for Illumina according to manufacturer’s instructions. An average 25 million pair end reads per library (PE100) were generated on a NovaSeq6000 (Illumina).
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| Library strategy |
RNA-Seq |
| Library source |
transcriptomic |
| Library selection |
cDNA |
| Instrument model |
Illumina NovaSeq 6000 |
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| Data processing |
nf-core Nextflow RNAseq pipeline, revision 3.10.1 (https://github.com/nf-core/rnaseq), with STAR aligner and RSEM quantification - all other parameers as default
Assembly: GRCm38, release 95
Supplementary files format and content: tab-delimited text file containing expected counts, TPM, FPKM per gene detected
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| Submission date |
Aug 01, 2023 |
| Last update date |
Jan 25, 2024 |
| Contact name |
Victor Tybulewicz |
| E-mail(s) |
Victor.T@crick.ac.uk
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| Organization name |
Francis Crick Institute
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| Street address |
1 Midland Road
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| City |
London |
| ZIP/Postal code |
NW1 1AT |
| Country |
United Kingdom |
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| Platform ID |
GPL24247 |
| Series (2) |
| GSE196447 |
Down Syndrome |
| GSE239798 |
Effect of Dyrk1a inhibition on the transcriptome of embryonic hearts from the Dp1Tyb mouse model of Down syndrome using bulk RNAseq |
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| Relations |
| BioSample |
SAMN36795284 |
| SRA |
SRX21218695 |
| Supplementary file |
Size |
Download |
File type/resource |
| GSM7673472_LAN5770A7.genes.results.gz |
1.1 Mb |
(ftp)(http) |
RESULTS |
SRA Run Selector |
| Raw data are available in SRA |
| Processed data provided as supplementary file |
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