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| Status |
Public on Oct 01, 2023 |
| Title |
Input_NS |
| Sample type |
SRA |
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| Source name |
MCEC
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| Organism |
Mus musculus |
| Characteristics |
cell line: MCEC
cell type: Endothelial Cells
treatment: 0 ng/ml TGF-Beta
rip antibody: none (input)
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| Treatment protocol |
NS vs. TGF-β
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| Extracted molecule |
total RNA |
| Extraction protocol |
RIP-IP
Novogene
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| Library strategy |
RIP-Seq |
| Library source |
transcriptomic |
| Library selection |
other |
| Instrument model |
Illumina NovaSeq 6000 |
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| Data processing |
Trimming, Skewer v. 0.1.126
QC, fastqc
rRNA removal, bowtie v. 2
Mapping, BWA v. 0.7.12
Peak calling, MACS2 v. 2.1.0
Motif predication, meme v. 4.10.2
Peak annotation, PeakAnnotator_Cpp v. 1.4
Diff analysis, diffbind
Assembly: ensembl_mus_musculus_grcm38_p6_gca_000001635_8
Supplementary files format and content: bw, Excel files from differentially expressed genes
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| Submission date |
Oct 20, 2022 |
| Last update date |
Oct 01, 2023 |
| Contact name |
Joerg Heineke |
| E-mail(s) |
joerg.heineke@medma.uni-heidelberg.de
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| Organization name |
Medical Faculty of Mannheim Heidelberg University
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| Department |
Cardiovascular Physiology
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| Street address |
Ludolf-Krehlstr. 7-11 Tridomus B
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| City |
Mannheim |
| ZIP/Postal code |
68167 |
| Country |
Germany |
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| Platform ID |
GPL24247 |
| Series (2) |
| GSE216226 |
TGF-β regulated RNA-binding proteins control endothelial function and mesenchymal transition in cardiac endothelial cells [RIP-seq] |
| GSE216228 |
TGF-β regulated RNA-binding proteins control endothelial function and mesenchymal transition in cardiac endothelial cells |
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| Relations |
| BioSample |
SAMN31250914 |
| SRA |
SRX17970177 |
| Supplementary file |
Size |
Download |
File type/resource |
| GSM6663207_InputNS.bw |
18.4 Mb |
(ftp)(http) |
BW |
SRA Run Selector |
| Raw data are available in SRA |
| Processed data provided as supplementary file |
| Processed data are available on Series record |
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