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SRX18173721: GSM6710794: Bulk RNAseq HAP1 HOXD4 WT GFP Rep 1; Homo sapiens; RNA-Seq
1 ILLUMINA (Illumina NovaSeq 6000) run: 48.7M spots, 9.7G bases, 2.9Gb downloads

External Id: GSM6710794_r1
Submitted by: Max Planck Institute for Molecular Genetics
Study: An activity-specificity trade-off encoded in human transcription factors
show Abstracthide Abstract
Transcription factors play essential roles in cell type specification during differentiation, and small sets of transcription factors can reprogram cell identity. Therefore, we tested the impact of increasing periodicity of aromatic residues on the ability of transcription factors to reprogram cells. Overall design: We performed multiple RNAseq, scRNAseq, TTSlamSeq, and ChIPseq of the cells expressing the WT, "AroLITE" and "AroPERFECT" of CEBPa, HOXD4, NGN2, and MYOD1 proteins after transgene induction to measure differentiation of specific cell lines.
Sample: Bulk RNAseq HAP1 HOXD4 WT GFP Rep 1
SAMN31610447 • SRS15672941 • All experiments • All runs
Organism: Homo sapiens
Library:
Name: GSM6710794
Instrument: Illumina NovaSeq 6000
Strategy: RNA-Seq
Source: TRANSCRIPTOMIC
Selection: cDNA
Layout: PAIRED
Construction protocol: HAP1 cells were seeded with a density of 1x105 cells per 6-well and cultured for 3 days until 80% confluency was reached. RNA was extracted using the Direct-zolTM RNA MicroPrep Kit (Zymo Research) following the manufacturer's instructions. 1 μg of RNA of each sample was used as input for library preparation using the KAPA Stranded mRNA-Seq Kit (Roche) following the manufacturer's instructions. Unique Dual-Indexed Set-B (UDI; KAPA biosystems) adapters were ligated and the library was amplified for 8 cycles Paired-end 100 with 50 million fragments per library
Runs: 1 run, 48.7M spots, 9.7G bases, 2.9Gb
Run# of Spots# of BasesSizePublished
SRR2219546948,663,7159.7G2.9Gb2024-02-27

ID:
25156590

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