The specificity of gene activation was revealed by RNA-seq in the HEK293T cells transfected with the dCasMINI-VPR or dhpCasMINI-VPR system targeting IL1RN [RNA-seq]
RNA-seq (gene expression) · human · 18 samples
- What it is
- RNA-seq (gene expression)Gene activity measured by sequencing. The summary does not mention single-cell work, so this is most likely bulk: one average per sample, the usual starting point for comparing groups.
- Organism
- Homo sapiens (human)
- Samples
- 18 samples: 3 × Ctrl_IL1RN_Activation vs 3 × dCasMINI_IL1RN_Activation vs 3 × dhpCasMINI_IL1RN_ActivationGroups are read from the sample names, not from the paper. Check the list below.
- Data you can get
- A processed table (series matrix) and supplementary files from NCBI; the raw sequencing reads from ENA. Which of these hold counts depends on the study, so check the file list.
Direct links to NCBI and ENA, no account and no request form. Pick by what you want to do: take the small processed table to look, the supplementary files to re-analyse, or the original raw data to start over.
Processed table
The series matrix: one table of values per sample as the submitters processed it. The smallest download, and it opens in Excel or R. Start here to see what the data look like.
Supplementary files
The count tables and other files the authors uploaded. Take only the samples you need, or the whole study as GSE270586_RAW.tar (it can run to tens of gigabytes).
Raw sequencing reads
The original FASTQ files, straight from the sequencer, held at ENA. Large, and you align them yourself, so only choose this if you need to re-process the study from scratch.
What the files usually look like: For RNA-seq the counts are usually a table among the supplementary files (look for 'counts', 'expression', 'FPKM' or 'TPM' in the file name). The series matrix of a sequencing study is sometimes nearly empty.
Also filed as BioProject PRJNA1127525 and SRA study SRP515816. Searching any of these in the dataset finder brings you back here.
Supports a between-group comparison across 9 samples.
How we read this: 3 replicated groups read from 18 sample titles; they account for 9 of them. These groups are guessed from the sample names, not taken from the paper, so check them against the sample list below before relying on them.
- GSM8347741 Ctrl_IL1RN_Activation_Rep1 Ctrl_IL1RN_Activation
- GSM8347742 Ctrl_IL1RN_Activation_Rep2 Ctrl_IL1RN_Activation
- GSM8347743 Ctrl_IL1RN_Activation_Rep3 Ctrl_IL1RN_Activation
- GSM8347744 dCasMINI_IL1RN_Activation_Rep1 dCasMINI_IL1RN_Activati…
- GSM8347745 dCasMINI_IL1RN_Activation_Rep2 dCasMINI_IL1RN_Activati…
- GSM8347746 dCasMINI_IL1RN_Activation_Rep3 dCasMINI_IL1RN_Activati…
- GSM8347747 dhpCasMINI_IL1RN_Activation_Rep1 dhpCasMINI_IL1RN_Activa…
- GSM8347748 dhpCasMINI_IL1RN_Activation_Rep2 dhpCasMINI_IL1RN_Activa…
- GSM8347749 dhpCasMINI_IL1RN_Activation_Rep3 dhpCasMINI_IL1RN_Activa…
- GSM8747275 The specificity of gene activation by RNA-seq transfected without dAsCas12f1-VPR or dhpAsCas12f1-VPR, repeat 1.
- GSM8747276 The specificity of gene activation by RNA-seq transfected without dAsCas12f1-VPR or dhpAsCas12f1-VPR, repeat 2.
- GSM8747277 The specificity of gene activation by RNA-seq transfected without dAsCas12f1-VPR or dhpAsCas12f1-VPR, repeat 3.
- GSM8747278 The specificity of gene activation by RNA-seq transfected with the dAsCas12f1-VPR targeting IL1RN, repeat 1.
- GSM8747279 The specificity of gene activation by RNA-seq transfected with the dAsCas12f1-VPR targeting IL1RN, repeat 2.
- GSM8747280 The specificity of gene activation by RNA-seq transfected with the dAsCas12f1-VPR targeting IL1RN, repeat 3.
- GSM8747281 The specificity of gene activation by RNA-seq transfected with the dhpAsCas12f1-VPR targeting IL1RN, repeat 1.
- GSM8747282 The specificity of gene activation by RNA-seq transfected with the dhpAsCas12f1-VPR targeting IL1RN, repeat 2.
- GSM8747283 The specificity of gene activation by RNA-seq transfected with the dhpAsCas12f1-VPR targeting IL1RN, repeat 3.
- GSE186299 Comparative Analysis of Transcriptional RNA Expression in HEK293T Cells Transfected with the H3N2 Subtype Canine Influenza Viruses M1/M2 and Canine RIG-I 15 samples shares hek293t, transfected
- GSE228350 Comparison the transcriptional changes of HEK293T cells transfected with synthesized vcDNA 15 samples shares hek293t, transfected
- GSE337551 Transcriptional response to RfxCas13d with mCherry targeting crRNA in HEK293T 6 samples shares hek293t, targeting
- GSE317890 Transcriptomic profiling of interferon responses induced by IVT sgRNAs in CRISPRi HEK293T cells 360 samples shares hek293t
- GSE315903 Temporal dynamics and functional annotation of transcriptome rhythmicity in HEK293T cells 39 samples shares hek293t
- GSE335700 RNA sequencing of vtRNA-knockout HEK293T cell lines 36 samples shares hek293t
- GSE242550 SRSF1 knockdown in HEK293T cells with ionizing radiation 20 samples shares hek293t
- GSE247514 Transcriptional response induced by knockdown of HUWE1 in human HEK293T cells 20 samples shares hek293t
Metadata from NCBI GEO, cached and refreshed periodically — the NCBI page above is authoritative. Downloads link straight to NCBI/ENA; nothing is proxied through BioTransfer.