Comparative Analysis of Transcriptional RNA Expression in HEK293T Cells Transfected with the H3N2 Subtype Canine Influenza Viruses M1/M2 and Canine RIG-I
RNA-seq (gene expression) · human · 15 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
- 15 samples: 3 × HEK293T_M1 vs 3 × HEK293T_M2 vs 3 × HEK293T_R-M1 vs 3 × HEK293T_R-M2Groups 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 GSE186299_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 PRJNA773251 and SRA study SRP342510. Searching any of these in the dataset finder brings you back here.
Supports a between-group comparison across 12 samples.
How we read this: 4 replicated groups read from 15 sample titles; they account for 12 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.
- GSM5643375 HEK293T_M1-1 HEK293T_M1
- GSM5643376 HEK293T_M1-2 HEK293T_M1
- GSM5643377 HEK293T_M1-3 HEK293T_M1
- GSM5643378 HEK293T_M2-1 HEK293T_M2
- GSM5643379 HEK293T_M2-2 HEK293T_M2
- GSM5643380 HEK293T_M2-3 HEK293T_M2
- GSM5643381 HEK293T_R-M1-1 HEK293T_R-M1
- GSM5643382 HEK293T_R-M1-2 HEK293T_R-M1
- GSM5643383 HEK293T_R-M1-3 HEK293T_R-M1
- GSM5643384 HEK293T_R-M2-1 HEK293T_R-M2
- GSM5643385 HEK293T_R-M2-2 HEK293T_R-M2
- GSM5643386 HEK293T_R-M2-3 HEK293T_R-M2
- GSM5643387 HEK293T_Mock-a
- GSM5643388 HEK293T_Mock-b
- GSM5643389 HEK293T_Mock-c
- GSE270586 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] 18 samples shares hek293t, transfected
- GSE228350 Comparison the transcriptional changes of HEK293T cells transfected with synthesized vcDNA 15 samples shares hek293t, transfected
- GSE297006 Endogenous retroviruses promote aberrant T cell differentiation in systemic lupus erythematosus via the RIG-I pathway [SLE] 10 samples shares rig-i, viruses
- GSE288271 Endogenous retroviruses promote aberrant T cell differentiation in systemic lupus erythematosus via the RIG-I pathway [whole transcriptomics] 10 samples shares rig-i, viruses
- GSE273127 Comparative single-cell analysis of esophageal cancer subtypes reveals cellular distinctions explaining varied immunotherapy responses 11 samples shares comparative, subtype
- 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
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.