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Discovery and prediction study of the dominant pharmacological action organ of Aconitum carmichaeli Debeaux using multiple bioinformatic analyses

GSE273185 Homo sapiens (human) RNA-seq (gene expression) 36 samples Submitted 2024/07/29 Platform GPL30209
At a glance

RNA-seq (gene expression) · human · 36 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
36 samples: 12 conditions, mostly in triplicateGroups 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.
Paper
Discovery and Prediction Study of the Dominant Pharmacological Action Organ of Aconitum carmichaeli Debeaux Using Multiple Bioinformatic AnalysesInternational journal of molecular sciences · 2024
Summary (written by the submitters)
This study aimed to identify the modes of action (MOA) of Aconitum carmichaeli Debeaux water extract (ACDW) in HT29 and SW1783 cell line.
Published in
Discovery and Prediction Study of the Dominant Pharmacological Action Organ of Aconitum carmichaeli Debeaux Using Multiple Bioinformatic Analyses
Park M, Seo EH, Yi JM et al. · International journal of molecular sciences 2024 · PMID 39337710 · doi:10.3390/ijms251810219
This dataset
Open GSE273185 in finder → Find more human RNA-seq datasets →
Download · which file do I need?

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.

1 · Just have a look

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.

Series matrix ↓
2 · Re-analyse it

Supplementary files

The count tables and other files the authors uploaded. Take only the samples you need, or the whole study as GSE273185_RAW.tar (it can run to tens of gigabytes).

All supplementary files ↗ Whole study · RAW.tar ↓
3 · Start from the raw reads

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.

Raw reads on ENA ↗

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 PRJNA1140573 and SRA study SRP522431. Searching any of these in the dataset finder brings you back here.

NCBI GEO page ↗ Paper (PMID 39337710) ↗
Study design
12 conditions, mostly in triplicate
HT29_BatchA_Vehicle(DMSO) ×3 HT29_BatchA_Wortmannin ×3 HT29_BatchB_Vehicle(DMSO) ×3 HT29_BatchB_water extract of Aconiti Laterali… ×3 HT29_BatchB_water extract of Aconiti Laterali… ×3 HT29_BatchB_water extract of Aconiti Laterali… ×3 SW1783_BatchA_Vehicle(DMSO) ×3 SW1783_BatchA_Wortmannin ×3 +4 more

Supports a between-group comparison across 36 samples.

How we read this: 12 replicated groups read from 36 sample titles; they account for 36 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.

Samples in this study
Datasets on a similar topic

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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.