Wnt/β-catenin signaling regulates amino acid metabolism through the suppression of CEBPA and FOXA1 in liver cancer cells [RNA-seq]
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: 5 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
- Wnt/β-catenin signaling regulates amino acid metabolism through the suppression of CEBPA and FOXA1 in liver cancer cellsCommunications biology · 2024
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 GSE244526_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 PRJNA1023495 and SRA study SRP464296. Searching any of these in the dataset finder brings you back here.
Supports a between-group comparison across 15 samples.
How we read this: 5 replicated groups read from 15 sample titles; they account for 15 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.
- GSM7818660 HuH-7 cells, siControl, replicate 1 HuH-7 cells, siControl,
- GSM7818661 HuH-7 cells, siControl, replicate 2 HuH-7 cells, siControl,
- GSM7818662 HuH-7 cells, siControl, replicate 3 HuH-7 cells, siControl,
- GSM7818663 HuH-7 cells, siCEBPA-1, replicate 1 HuH-7 cells, siCEBPA-1,
- GSM7818664 HuH-7 cells, siCEBPA-1, replicate 2 HuH-7 cells, siCEBPA-1,
- GSM7818665 HuH-7 cells, siCEBPA-1, replicate 3 HuH-7 cells, siCEBPA-1,
- GSM7818666 HuH-7 cells, siCEBPA-2, replicate 1 HuH-7 cells, siCEBPA-2,
- GSM7818667 HuH-7 cells, siCEBPA-2, replicate 2 HuH-7 cells, siCEBPA-2,
- GSM7818668 HuH-7 cells, siCEBPA-2, replicate 3 HuH-7 cells, siCEBPA-2,
- GSM7818669 HuH-7 cells, siFOXA1-1, replicate 1 HuH-7 cells, siFOXA1-1,
- GSM7818670 HuH-7 cells, siFOXA1-1, replicate 2 HuH-7 cells, siFOXA1-1,
- GSM7818671 HuH-7 cells, siFOXA1-1, replicate 3 HuH-7 cells, siFOXA1-1,
- GSM7818672 HuH-7 cells, siFOXA1-2, replicate 1 HuH-7 cells, siFOXA1-2,
- GSM7818673 HuH-7 cells, siFOXA1-2, replicate 2 HuH-7 cells, siFOXA1-2,
- GSM7818674 HuH-7 cells, siFOXA1-2, replicate 3 HuH-7 cells, siFOXA1-2,
- GSE190488 RNA-Seq analysis of b-catenin over expression in Human liver cancer cells 18 samples shares catenin, rna-seq, liver
- GSE286032 MECOM is a master repressor of myeloid differentiation through dose control of CEBPA in acute myeloid leukemia [RNA-seq] 65 samples shares cebpa, rna-seq
- GSE242735 NSD2 is a requisite subunit of the AR/FOXA1 neo-enhanceosome in promoting prostate tumorigenesis [RNA-seq] 32 samples shares foxa1, rna-seq
- GSE279872 Targeting FOXA1 and FOXA2 Disrupts the Lineage-Specific Oncogenic Output in Prostate Cancer [RNA-seq] 30 samples shares foxa1, rna-seq
- GSE265762 Individual RNA-seq for different prostate cancer cells and Lucap145.2 PDX treated by JQ1, AZD5153,ENZ or by FOXA1 and BRD4 gene knockdown 20 samples shares foxa1, rna-seq
- GSE312017 A FOXA1/SPDEF Co-regulatory Axis Maintains Luminal Identity in HER2-Positive Breast Cancer by Driving ERBB2 Expression and Suppressing a TEAD/YAP-Driven EMT Program [RNA-Seq] 16 samples shares foxa1, rna-seq
- GSE299760 Mapping the FOXA1 Interactome in ER+ Breast Cancer Cells using Proximity Labeling Reveals Novel Interactions with the Orphan Nuclear Receptor NR2C2 [RNA-Seq] 12 samples shares foxa1, rna-seq
- GSE246363 RNA-seq of MCF-7 cells with ER or FOXA1 knockout and/or GDC-9545 treatment 10 samples shares foxa1, rna-seq
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.