TDO2 promotes hepatocellular carcinoma by regulating tryptophan-kynurenine pathway
RNA-seq (gene expression) · mouse · 20 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
- Mus musculus (mouse)
- Samples
- 20 samples: 5 × KD vs 5 × KD-NC vs 5 × OE vs 5 × OE-NCGroups 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.
Read the full summary ↓
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 GSE309614_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 PRJNA1336613 and SRA study SRP629951. Searching any of these in the dataset finder brings you back here.
Supports a between-group comparison across 20 samples.
How we read this: 4 replicated groups read from 20 sample titles; they account for 20 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.
- GSM9270480 KD1 KD
- GSM9270481 KD5 KD
- GSM9270482 KD6 KD
- GSM9270483 KD9 KD
- GSM9270484 KD10 KD
- GSM9270485 KD-NC1 KD-NC
- GSM9270486 KD-NC5 KD-NC
- GSM9270487 KD-NC6 KD-NC
- GSM9270488 KD-NC9 KD-NC
- GSM9270489 KD-NC10 KD-NC
- GSM9270490 OE1 OE
- GSM9270491 OE2 OE
- GSM9270492 OE6 OE
- GSM9270493 OE8 OE
- GSM9270494 OE9 OE
- GSM9270495 OE-NC1 OE-NC
- GSM9270496 OE-NC2 OE-NC
- GSM9270497 OE-NC6 OE-NC
- GSM9270498 OE-NC8 OE-NC
- GSM9270499 OE-NC9 OE-NC
- GSE295816 Tissue factor pathway inhibitor promotes the migration, proliferation and colonization of MSCs by regulating CXCL12/CXCR4 signaling pathway 20 samples shares regulating, promotes
- GSE271243 Berberine protects against hepatocellular carcinoma progression by regulating intrahepatic T cell heterogeneity 18 samples shares hepatocellular, regulating
- GSE301140 Dual Programmed Death Receptor-1 and Vascular Endothelial Growth Factor Receptor-2 Blockade Promotes Vascular Normalization and Enhances Antitumor Immune Responses in Hepatocellular Carcinoma 18 samples shares hepatocellular, promotes
- GSE230838 Loss of cisPTase function in the liver promotes a highly penetrant form of fatty liver disease that rapidly transitions to hepatocellular carcinoma [RNA-seq] 17 samples shares hepatocellular, promotes
- GSE300428 Rbm24 promotes outer hair cell survival through Insm1 repression while independently regulating hair bundle morphogenesis 163 samples shares regulating, promotes
- GSE252394 Fgf9 promotes adipogenesis and reduces osteogenesis by regulating mesenchymal stromal cells differentiation in adult bone marrow 18 samples shares regulating, promotes
- GSE298134 The m6A methyltransferase METTL14 promotes oncogenic Kras induced juvenile myelomonocytic leukemia through dysregulating autophagy 12 samples shares regulating, promotes
- GSE292533 Elevated brain manganese induces motor disease by up-regulating the kynurenine pathway of tryptophan metabolism 44 samples shares regulating
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.