Transcriptomics profiling in mouse xenografts derived from UMUC3 Control and FASNKD cells treated with 10%CSM (Cigarette smoke media) and regular media conditions.
RNA-seq (gene expression) · human · 14 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
- 14 samples: 4 × UMUC3_Control_sh_Smoke vs 4 × UMUC3_FASN_KD_Smoke vs 3 × UMUC3_Control_sh vs 3 × UMUC3_FASN_KDGroups 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
- Cigarette smoke induces FASN-dependent fatty acid metabolic rewiring to drive bladder cancer progressionCancer letters · 2026
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 GSE309671_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 PRJNA1336726 and SRA study SRP630039. Searching any of these in the dataset finder brings you back here.
Supports a between-group comparison across 14 samples.
How we read this: 4 replicated groups read from 14 sample titles; they account for 14 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.
- GSM9271840 UMUC3_Control_sh_1 UMUC3_Control_sh
- GSM9271841 UMUC3_Control_sh_2 UMUC3_Control_sh
- GSM9271842 UMUC3_Control_sh_3 UMUC3_Control_sh
- GSM9271843 UMUC3_FASN_KD_1 UMUC3_FASN_KD
- GSM9271844 UMUC3_FASN_KD_2 UMUC3_FASN_KD
- GSM9271845 UMUC3_FASN_KD_3 UMUC3_FASN_KD
- GSM9271846 UMUC3_Control_sh_Smoke_1 UMUC3_Control_sh_Smoke
- GSM9271847 UMUC3_Control_sh_Smoke_2 UMUC3_Control_sh_Smoke
- GSM9271848 UMUC3_Control_sh_Smoke_3 UMUC3_Control_sh_Smoke
- GSM9271849 UMUC3_Control_sh_Smoke_4 UMUC3_Control_sh_Smoke
- GSM9271850 UMUC3_FASN_KD_Smoke_1 UMUC3_FASN_KD_Smoke
- GSM9271851 UMUC3_FASN_KD_Smoke_2 UMUC3_FASN_KD_Smoke
- GSM9271852 UMUC3_FASN_KD_Smoke_3 UMUC3_FASN_KD_Smoke
- GSM9271853 UMUC3_FASN_KD_Smoke_4 UMUC3_FASN_KD_Smoke
- GSE308925 Chromatin profiling following FASN knockdown in UMUC3 bladder cancer cell lines treated under cigarette smoke media and regular media conditions. 12 samples shares umuc3, conditions, cigarette
- GSE247578 In vivo transcriptome profiling of control and GANAB-KD UMUC3 bladder carcinoma cells 11 samples shares umuc3, control
- GSE291966 An annotated biobank of triple negative breast cancer patient-derived xenografts featuring treatment-naïve and longitudinal samples throughout neoadjuvant chemotherapy 92 samples shares xenografts, derived
- GSE307574 Determinants of long-term response to patritumab deruxtecan (HER3-DXd) in breast cancer patient-derived xenografts 58 samples shares xenografts, derived
- GSE193388 Expression profiling of HPV+ Patient Derived Xenografts (PDXs) by high throughput sequencing 21 samples shares xenografts, derived
- GSE329946 Single-cell RNA-seq profiling of AML patient-derived xenografts across serial transplantation 14 samples shares xenografts, derived
- GSE314755 Dasatinib resensitizes BRAF/MEK inhibitor efficacy in patient-derived xenografts from patients with progression on BRAF/MEK inhibitor treatment 14 samples shares xenografts, derived
- GSE265769 Effect of anti-PD-1 and/or anti-TIGIT antibodies on hepatocellular carcinoma-patient derived xenografts in humanized mice 12 samples shares xenografts, derived
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.