Transcriptomic changes from resulting from DARPP-32 or DDR1 knockdown
RNA-seq (gene expression) · human · 18 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
- 18 samples: 18 samples, each with a distinct title — no replicated groupsGroups 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
- Transcriptomic Profiling of the Effects of DDR1 in Breast and Ovarian Cancer to Understand the Association Between DDR1 Expression and Patient SurvivalGenes · 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 GSE312892_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 PRJNA1377570 and SRA study SRP653435. Searching any of these in the dataset finder brings you back here.
Any grouping that defines a comparison lives in the sample characteristics, which GEO records separately from the titles.
How we read this: Read from 18 sample titles: 18 distinct titles with little repetition. 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.
- GSM9356549 T47D DDR1 knockdown control (replicate 1)
- GSM9356550 T47D DDR1 knockdown control (replicate 2)
- GSM9356551 T47D DDR1 knockdown control (replicate 3)
- GSM9356552 T47D DDR1 knockdown (replicate 1)
- GSM9356553 T47D DDR1 knockdown (replicate 2)
- GSM9356554 T47D DDR1 knockdown (replicate 3)
- GSM9356555 IGROV1 DDR1 knockdown control (replicate 1)
- GSM9356556 IGROV1 DDR1 knockdown control (replicate 2)
- GSM9356557 IGROV1 DDR1 knockdown control (replicate 3)
- GSM9356558 IGROV1 DDR1 knockdown (replicate 1)
- GSM9356559 IGROV1 DDR1 knockdown (replicate 2)
- GSM9356560 IGROV1 DDR1 knockdown (replicate 3)
- GSM9356561 IGROV1 DARPP-32 knockdown control (replicate 1)
- GSM9356562 IGROV1 DARPP-32 knockdown control (replicate 2)
- GSM9356563 IGROV1 DARPP-32 knockdown control (replicate 3)
- GSM9356564 IGROV1 DARPP-32 knockdown (replicate 1)
- GSM9356565 IGROV1 DARPP-32 knockdown (replicate 2)
- GSM9356566 IGROV1 DARPP-32 knockdown (replicate 3)
- GSE268709 Transcriptomic changes in HT29 cells and a patient-derived CRC 3D model after CRISPRi-based KAT2A knockdown 12 samples shares knockdown, changes
- GSE299852 Transcriptional changes in response to TGFB in human pancreatic stellate cells with knockdown of PIN1 20 samples shares knockdown, changes
- GSE264062 Gene expression changes of CRISPR/Cas13d-mediated HoxB13 knockdown in 293FT cells and LNCaP95 mouse liver metastasis 14 samples shares knockdown, changes
- GSE301195 Ubiquitin specific peptidase 7 promotes TP53 mutant malignancy by deubiquitinating and stabilizing DDR1 60 samples shares ddr1
- GSE272979 DDR1 regulates RUNX1-CBFβ to control breast stem cell differentiation 16 samples shares ddr1
- GSE279322 Development of MAPT S305 mutation models exhibiting elevated 4R tau expression, resulting in altered neuronal and astrocytic function 156 samples shares resulting
- GSE299431 Transcriptomics DNAJC15 and DNAJC19 knockdown in HeLa cells 14 samples shares knockdown
- GSE329766 Transcriptomic profiling of BAZ1A-AS1 and BAZ1A knockdown in human vascular smooth muscle cells and rhabdomyoblasts 12 samples shares knockdown
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.