Single cell analysis of SW620/SW620-TET2CD with long time clone culturing
Single-cell RNA-seq · human · 14 samples
- What it is
- Single-cell RNA-seqGene activity measured in thousands of individual cells, so cell types can be told apart.
- Organism
- Homo sapiens (human)
- Samples
- 14 samples: 13 distinct titles, 1 of them repeatedGroups 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
- Cytoplasm-nucleus shuttling of TET2: an intrinsic brake in colorectal cancer progressionCell death & disease · 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 GSE188329_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: Single-cell studies usually ship their counts as 10x files (matrix.mtx, barcodes.tsv, features.tsv), an .h5 file, or an .rds / .h5ad object that Seurat or Scanpy can open. Look for those among the supplementary files.
Also filed as BioProject PRJNA778389 and SRA study SRP344885. Searching any of these in the dataset finder brings you back here.
How we read this: Read from 14 sample titles: 13 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.
- GSM5677872 Day6-SW620
- GSM5677873 Day6-SW620-TET2CD
- GSM5677874 Day9-SW620
- GSM5677875 Day9-SW620-TET2CD
- GSM5677876 Day12-SW620
- GSM5677877 Day12-SW620-TET2CD
- GSM5677878 Day15-SW620
- GSM5677879 Day15-SW620-TET2CD
- GSM5681608 Day6-SW480
- GSM5681609 Day6-SW620 2
- GSM5681610 Day15-SW620 Colony Inside
- GSM5681611 Day15-SW620 Colony Outside
- GSM5681612 Day15-SW620-TET2CD Colony Inside
- GSM5681613 Day15-SW620-TET2CD Colony Outside
- GSE259253 Long-Read Single-Cell RNA Sequencing Enables Cell Genotyping to Refine Subclone Detection in Chronic Lymphocytic Leukemia 12 samples shares clone, long
- GSE310306 Transcriptomic analysis of SW620-conditioned medium-treated THP-1 macrophages 18 samples shares sw620
- GSE292379 RNAseq analysis of streptomycin on SW620 colon cancer cell line 9 samples shares sw620
- GSE269621 scRNA-SEQ analysis of SW620 xenografts tumor in nude mice 4 samples shares sw620
- GSE284658 HT-29 and SW620 24 samples shares sw620
- GSE270763 Single cell gene expression profiling of the SW620 colorectal cell line 1 samples shares sw620
- GSE311253 RNA-seq profiling of ADAM10 inhibition in DLD-1 and SW620 colorectal cancer cell lines 12 samples shares sw620
- GSE264582 Sequencing to Explore the Mechanism Network of N-acetyltransferase 10 (NAT10) Promoting Colorectal cancer in human colorectal cancer cell SW620 6 samples shares sw620
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.