Tn5 transposase and tagmentation procedures for massively scaled sequencing projects
Single-cell RNA-seq · mouse · 67 samples
- What it is
- Single-cell RNA-seqGene activity measured in thousands of individual cells, so cell types can be told apart. Read from the summary: GEO's own type field only says 'expression profiling by sequencing', so confirm it in the paper.
- Organism
- Mus musculus (mouse)
- Samples
- 67 samples: 21 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.
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 GSE58652_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 PRJNA253099 and SRA study SRP043417. Searching any of these in the dataset finder brings you back here.
Supports a between-group comparison across 67 samples.
How we read this: 21 replicated groups read from 67 sample titles; they account for 67 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.
- GSM1416385 generuler1 generule
- GSM1416386 generuler2 generule
- GSM1416387 generuler3 generule
- GSM1416388 inhouse_0.1pg_rep1 inhouse_0.1pg
- GSM1416389 inhouse_0.1pg_rep2 inhouse_0.1pg
- GSM1416390 inhouse_0.1pg_rep3 inhouse_0.1pg
- GSM1416391 inhouse_100pg_rep1 inhouse_100pg
- GSM1416392 inhouse_100pg_rep2 inhouse_100pg
- GSM1416393 inhouse_100pg_rep3 inhouse_100pg
- GSM1416394 inhouse_10pg_rep1 inhouse_10pg
- GSM1416395 inhouse_10pg_rep2 inhouse_10pg
- GSM1416396 inhouse_10pg_rep3 inhouse_10pg
- GSM1416397 inhouse_1pg_rep1 inhouse_1pg
- GSM1416398 inhouse_1pg_rep2 inhouse_1pg
- GSM1416399 inhouse_1pg_rep3 inhouse_1pg
- GSM1416400 inhouse_500pg_rep1 inhouse_500pg
- GSM1416401 inhouse_500pg_rep2 inhouse_500pg
- GSM1416402 inhouse_500pg_rep3 inhouse_500pg
- GSM1416403 inhouse_low_0.1pg_rep1 inhouse_low_0.1pg
- GSM1416404 inhouse_low_0.1pg_rep2 inhouse_low_0.1pg
- GSM1416405 inhouse_low_0.1pg_rep3 inhouse_low_0.1pg
- GSM1416406 inhouse_low_0.1pg_rep4 inhouse_low_0.1pg
- GSM1416407 inhouse_low_1pg_rep1 inhouse_low_1pg
- GSM1416408 inhouse_low_1pg_rep2 inhouse_low_1pg
- GSM1416409 inhouse_low_1pg_rep3 inhouse_low_1pg
- GSM1416410 inhouse_low_1pg_rep4 inhouse_low_1pg
- GSM1416411 inhouse_low_500pg_rep1 inhouse_low_500pg
- GSM1416412 inhouse_low_500pg_rep2 inhouse_low_500pg
- GSM1416413 inhouse_low_500pg_rep3 inhouse_low_500pg
- GSM1416414 inhouse_low_500pg_rep4 inhouse_low_500pg
- GSM1416415 M1_1 M1
- GSM1416416 M1_2 M1
- GSM1416417 M2_1 M2
- GSM1416418 M2_2 M2
- GSM1416419 M2_3 M2
- GSM1416420 M2_4 M2
- GSM1416421 M3a_1 M3a
- GSM1416422 M3a_2 M3a
- GSM1416423 M3a_3 M3a
- GSM1416424 M3a_4 M3a
+ 27 more — browse all 67 samples with per-sample file links →
No close match found for this topic, so these are simply the most-viewed datasets of the same kind.
- GSE290468 STAMP: Single-Cell Transcriptomics Analysis and Multimodal Profiling through Imaging 169 samples
- GSE280076 Dissecting RNA Selectivity Mediated by Tandem RNA-Binding Domains 66 samples
- GSE207360 Mesenchymal glioma stem cells trigger vasectasia, a distinct neovascularization process mediated by extracellular vesicles carrying EGFR [scRNA-seq] 45 samples
- GSE60715 Cells and exosomes after cell-free culture 12 samples
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.