RNA-seq data of Ly6Chigh CD11c+ MHC-II+ and Ly6C low cells FACS-sorted from Mock-LLC and SULT2B1b-LLC tumors
RNA-seq (gene expression) · mouse · 15 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
- 15 samples: 4 × Mock_LLC vs 2 × SULT2B1b_LLC vs 2 × sGroups 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.
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 GSE129746_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 PRJNA532620 and SRA study SRP192398. Searching any of these in the dataset finder brings you back here.
Supports a between-group comparison across 8 samples.
How we read this: 3 replicated groups read from 15 sample titles; they account for 8 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.
- GSM3721319 M1L
- GSM3721320 M2L
- GSM3721321 M3L
- GSM3721322 M4L
- GSM3721323 Mock_LLC_1 Mock_LLC
- GSM3721324 Mock_LLC_2 Mock_LLC
- GSM3721325 Mock_LLC_3 Mock_LLC
- GSM3721326 Mock_LLC_4 Mock_LLC
- GSM3721327 S2L
- GSM3721328 S3L
- GSM3721329 S4L
- GSM3721330 SULT2B1b_LLC_1 SULT2B1b_LLC
- GSM3721331 SULT2B1b_LLC_2 SULT2B1b_LLC
- GSM3721332 s3 s
- GSM3721333 s4 s
- GSE249839 Single cell RNA seq reveals cellular and transcriptional heterogeneity in the splenic CD11b+Ly6Chigh monocyte population expanded in sepsis-surviving mice 4 samples shares ly6chigh, ly6c
- GSE243160 Transcriptomic differences in RXRαβ-deficient and WT alveolar macrophages using the CD11c-Cre+ mouse model (RNA-Seq) 11 samples shares cd11c, rna-seq
- GSE275805 Lack of tolerogenic CD11c+ cells drives early atherosclerosis [RNA-seq] 8 samples shares cd11c, rna-seq
- GSE228588 Ly6C-low and Ly6C-high neutrophils bulk RNA-seq data 6 samples shares ly6c, rna-seq
- GSE284168 Mammalian queuosine tRNA modification impacts codon usage preferences to enhance cell proliferation and MHC-II expression [BMDC_0v100Q_mRNA-seq] 6 samples shares mhc-ii, rna-seq
- GSE250508 scRNA-seq analysis of skin CD45+ cells mice where Tsc2 is deleted in CD11c-expressing cells 6 samples shares cd11c, rna-seq
- GSE317744 Thymic CD11c+ cells [scRNA-seq] 4 samples shares cd11c, rna-seq
- GSE266059 scRNA-seq analysis for CD11c+ cells recruited to the MLNs in colitis induced in mice supplied with PBS or lysine 2 samples shares cd11c, rna-seq
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.