High-throughput sequencing Analysis of mouse BMDM cell Transcriptomes after tumor supernatants induction
RNA-seq (gene expression) · mouse · 17 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
- 17 samples: 6 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 GSE183634_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 PRJNA761432 and SRA study SRP336057. Searching any of these in the dataset finder brings you back here.
Supports a between-group comparison across 17 samples.
How we read this: 6 replicated groups read from 17 sample titles; they account for 17 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.
- GSM5563771 WTNC1 WTNC
- GSM5563772 WTNC2 WTNC
- GSM5563773 WTNC3 WTNC
- GSM5563774 WTB1 WTB
- GSM5563775 WTB2 WTB
- GSM5563776 WTB3 WTB
- GSM5563777 WTK1 WTK
- GSM5563778 WTK2 WTK
- GSM5563779 WTK3 WTK
- GSM5563780 WTNA1 WTNA
- GSM5563781 WTNA2 WTNA
- GSM5563782 WTBK1 WTBK
- GSM5563783 WTBK2 WTBK
- GSM5563784 WTBK3 WTBK
- GSM5563785 KOBK1 KOBK
- GSM5563786 KOBK2 KOBK
- GSM5563787 KOBK3 KOBK
- GSE217269 RNA-seq analysis of Wild Type (WT) and Mettl3-/- (KO) BMDMs (bone-marrow-derived macrophages) Transcriptomes 6 samples shares bmdm, transcriptomes
- GSE276416 Data Mining of IFNgamma-induced macrophage and Atherosclerotic Plaque Transcriptomes predicts a macrophage-specific role of STAT1 in human atherosclerosis [BMDM] 18 samples shares bmdm, transcriptomes
- GSE291434 Bulk RNAseq of BMDM-T cells co-culture system with or without tumor antigen and IL-1beta or IL-18 24 samples shares bmdm
- GSE272298 Transcriptional response of mouse BMDMs to diverse lysosomal stressors [HEX000414] 90 samples shares bmdm
- GSE181643 Oxygen-dependent changes and lysosome activity-dependent changes of gene expression in BMDM after LPS treatment 72 samples shares bmdm
- GSE272357 Transcriptional response of BMDMs to CRISPR KO of key lysosomal genes [HEX000527] 69 samples shares bmdm
- GSE279654 BMDM from Young and Aged Mice Treated with β-glucan 42 samples shares bmdm
- GSE181641 Oxygen-dependent changes of gene expression in BMDM after LPS treatment 36 samples shares bmdm
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.