Macropinocytosis promotes foamy monocyte formation in hypercholesterolemic mice
RNA-seq (gene expression) · mouse · 22 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
- 22 samples: 22 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
- Activation of receptor-independent fluid-phase pinocytosis promotes foamy monocyte formation in atherosclerotic miceRedox biology · 2024
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 GSE278101_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 PRJNA1165711 and SRA study SRP534983. 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 22 sample titles: 22 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.
- GSM8539652 Monocytes 10, oxLDL, 24 hrs
- GSM8539653 Monocytes 11, oxLDL, 24 hrs
- GSM8539654 Monocytes 1, vehicle, 24 hrs
- GSM8539655 Monocytes 2, vehicle, 24 hrs
- GSM8539656 Monocytes 3, vehicle, 24 hrs
- GSM8539657 Monocytes 4, vehicle, 24 hrs
- GSM8539658 Monocytes 5, vehicle, 24 hrs
- GSM8539659 Monocytes 6, vehicle, 24 hrs
- GSM8539660 Monocytes 7, oxLDL, 24 hrs
- GSM8539661 Monocytes 8, oxLDL, 24 hrs
- GSM8539662 Monocytes 9, oxLDL, 24 hrs
- GSM8539663 Macrophage A, vehicle, 24 hrs
- GSM8539664 Macrophage B, vehicle, 24 hrs
- GSM8539665 Macrophage C, vehicle, 24 hrs
- GSM8539666 Macrophage D, vehicle, 24 hrs
- GSM8539667 Macrophage E, vehicle, 24 hrs
- GSM8539668 Macrophages G, oxLDL, 24 hrs
- GSM8539669 Macrophages H, oxLDL, 24 hrs
- GSM8539670 Macrophages I, oxLDL, 24 hrs
- GSM8539671 Macrophages J, oxLDL, 24 hrs
- GSM8539672 Macrophages K, oxLDL, 24 hrs
- GSM8539673 Macrophages L, oxLDL, 24 hrs
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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.