Transcriptomic analysis of transgenic mouse kidney glomeruli with HIV-associated nephropathy (Tg26) and human APOL1 variants expression [bulk RNA-seq]
RNA-seq (gene expression) · mouse · 34 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
- 34 samples: 34 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
- Single-Cell Transcriptional Signatures of Glomerular Disease in Transgenic Mice with APOL1 VariantsJournal of the American Society of Nephrology : JASN · 2024
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 GSE227234_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 PRJNA944201 and SRA study SRP427064. 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 34 sample titles: 34 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.
- GSM7093593 1_No_WT_1
- GSM7093594 2_No_WT_2
- GSM7093595 3_No_WT_3
- GSM7093596 4_No_WT_4
- GSM7093597 5_No_WT_5
- GSM7093598 6_G0_WT_1
- GSM7093599 7_G0_WT_2
- GSM7093600 8_G0_WT_3
- GSM7093601 9_G1_WT_1
- GSM7093602 10_G1_WT_2
- GSM7093603 11_G1_WT_3
- GSM7093604 12_G1_WT_4
- GSM7093605 13_G2_WT_1
- GSM7093606 14_G2_WT_2
- GSM7093607 15_G2_WT_3
- GSM7093608 16_No_Tg_1
- GSM7093609 17_No_Tg_2
- GSM7093610 18_No_Tg_3
- GSM7093611 19_No_Tg_4
- GSM7093612 20_No_Tg_5
- GSM7093613 21_G0_Tg_1
- GSM7093614 22_G0_Tg_2
- GSM7093615 23_G0_Tg_3
- GSM7093616 24_G0_Tg_4
- GSM7093617 25_G0_Tg_5
- GSM7093618 26_G1_Tg_1
- GSM7093619 27_G1_Tg_2
- GSM7093620 28_G1_Tg_3
- GSM7093621 29_G1_Tg_4
- GSM7093622 30_G1_Tg_5
- GSM7093623 31_G2_Tg_1
- GSM7093624 32_G2_Tg_2
- GSM7093625 33_G2_Tg_3
- GSM7093626 34_G2_Tg_4
- GSE227235 Transcriptomic analysis of transgenic mouse kidney glomeruli with human APOL1 variants expression [scRNA-seq] 5 samples shares apol1, transgenic, glomeruli, variants, rna-seq
- GSE205058 Transcriptomic analysis of HIV-associated nephropathy (Tg26) mouse kidney [bulk RNA-seq] 12 samples shares tg26, hiv-associated, nephropathy, rna-seq
- GSE205059 Transcriptomic analysis of HIV-associated nephropathy (Tg26) mouse kidney [single-nuclear RNA-seq] 8 samples shares tg26, hiv-associated, nephropathy, rna-seq
- GSE205060 Transcriptomic analysis of HIV-associated nephropathy (Tg26) mouse kidney 20 samples shares tg26, hiv-associated, nephropathy
- GSE252711 Transcriptomic analysis of HIV-associated nephropathy (Tg26) mouse kidney treated with INT-747 and nicotinamide riboside 12 samples shares tg26, hiv-associated, nephropathy
- GSE289030 Transcriptome of BAC-transgenic G1- and G0-APOL1 murine CD8+T-cells after ex-vivo stimulation. 7 samples shares apol1, transgenic
- GSE190436 METTL3-Mediated m6A Modification of TIMP2 mRNA Promotes Podocyte Injury in Diabetic Nephropathy [RNA-seq] 6 samples shares nephropathy, rna-seq
- GSE283166 Cell-specific Inducible Human APOL1 Risk Variant Expression Cause Hypertension and Renal Damage 6 samples shares apol1
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.