Transcriptomic analysis of HIV-associated nephropathy (Tg26) mouse kidney treated with INT-747 and nicotinamide riboside
RNA-seq (gene expression) · mouse · 12 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
- 12 samples: 12 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
- NAD deficiency contributes to progressive kidney disease in HIV-nephropathy miceAmerican journal of physiology. Renal physiology · 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 GSE252711_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 PRJNA1062305 and SRA study SRP482422. 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 12 sample titles: 12 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.
- GSM8005629 53_I747_WT_1
- GSM8005630 54_I747_WT_2
- GSM8005631 55_I747_WT_3
- GSM8005632 56_I747_Tg_1
- GSM8005633 57_I747_Tg_2
- GSM8005634 58_I747_Tg_3
- GSM8005635 59_NR_WT_1
- GSM8005636 60_NR_WT_2
- GSM8005637 61_NR_WT_3
- GSM8005638 62_NR_Tg_1
- GSM8005639 63_NR_Tg_2
- GSM8005640 64_NR_Tg_3
- GSE227234 Transcriptomic analysis of transgenic mouse kidney glomeruli with HIV-associated nephropathy (Tg26) and human APOL1 variants expression [bulk RNA-seq] 34 samples shares tg26, hiv-associated, nephropathy, kidney
- GSE205060 Transcriptomic analysis of HIV-associated nephropathy (Tg26) mouse kidney 20 samples shares tg26, hiv-associated, nephropathy, kidney
- GSE205058 Transcriptomic analysis of HIV-associated nephropathy (Tg26) mouse kidney [bulk RNA-seq] 12 samples shares tg26, hiv-associated, nephropathy, kidney
- GSE205059 Transcriptomic analysis of HIV-associated nephropathy (Tg26) mouse kidney [single-nuclear RNA-seq] 8 samples shares tg26, hiv-associated, nephropathy, kidney
- GSE208552 Nicotinamide Riboside Kinase 1 protects against diet and age-induced pancreatic beta-cell failure 18 samples shares nicotinamide, riboside
- GSE335269 Nicotinamide Riboside Enhances Adoptive T Cell Therapy by Promoting Memory Differentiation and Metabolic Fitness 5 samples shares nicotinamide, riboside
- GSE264284 Transcriptome profiling of Gastrocnemius from mice following supplementation with the combination of nicotinamide and pyridoxine (NAM/PN) 38 samples shares nicotinamide
- GSE233644 Effect of nicotinamide mononucleotide on doxorubicin-induced cardiac injury in mice 16 samples shares nicotinamide
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.