Ptprz Signaling, Tubule and Macrophage-Mediated Renal Injury and Subsequent Chronic Kidney Disease
RNA-seq (gene expression) · mouse · 32 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
- 32 samples: 10 conditions, mostly in duplicateGroups 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
- Ptprz Signaling, Tubule-Mediated and Macrophage-Mediated Kidney Injury, and Subsequent CKDJournal of the American Society of Nephrology : JASN · 2025
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 GSE284135_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 PRJNA1197408 and SRA study SRP551077. Searching any of these in the dataset finder brings you back here.
Supports a between-group comparison across 32 samples.
How we read this: 10 replicated groups read from 32 sample titles; they account for 32 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.
- GSM8678273 PTPRZ_KO_ctrl_r1 PTPRZ_KO_ctrl
- GSM8678274 PTPRZ_KO_LPSIFNy_r1 PTPRZ_KO_LPSIFNy
- GSM8678275 PTPRZ_KO_IL4_r1 PTPRZ_KO_IL4
- GSM8678276 PTPRZ_KO_ctrl_r2 PTPRZ_KO_ctrl
- GSM8678277 PTPRZ_KO_LPSIFNy_r2 PTPRZ_KO_LPSIFNy
- GSM8678278 PTPRZ_KO_IL4_r2 PTPRZ_KO_IL4
- GSM8678279 B6_ctrl_r1 B6_ctrl
- GSM8678280 B6_LPSIFNy_r1 B6_LPSIFNy
- GSM8678281 B6_IL4_r1 B6_IL4
- GSM8678282 B6_ctrl_r2 B6_ctrl
- GSM8678283 B6_LPSIFNy_r2 B6_LPSIFNy
- GSM8678284 B6_IL4_r2 B6_IL4
- GSM8678285 PTPRZ_het_ctrl_TECs_r1 PTPRZ_het_ctrl_TECs
- GSM8678286 PTPRZ_het_LPSIFNy_TECs_r1 PTPRZ_het_LPSIFNy_TECs
- GSM8678287 PTPRZ_het_ctrl_TECs_r2 PTPRZ_het_ctrl_TECs
- GSM8678288 PTPRZ_het_LPSIFNy_TECs_r2 PTPRZ_het_LPSIFNy_TECs
- GSM8678289 PTPRZ_KO_LPSIFNy_TECs_r1 PTPRZ_KO_LPSIFNy_TECs
- GSM8678290 PTPRZ_KO_ctrl_TECs_r1 PTPRZ_KO_ctrl_TECs
- GSM8678291 PTPRZ_KO_ctrl_TECs_r2 PTPRZ_KO_ctrl_TECs
- GSM8678292 PTPRZ_KO_LPSIFNy_TECs_r2 PTPRZ_KO_LPSIFNy_TECs
- GSM8678293 PTPRZ_KO_ctrl_TECs_r3 PTPRZ_KO_ctrl_TECs
- GSM8678294 PTPRZ_het_LPSIFNy_TECs_r3 PTPRZ_het_LPSIFNy_TECs
- GSM8678295 PTPRZ_het_ctrl_TECs_r3 PTPRZ_het_ctrl_TECs
- GSM8678296 PTPRZ_KO_LPSIFNy_TECs_r3 PTPRZ_KO_LPSIFNy_TECs
- GSM8678297 PTPRZ_KO_ctrl_TECs_r4 PTPRZ_KO_ctrl_TECs
- GSM8678298 PTPRZ_KO_LPSIFNy_TECs_r4 PTPRZ_KO_LPSIFNy_TECs
- GSM8678299 PTPRZ_het_LPSIFNy_TECs_r4 PTPRZ_het_LPSIFNy_TECs
- GSM8678300 PTPRZ_het_ctrl_TECs_r4 PTPRZ_het_ctrl_TECs
- GSM8678301 PTPRZ_het_LPSIFNy_TECs_r5 PTPRZ_het_LPSIFNy_TECs
- GSM8678302 PTPRZ_het_ctrl_TECs_r5 PTPRZ_het_ctrl_TECs
- GSM8678303 PTPRZ_KO_LPSIFNy_TECs_r5 PTPRZ_KO_LPSIFNy_TECs
- GSM8678304 PTPRZ_KO_ctrl_TECs_r5 PTPRZ_KO_ctrl_TECs
- GSE239287 Single-cell transcriptome sequencing of macrophages in acute kidney injury(AKI) to chronic kidney dieases(CKD) 17 samples shares chronic, injury, kidney
- GSE294923 Nfkb1 removal from proximal tubule cells improves renal tubular outcomes following ischemia reperfusion injury 14 samples shares tubule, injury, renal
- GSE316925 Transcriptome changes in trigeminal ganglia in the mouse chronic constriction injury of the infraorbital nerve model - role of TRPM3. 136 samples shares chronic, injury
- GSE280554 NNMT promotes tubular senescence and fibrosis in chronic kidney disease 92 samples shares chronic, kidney
- GSE269409 Time-resolved transcriptomic responses of kidney distal convoluted tubules induced by furosemide 64 samples shares tubule, kidney
- GSE276647 Gene expression profile of microglia following traumatic brain injury and nasal anti-CD3 treatment at acute and chronic timepoints 54 samples shares chronic, injury
- GSE268879 Renal Proximal Tubule Cell-specific Megalin Deletion Induces Tubulointerstitial Nephritis in Mice Fed Western Diet 24 samples shares tubule, renal
- GSE280553 NNMT overexpression promotes tubular senescence and fibrosis in human chronic kidney disease (young, old and NAM-supplemented old mice kidney) [Series_4] 22 samples shares chronic, kidney
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.