Tnik depletion induces inflammation and apoptosis in injured renal proximal tubule epithelial cells
RNA-seq (gene expression) · human · 36 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
- Homo sapiens (human)
- Samples
- 36 samples: 36 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.
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 GSE216015_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 PRJNA891715 and SRA study SRP403252. 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 36 sample titles: 36 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.
- GSM6655992 sinc rep1-72 hours
- GSM6655993 sinc rep2-72 hours
- GSM6655994 sinc rep3-72 hours
- GSM6655995 sinc rep4-72 hours
- GSM6655996 sinc rep5-72 hours
- GSM6655997 sinc rep6-72 hours
- GSM6655998 siTNIK rep1-72 hours
- GSM6655999 siTNIK rep2--72 hours
- GSM6656000 siTNIK rep3-72 hours
- GSM6656001 siTNIK rep4-72 hours
- GSM6656002 siTNIK rep5-72 hours
- GSM6656003 siTNIK rep6-72 hours
- GSM6656004 sinc rep1-48 hours
- GSM6656005 sinc rep2-48 hours
- GSM6656006 sinc rep3-48 hours
- GSM6656007 sinc rep4-48 hours
- GSM6656008 sinc rep5-48 hours
- GSM6656009 sinc rep6-48 hours
- GSM6656010 siTNIK rep1-48 hours
- GSM6656011 siTNIK rep2-48 hours
- GSM6656012 siTNIK rep3-48 hours
- GSM6656013 siTNIK rep4-48 hours
- GSM6656014 siTNIK rep5-48 hours
- GSM6656015 siTNIK rep6-48 hours
- GSM6656016 sinc TERT rep1-72 hours
- GSM6656017 sinc TERT rep2-72 hours
- GSM6656018 sinc TERT rep3-72 hours
- GSM6656019 sinc TERT rep4-72 hours
- GSM6656020 sinc TERT rep5-72 hours
- GSM6656021 sinc TERT rep6-72 hours
- GSM6656022 siTNIK TERT rep1-72 hours
- GSM6656023 siTNIK TERT rep2-72 hours
- GSM6656024 siTNIK TERT rep3-72 hours
- GSM6656025 siTNIK TERT rep4-72 hours
- GSM6656026 siTNIK TERT rep5-72 hours
- GSM6656027 siTNIK TERT rep6-72 hours
- GSE302560 Effect of calcium oxalate microcrystals on kidney proximal tubule epithelial cell gene expression in microgravity 144 samples shares epithelial, proximal, tubule
- GSE268877 Comparative Analysis of Proximal Tubule Cell Sources for in vitro Studies of Renal Toxicity 23 samples shares proximal, tubule, renal
- GSE303051 Prolonged KRAS-MAPK Inhibition Induces Interferon-mediated Epithelial-to-Mesenchymal Transition and Reveals Therapeutic Opportunities. 30 samples shares epithelial, induces
- GSE267788 Mechanical stretch induces senescence of alveolar epithelial cells and drives fibroblast activation by paracrine mechanisms 25 samples shares epithelial, induces
- GSE317449 Effect of depletion of TSPAN6 on Biliary Epithelial Cells with and without LPS stimulation mirroring liver disease. 20 samples shares epithelial, depletion
- GSE303106 Prolonged KRAS-MAPK Inhibition Induces Interferon-mediated Epithelial-to-Mesenchymal Transition and Reveals Therapeutic Opportunities [cut and run-ChipSeq] 9 samples shares epithelial, induces
- GSE292059 Inflammatory Epithelial and Macrophage Pathways Underlie Residual Asthma Exacerbations in Urban Children Treated with Mepolizumab 965 samples shares epithelial
- GSE275647 Role of Cancer-Associated Fibroblasts in Prognostic Stratification of Advanced-Stage Gastric Cancer through Interacting with Endothelial and Malignant Epithelial Cells [AGC RNA-seq] 216 samples shares epithelial
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.