Effects of the receptor-like protein tyrosine phosphatase PTPRH overexpression on gene expression in non-small cell lung cancer cell lines
RNA-seq (gene expression) · human · 15 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)
- Topic
- Lung cancerThis series is part of our curated briefing on it.
- Samples
- 15 samples: 5 conditions, mostly in triplicateGroups 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.
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 GSE270167_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 PRJNA1125366 and SRA study SRP514646. Searching any of these in the dataset finder brings you back here.
Supports a between-group comparison across 15 samples.
How we read this: 5 replicated groups read from 15 sample titles; they account for 15 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.
- GSM8335821 H23 PTPRH Overexpression Replicate 1 H23 PTPRH Overexpression
- GSM8335822 H23 PTPRH Overexpression Replicate 2 H23 PTPRH Overexpression
- GSM8335823 H23 PTPRH Overexpression Replicate 3 H23 PTPRH Overexpression
- GSM8335824 H23 PTPRH KO Replicate 1 H23 PTPRH KO
- GSM8335825 H23 PTPRH KO Replicate 2 H23 PTPRH KO
- GSM8335826 H23 PTPRH KO Replicate 3 H23 PTPRH KO
- GSM8335827 H2023 Replicate 1 H2023
- GSM8335828 H2023 Replicate 2 H2023
- GSM8335829 H2023 Replicate 3 H2023
- GSM8335830 H23 Replicate 1 H23
- GSM8335831 H23 Replicate 2 H23
- GSM8335832 H23 Replicate 3 H23
- GSM8335833 H2023 PTPRH Overexpression Replicate 1 H2023 PTPRH Overexpress…
- GSM8335834 H2023 PTPRH Overexpression Replicate 2 H2023 PTPRH Overexpress…
- GSM8335835 H2023 PTPRH Overexpression Replicate 3 H2023 PTPRH Overexpress…
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- GSE104244 Bone Marrow Derived Macrophages, NSCLC cell lines, and Kras G12D Lung Tumors Treated with Epigenetic Agents 33 samples same disease briefing · shares lines
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- GSE117570 Reprogramming of Tumor-infiltrating Immune Cells in Early Stage of NSCLC 8 samples same disease briefing
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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.