Atypical cellular responses mediated by intracellular constitutive active TrkB (NTRK2) kinase domains and a solely intracellular NTRK2-fusion oncogene
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: 9 conditions, mostly with about 4 replicates eachGroups 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
- Atypical cellular responses mediated by intracellular constitutive active TrkB (NTRK2) kinase domains and a solely intracellular NTRK2-fusion oncogeneCancer gene therapy · 2024
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 GSE186207_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 PRJNA772959 and SRA study SRP342269. Searching any of these in the dataset finder brings you back here.
Supports a between-group comparison across 36 samples.
How we read this: 9 replicated groups read from 36 sample titles; they account for 36 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.
- GSM5640594 line ctr_1 line ct
- GSM5640595 line ctr_2 line ct
- GSM5640596 line ctr_3 line ct
- GSM5640597 line ctr_4 line ct
- GSM5640598 YFF ctr_1 YFF ct
- GSM5640599 YFF ctr_2 YFF ct
- GSM5640600 YFF ctr_3 YFF ct
- GSM5640601 YFF ctr_4 YFF ct
- GSM5640602 YFF dox_1 YFF dox
- GSM5640603 YFF dox_2 YFF dox
- GSM5640604 YFF dox_3 YFF dox
- GSM5640605 YFF dox_4 YFF dox
- GSM5640606 wt ctr_1 wt ct
- GSM5640607 wt ctr_2 wt ct
- GSM5640608 wt ctr_3 wt ct
- GSM5640609 wt ctr_4 wt ct
- GSM5640610 wt dox_1 wt dox
- GSM5640611 wt dox_2 wt dox
- GSM5640612 wt dox_3 wt dox
- GSM5640613 wt dox_4 wt dox
- GSM5640614 wt loxo_1 wt loxo
- GSM5640615 wt loxo_2 wt loxo
- GSM5640616 wt loxo_3 wt loxo
- GSM5640617 wt loxo_4 wt loxo
- GSM5640618 fus ctr_1 fus ct
- GSM5640619 fus ctr_2 fus ct
- GSM5640620 fus ctr_3 fus ct
- GSM5640621 fus ctr_4 fus ct
- GSM5640622 fus dox_1 fus dox
- GSM5640623 fus dox_2 fus dox
- GSM5640624 fus dox_3 fus dox
- GSM5640625 fus dox_4 fus dox
- GSM5640626 fus loxo_1 fus loxo
- GSM5640627 fus loxo_2 fus loxo
- GSM5640628 fus loxo_3 fus loxo
- GSM5640629 fus loxo_4 fus loxo
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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.