Oxidation Resistance 1 (Oxr1) Dysregulation Promotes TKI Resistance and Blast Crisis in Chronic Myeloid Leukemia.
RNA-seq (gene expression) · human · 59 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
- Chronic myeloid leukemiaThis series is part of our curated briefing on it.
- Samples
- 59 samples: 14 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.
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 GSE281956_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 PRJNA1186247 and SRA study SRP545184. Searching any of these in the dataset finder brings you back here.
Supports a case/control comparison: 11 samples read as cases, 21 as controls.
How we read this: 14 replicated groups read from 59 sample titles; they account for 48 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.
- GSM8631226 wt-30wks, control, 1 wt-30wks, control,
- GSM8631227 wt-30wks, control, 2 wt-30wks, control,
- GSM8631228 wt-30wks, control, 3 wt-30wks, control,
- GSM8631229 CML shControl GFP-, 1 CML shControl GFP-,
- GSM8631230 CML shControl GFP-, 2 CML shControl GFP-,
- GSM8631231 CML shControl GFP-, 3 CML shControl GFP-,
- GSM8631232 CML shOxr1 GFP-, 1 CML shOxr1 GFP-,
- GSM8631233 CML shOxr1 GFP-, 2 CML shOxr1 GFP-,
- GSM8631234 CML shOxr1 GFP-, 3 CML shOxr1 GFP-,
- GSM8631235 wt-50wks, control, 1 wt-50wks, control,
- GSM8631236 wt-50wks, control, 2 wt-50wks, control,
- GSM8631237 wt-50wks, control, 3 wt-50wks, control,
- GSM8631238 CML shControl GFP+ CP, 1 CML shControl GFP+ CP,
- GSM8631239 CML shControl GFP+ CP, 2 CML shControl GFP+ CP,
- GSM8631240 CML shControl GFP+ CP, 3 CML shControl GFP+ CP,
- GSM8631241 CML shOxr1 GFP+ CP, 1 CML shOxr1 GFP+ CP,
- GSM8631242 CML shOxr1 GFP+ CP, 2 CML shOxr1 GFP+ CP,
- GSM8631243 CML shOxr1 GFP+ BC, 1 CML shOxr1 GFP+ BC,
- GSM8631244 CML shOxr1 GFP+ BC, 2 CML shOxr1 GFP+ BC,
- GSM8631245 CML shOxr1 GFP+ BC, 3 CML shOxr1 GFP+ BC,
- GSM8631246 CML shOxr1 GFP+ BC, 4 CML shOxr1 GFP+ BC,
- GSM8631247 CML shOxr1 GFP+ BC, 5 CML shOxr1 GFP+ BC,
- GSM8633469 CML mice in remission, IM, 1 CML mice in remission, …
- GSM8633470 CML mice in remission, IM, 2 CML mice in remission, …
- GSM8633471 CML mice in remissin, IM+YM155, 1 CML mice in remissin, I…
- GSM8633472 CML mice in remissin, IM+YM155, 2 CML mice in remissin, I…
- GSM8633473 CML mice in remission, IM+Embelin, 1 CML mice in remission, …
- GSM8633474 CML mice in remission, IM+Embelin, 2 CML mice in remission, …
- GSM8633475 CML shControl+saline-1 CML shControl+saline
- GSM8633476 CML shControl+saline-2 CML shControl+saline
- GSM8633477 CML shControl+saline-3 CML shControl+saline
- GSM8633478 CML shControl+saline-4 CML shControl+saline
- GSM8633479 CML shControl+alum-1 CML shControl+alum
- GSM8633480 CML shControl+alum-2 CML shControl+alum
- GSM8633481 CML shControl+alum-3 CML shControl+alum
- GSM8633482 CML shControl+alum-4 CML shControl+alum
- GSM8633483 CML shControl+alum-5 CML shControl+alum
- GSM8633484 CML shOxr1+saline-1 CML shOxr1+saline
- GSM8633485 CML shOxr1+saline-2 CML shOxr1+saline
- GSM8633486 CML shOxr1+saline-3 CML shOxr1+saline
+ 19 more — browse all 59 samples with per-sample file links →
- GSE292088 Martinostat as a Novel HDAC Inhibitor to Overcome Tyrosine Kinase Inhibitor Resistance in Chronic Myeloid Leukemia 15 samples same disease briefing · shares resistance, leukemia, chronic
- GSE198142 Selective translational control by PABPC1 phase separation regulates blast crisis and target therapy resistance of chronic myeloid leukemia 8 samples same disease briefing · shares resistance, leukemia, chronic
- GSE280879 Selective translational control by PABPC1 phase separation regulates blast crisis and target therapy resistance of chronic myeloid leukemia [RNA-seq] 6 samples same disease briefing · shares resistance, leukemia, chronic
- GSE28303 An East-Asian polymorphism underlies BCR-ABL mutation-independent resistance to tyrosine kinase inhibitors in chronic myelogenous leukemia 6 samples same disease briefing · shares resistance, leukemia, chronic
- GSE106600 HM450K-based DNA methylation analysis of normal and Chronic Phase-Chronic Myeloid Leukemia (CP-CML) 23 samples same disease briefing · shares leukemia, chronic
- GSE241842 Multidimensional single-cell sequencing profiles the bone marrow immune microenvironment in chronic myeloid leukemia 23 samples same disease briefing · shares leukemia, chronic
- GSE248894 Effect of Si-711, a dual sirtuin 1 and 2 inhibitor, on gene expression in chronic myeloid leukemia K-562 cells 12 samples same disease briefing · shares leukemia, chronic
- GSE275701 Neddylation Status Determines the Therapeutic Sensitivity of BCR-ABL1-targeting Tyrosine Kinase Inhibitors in Chronic Myeloid Leukemia 12 samples same disease briefing · shares leukemia, chronic
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.