Identification of potential treatment strategies to overcome acquired bortezomib-resistance due to clonal evolution
RNA-seq (gene expression) · human · 12 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
- 12 samples: 12 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.
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 GSE326599_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 PRJNA1445990 and SRA study SRP688260. 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 12 sample titles: 12 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.
- GSM9635390 Wildtype K562, sample 1, untreated, replicates 1 and 2
- GSM9635391 Wildtype K562, sample 2, untreated, replicates 1 and 2
- GSM9635392 Bortezomib resistant K562 cell line 1, sample 1, untreated, replicates 1 and 2
- GSM9635393 Bortezomib resistant K562 cell line 1, sample 2, untreated, replicates 1 and 2
- GSM9635394 Bortezomib resistant K562 cell line 2, sample 1, untreated, replicates 1 and 2
- GSM9635395 Bortezomib resistant K562 cell line 2, sample 2, untreated, replicates 1 and 2
- GSM9635396 Wildtype K562, sample 1, geldanamycin treated, replicates 1 and 2
- GSM9635397 Wildtype K562, sample 2, geldanamycin treated, replicates 1 and 2
- GSM9635398 Bortezomib resistant K562 cell line 1, sample 1, geldanamycin treated, replicates 1 and 2
- GSM9635399 Bortezomib resistant K562 cell line 1, sample 2, geldanamycin treated, replicates 1 and 2
- GSM9635400 Bortezomib resistant K562 cell line 2, sample 1, geldanamycin treated, replicates 1 and 2
- GSM9635401 Bortezomib resistant K562 cell line 2, sample 2, geldanamycin treated, replicates 1 and 2
- GSE256141 Single cell transcriptional landscape of liver transplant rejection reveals tissue persistence of clonally expanded, treatment-resistant T cells 90 samples shares treatment, clonal
- GSE262166 Treatment of cholangiocarcinoma using humanized monoclonal antibodies targeting Claudin-1 77 samples shares treatment, clonal
- GSE283522 The spatially informed mFISHseq assay resolves biomarker discordance and predicts treatment response in breast cancer 1254 samples shares treatment
- GSE319641 RNA-Seq profiling of pre- and on-treatment tumor samples from breast cancer patients enrolled in the NeoTRIP trial. 401 samples shares treatment
- GSE222196 Treatment of prostate cancer cell lines with Androgen Receptor and Receptor Tyrosine Kinase inhibitors 246 samples shares treatment
- GSE282122 A longitudinal single-cell atlas of anti-tumour necrosis factor treatment in inflammatory bowel disease 216 samples shares treatment
- GSE310252 Transcriptome-based classification of resected pancreatic ductal adenocarcinoma enhances prognostic modelling accuracy of overall survival following adjuvant treatment 118 samples shares treatment
- GSE272681 The cellular hierarchy of acute myeloid leukemia informs personalized treatment 108 samples shares treatment
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.