GEO series

Dual Epigenetic and Nuclear Export Inhibition by Chidamide and Selinexor in High Grade B-Cell Lymphomas via Survivin and PI3K/AKT Inhibition

GSE298302 Homo sapiens (human) RNA-seq (gene expression) 12 samples Submitted 2025/12/15 Platform GPL30209

At a glance

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: 3 × TMD8, C, vs 3 × TMD8, S, vs 3 × TMD8, SC, vs 3 × TMD8, DMSO,Groups 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.

Summary (written by the submitters)

Double hit lymphoma (DHL) is a highly aggressive disease thatis resistant to conventional first-line immunochemotherapeutic regimens. This resistance necessitates the exploration of innovative therapeutic strategies. In this study, the combination of chidamide and selinexor showed significant synergistic antilymphoma effects in the treatment of DHL.

Read the full summary ↓

The synergistic effects were evidenced by the inhibition of cell proliferation, induction of apoptosis, and perturbation of the cell cycle in cell lines, as assessed by Cell Counting Kit-8, Annexin V/PI staining, and PI staining assays. Furthermore, in a xenograft mouse model of DHL, this combination therapy markedly reduced the tumor burden without causing lethal toxicity. At the mechanistic level, the combination of chidamide and selinexor resulted in the synergistic downregulation of survivin and the PI3K/AKT signaling pathway. This dual inhibition was attributed to the interactive effects of the two drugs. The downregulation of key downstream targets of the PI3K/AKT pathway, including c-Myc, MCL1, BCL-XL, cyclin A2, and survivin, was synergistic and aligned with the phenotypic outcomes. Notably, survivin, an antiapoptotic protein and a direct target of HDAC3 and XPO1, was synergistically downregulated at the nuclear, cytoplasmic, and total protein levels by the combination of chidamide and selinexor, thereby inducing apoptosis. Our preclinical data highlighted the potential synergistic efficacy of chidamide and selinexor in targeting DHL, providing a rationale for further clinical investigation of this therapeutic combination for the treatment of this refractory disease.

This dataset

Open GSE298302 in finder → Find more human RNA-seq datasets →

Download · which file do I need?

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.

1 · Just have a look

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.

Series matrix ↓

2 · Re-analyse it

Supplementary files

The count tables and other files the authors uploaded. Take only the samples you need, or the whole study as GSE298302_RAW.tar (it can run to tens of gigabytes).

All supplementary files ↗ Whole study · RAW.tar ↓

3 · Start from the raw reads

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.

Raw reads on ENA ↗

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 PRJNA1268914 and SRA study SRP588196. Searching any of these in the dataset finder brings you back here.

NCBI GEO page ↗

Study design

3 × TMD8, C, vs 3 × TMD8, S, vs 3 × TMD8, SC, vs 3 × TMD8, DMSO,

Supports a between-group comparison across 12 samples.

How we read this: 4 replicated groups read from 12 sample titles; they account for 12 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.

Samples in this study

GSM9011774 TMD8, C, rep1 TMD8, C,
GSM9011775 TMD8, C, rep2 TMD8, C,
GSM9011776 TMD8, C, rep3 TMD8, C,
GSM9011777 TMD8, S, rep1 TMD8, S,
GSM9011778 TMD8, S, rep2 TMD8, S,
GSM9011779 TMD8, S, rep3 TMD8, S,
GSM9011780 TMD8, SC, rep1 TMD8, SC,
GSM9011781 TMD8, SC, rep2 TMD8, SC,
GSM9011782 TMD8, SC, rep3 TMD8, SC,
GSM9011783 TMD8, DMSO, rep1 TMD8, DMSO,
GSM9011784 TMD8, DMSO, rep2 TMD8, DMSO,
GSM9011785 TMD8, DMSO, rep3 TMD8, DMSO,

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