GEO series

A Phase 1 clinical trial and single-cell correlates of motixafortide, cemiplimab, gemcitabine and nab-paclitaxel for metastatic treatment-naïve metastatic pancreatic ductal adenocarcinoma.

GSE316195 Homo sapiens (human) Single-cell RNA-seq 22 samples Submitted 2026/07/13 Platform GPL24676

At a glance

Single-cell RNA-seq · human · 22 samples

What it is: Single-cell RNA-seqGene activity measured in thousands of individual cells, so cell types can be told apart.
Organism: Homo sapiens (human)
Topic: Pancreatic cancerThis series is part of our curated briefing on it.
Samples: 22 samples
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)

The C-X-C motif chemokine receptor 4 (CXCR4)/C-X-C motif chemokine ligand 12 (CXCL12) axis is a well-established contributor to the immunosuppressive and immune-excluded TME in pancreatic adenocarcinoma (PDA). Building on pre-clinical data demonstrating a survival benefit with the addition of gemcitabine to CXCR4 and PD1 inhibition in the KPC mouse model, we conducted an open-label, single-arm phase 1 clinical trial combining CXCR4 inhibition (motixafortide), PD-1 blockade (cemiplimab), and chemotherapy (gemcitabine/nab-paclitaxel; MCGN) in treatment-naïve patients with metastatic PDA (n=11).

Read the full summary ↓

MCGN was safe and tolerable, achieving a 64% partial response (PR) by iRECIST, a 55% confirmed partial response (cPR), and a 91% disease control rate (DCR). The median PFS and OS were 9.7 months (95% confidence interval [CI]: 5.9-not reached [NR]) and 10.1 months (95% CI: 9.3-NR), respectively. One patient achieved a pathological complete response within the primary tumor and the hepatic metastasis after undergoing a pancreatoduodenectomy and hepatectomy and has remained free of disease for 18 months, suggesting that durable responses are possible with MCGN treatment. Single-nucleus RNA-sequencing of serial tissue biopsies from all trial participants revealed a reduction in transcriptional heterogeneity and depletion of cells expressing epithelial-to-mesenchymal transition states, while treatment-resistant tumors maintained tumor heterogeneity. The presence of CXCL12+ proaxogenic Cancer Associated Fibroblasts (pCAFs) were predictive of MCGN efficacy and depleted in resistant samples, suggesting that they represent the substrate for treatment response. MCGN also induced a highly inflamed tumor-microenvironment, which we confirmed with serial tissue staining, and rescue of T cell dysfunction. Based on these promising data and biomarkers, we have launched a multicenter randomized phase 2 trial comparing MGCN to GN in patients with treatment-naïve metastatic PDA (NCT04543071), which is ongoing.

This dataset

Open GSE316195 in finder → Find more human RNA-seq datasets → Pancreatic cancer landscape →

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 GSE316195_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: Single-cell studies usually ship their counts as 10x files (matrix.mtx, barcodes.tsv, features.tsv), an .h5 file, or an .rds / .h5ad object that Seurat or Scanpy can open. Look for those among the supplementary files.

Also filed as BioProject PRJNA1401782. Searching any of these in the dataset finder brings you back here.

NCBI GEO page ↗

Study design

A cohort of 22 individual samples

The grouping that defines any comparison lives in the sample characteristics, which GEO records separately from the titles.

How we read this: Sample titles run GM18 … GM40 and carry no group information.

Samples in this study

GSM9447228 GM18
GSM9447229 GM19
GSM9447230 GM20
GSM9447231 GM21
GSM9447232 GM22
GSM9447233 GM23
GSM9447234 GM24
GSM9447235 GM26
GSM9447236 GM27
GSM9447237 GM28
GSM9447238 GM29
GSM9447239 GM30
GSM9447240 GM31
GSM9447241 GM32
GSM9447242 GM33
GSM9447243 GM34
GSM9447244 GM35
GSM9447245 GM36
GSM9447246 GM37
GSM9447247 GM38
GSM9447248 GM39
GSM9447249 GM40

More Pancreatic cancer datasets

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GSE179351 Radiation Therapy Inhances Immunotherapy Response in Microsatellite-stable Colorectal and Pancreatic Adenocarcinoma in a Phase II Trial 54 samples same disease briefing · shares adenocarcinoma
GSE288221 RNA sequencing human melanoma, glioblastoma and pancreatic adenocarcinoma cell lines 32 samples same disease briefing · shares adenocarcinoma
GSE150043 Deeper insight into Pancreatic Ductal Adenocarcinoma (PDAC) survival heterogeneity using integrative analyses of individual and global transcriptome based networks 19 samples same disease briefing · shares adenocarcinoma
GSE224502 RNA-Seq profiles of pancreatic adenocarcinoma PANC-1 and osteosarcoma U2OS cells with Pin1 knocking down 18 samples same disease briefing · shares adenocarcinoma
GSE135731 Genome-wide identification of circular RNAs with critical roles in pancreatic ductal adenocarcinoma 3 samples same disease briefing · shares adenocarcinoma
GSE71729 Virtual Microdissection of Pancreatic Ductal Adenocarcinoma Reveals Tumor and Stroma Subtypes. 357 samples same disease briefing · shares adenocarcinoma

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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.