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The multidirectional in-situ osteogenesis pattern based on biomimetic mineralized dual-crosslinked Fibrinogen-GelMA microspheres in the maxillary sinus region

GSE247540 Homo sapiens (human) RNA-seq (gene expression) 12 samples Submitted 2025/12/31 Platform GPL24676

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 × PMSCs-G, vs 3 × PMSCs-GFHA, vs 3 × LMSCs-GFHA, vs 3 × LMSCs-PMSCs-GFHA,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)

Dental defects in the posterior maxillary region seriously affect facial contours, as well as physiological functions. When bone height in the maxillary posterior region is extremely insufficient, the difficulty of dental prosthodontics is greatly increased. Autogenous bone replacement of exogenous bone grafting materials is often inadequate, resulting in the insufficient alveolar bone height.

Read the full summary ↓

It is still necessary to study the mechanism of bone regeneration in this region and explore new treatment methods to ensure the quality of bone reconstruction. The development of mesenchymal stem cell (MSCs) biology and bioengineering has greatly advanced the field of regenerative medicine. MSCs from different tissue sources have different biological processes and differentiation abilities. Our previous studies confirmed that MSCs derived from human maxillary sinus membrane (hMSM) can be cultured in vitro. The lamina propria layer derived MSCs (hLMSCs) and periosteum layer derived MSCs (hPMSCs) from hMSM were isolated and expanded using explant cell culture method. In this study, further study about the biological characteristics of hLMSCs and hPMSCs under the three dimensional biomimetic microenviroment based on biomimetic mineralized dual-crosslinked Fibrinogen-GelMA microspheres are compared using RNA sequencing. According to RNA sequencing and subsequent functional verification, Both hLMSCs and hPMSCs were up-regulated the osteo-related signaling pathways, such as TGF-β signaling pathway. The osteogenetic functions of hLMSCs could be improved by hPMSCs, and the most related signaling pathway pointed to PI3K-AKT signaling pathway. It seems that both hLMSCs and hPMSCs serve as good MSCs potential candidates for bone regeneration. And It also indicates that hLMSCs and hPMSCs are valuable in vitro tools for preclinical studies and future exploration of the origin osteogenesis machenism in maxillary sinus region.

This dataset

Open GSE247540 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 GSE247540_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 PRJNA1039489 and SRA study SRP471393. Searching any of these in the dataset finder brings you back here.

NCBI GEO page ↗

Study design

3 × PMSCs-G, vs 3 × PMSCs-GFHA, vs 3 × LMSCs-GFHA, vs 3 × LMSCs-PMSCs-GFHA,

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

GSM7892650 PMSCs-G,rep1 PMSCs-G,
GSM7892651 PMSCs-G,rep2 PMSCs-G,
GSM7892652 PMSCs-G,rep3 PMSCs-G,
GSM7892653 PMSCs-GFHA,rep1 PMSCs-GFHA,
GSM7892654 PMSCs-GFHA,rep2 PMSCs-GFHA,
GSM7892655 PMSCs-GFHA,rep3 PMSCs-GFHA,
GSM7892656 LMSCs-GFHA,rep1 LMSCs-GFHA,
GSM7892657 LMSCs-GFHA,rep2 LMSCs-GFHA,
GSM7892658 LMSCs-GFHA,rep3 LMSCs-GFHA,
GSM7892659 LMSCs-PMSCs-GFHA,rep1 LMSCs-PMSCs-GFHA,
GSM7892660 LMSCs-PMSCs-GFHA,rep2 LMSCs-PMSCs-GFHA,
GSM7892661 LMSCs-PMSCs-GFHA,rep3 LMSCs-PMSCs-GFHA,

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