OMIX001616

1Summary

Title	Deciphering early human pancreas development at the single-cell level
Description	Here, we performed scRNA-seq of human embryonic pancreas tissues collected from PCW 4 to 11 and scATAC-seq from PCW 8 to 11. We profiled the major cell types of pancreatic epithelial cells, including dorsal and ventral MP cells, and revealed their molecular heterogeneity and developmental trajectory. We analyzed the transcription factors, regulatory networks and signaling pathways of acinar and ductal lineage cells and revealed a regulatory network of endocrinogenesis and transcription dynamics of EP and endocrine cells. We further compared the developmental trajectories between humans and mice and demonstrated a few distinct features, such as gene expression patterns, in each species. Taken together, our data depict the whole progression of pancreatic organogenesis during the first trimester (PCW 4-11) at the single-cell level.
Organism	Homo sapiens
Data Type	Other Type of Genomic Data
Data Accessibility	Open-access
BioProject	PRJCA010743
Release Date	2023-12-23
Submitter	Tao Xu (xutao@ibp.ac.cn)
Organization	Institute of Biophysics, Chinese Academy of Sciences
Submission Date	2022-08-16

2Files & Download

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File ID	File Title	Number/Samples	File Type	File Size	File Suffix	Download
OMIX001616-01	scRNA_allcell_afterQC_PCW7_11.txt.gz	10	Other Type of Genomic Data	143.1 MB	txt	FTP HTTPs
OMIX001616-02	scRNA_allcell_afterQC_PCW4_6.txt.gz	7	Other Type of Genomic Data	115.54 MB	txt	FTP HTTPs
OMIX001616-04	scRNA_meta_panc_epi_PCW4_11	17	Other Type of Genomic Data	2.51 MB	txt	FTP HTTPs
OMIX001616-05	scRNA_meta_endocrine.txt	10	Other Type of Genomic Data	131.85 KB	txt	FTP HTTPs
OMIX001616-18	scRNA_meta_epi_PCW4_5.txt	4	Other Type of Genomic Data	448.0 KB	txt	FTP HTTPs
OMIX001616-19	scATAC_metadata.csv	4	Other Type of Genomic Data	585.5 KB	csv	FTP HTTPs
OMIX001616-20	scATAC_barcodes.tsv	4	Other Type of Genomic Data	107.0 KB	tsv	FTP HTTPs
OMIX001616-21	scATAC_features.tsv	4	Other Type of Genomic Data	5.8 MB	tsv	FTP HTTPs
OMIX001616-22	scATAC_peak_matrix.mtx.gz	4	Other Type of Genomic Data	165.9 MB	gz	FTP HTTPs
OMIX001616-23	scATAC_S14_fragments.zip	1	Other Type of Genomic Data	426.08 MB	zip	FTP HTTPs
OMIX001616-24	scATAC_S98_fragments.zip	1	Other Type of Genomic Data	146.16 MB	zip	FTP HTTPs
OMIX001616-25	scATAC_S96_fragments.zip	1	Other Type of Genomic Data	218.42 MB	zip	FTP HTTPs
OMIX001616-26	scATAC_S35_fragments.zip	1	Other Type of Genomic Data	409.91 MB	zip	FTP HTTPs
OMIX001616-27	S98_cellranger-atac_outputs.zip	1	Other Type of Genomic Data	2.29 GB	zip	FTP HTTPs
OMIX001616-28	S14_cellranger-atac_outputs.zip	1	Other Type of Genomic Data	2.25 GB	zip	FTP HTTPs
OMIX001616-29	S35_cellranger-atac_outputs.zip	1	Other Type of Genomic Data	2.21 GB	zip	FTP HTTPs
OMIX001616-30	S96_cellranger-atac_outputs.zip	1	Other Type of Genomic Data	1.83 GB	zip	FTP HTTPs

3Relevant Publications

Paper Title	Journal Name	Publish Time	Accession	Citing Type
Single-cell multi-omic analyses highlight the essential role of NKX2. 2-CLEC16A/endosomal pathway for human pancreatic differentiation and function	Cell Reports	2026-02	OMIX236 OMIX001616	Secondary use
Embryonic macrophages support endocrine commitment during human pancreatic differentiation	Cell Stem Cell	2024-10	OMIX001616	Secondary use
Pancreatic organogenesis mapped through space and time	Experimental & Molecular Medicine	2025-01	OMIX001616	Secondary use
Deciphering early human pancreas development at the single-cell level	Nature Communications	2023-09	OMIX001616 OMIX236	Deposit Secondary use
Oxidative stress and GPX2 control pancreatic vs. non-pancreatic cell fate in human endoderm	Nature Communications	2026-01	OMIX001616	Secondary use
Extracellular matrix-driven metabolic control of pancreatic endocrine lineage allocation	EMBO Reports	2025-10	OMIX001616	Secondary use
Single-cell multiome analysis supports α-to-β transdifferentiation in human pancreas	bioRxiv	2025-02	OMIX001616	Secondary use
Spatially organized cellular communities shape functional tissue architecture in the pancreas	bioRxiv	2025-04	OMIX001616	Secondary use
Spatially organized cellular communities shape functional tissue architecture in the pancreas	Science Advances	2025-11	OMIX001616	Secondary use
PPDPF is not a key regulator of human pancreas development	PLoS genetics	2025-04	OMIX001616	Secondary use

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