scRNAseq: Human liver cholangiocyte organoids capture the heterogeneity of in vivo human liver ductal epithelium
Liver ductal organoids expanded in either conventional (Huch et al., 2015) or refined medium were split and seeded either in the same medium or in DM+. They were sequenced on day 10 after splitting. Droplet-based scRNA-seq was performed using the 10x Genomics Chromium Single Cell Kit v3, and libraries were sequenced on an Illumina NovaSeq 6000 S4. Raw sequencing data were processed using Cell Ranger software (v6.0.1) with the human genome reference (hg38) and gene annotation (Ensembl 98). Dataset integration and downstream analysis were mainly performed using Seurat (v4.3.0.1) with R v4.1.3 “One Push-up”.
- 30/10/2025
- 12 samples
- DAC: EGAC50000000112
- Technology: Illumina NovaSeq 6000
Studies are experimental investigations of a particular phenomenon, e.g., case-control studies on a particular trait or cancer research projects reporting matching cancer normal genomes from patients.
| Study ID | Study Title | Study Type |
|---|---|---|
| EGAS50000001000 | Transcriptome Sequencing |
This table displays only public information pertaining to the files in the dataset. If you wish to access this dataset, please submit a request. If you already have access to these data files, please consult the download documentation.
| ID | File Type | Size | Quality Report |
Located in
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| EGAF50000369384 | fq.gz | 23.3 GB |
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| EGAF50000369385 | fq.gz | 18.3 GB |
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| EGAF50000369386 | fq.gz | 15.9 GB |
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| EGAF50000369387 | fq.gz | 13.8 GB |
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| EGAF50000369388 | fq.gz | 15.3 GB |
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| EGAF50000369389 | fq.gz | 13.3 GB |
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| EGAF50000369390 | fq.gz | 14.0 GB |
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| EGAF50000369391 | fq.gz | 12.2 GB |
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| EGAF50000369392 | fq.gz | 14.6 GB |
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| EGAF50000369393 | fq.gz | 12.7 GB |
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| EGAF50000369394 | fq.gz | 4.3 GB |
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| EGAF50000369395 | fq.gz | 3.4 GB |
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| EGAF50000369396 | fq.gz | 4.3 GB |
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| EGAF50000369397 | fq.gz | 3.6 GB |
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| EGAF50000369398 | fq.gz | 6.7 GB |
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| EGAF50000369399 | fq.gz | 5.8 GB |
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| EGAF50000369400 | fq.gz | 15.3 GB |
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| EGAF50000369401 | fq.gz | 13.2 GB |
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| EGAF50000369402 | fq.gz | 17.4 GB |
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| EGAF50000369403 | fq.gz | 15.1 GB |
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| EGAF50000369404 | fq.gz | 15.2 GB |
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| EGAF50000369405 | fq.gz | 13.3 GB |
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| EGAF50000369406 | fq.gz | 13.9 GB |
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| EGAF50000369407 | fq.gz | 12.0 GB |
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| EGAF50000369408 | fq.gz | 2.6 GB |
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| EGAF50000369409 | fq.gz | 2.2 GB |
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| EGAF50000369410 | fq.gz | 2.6 GB |
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| EGAF50000369411 | fq.gz | 2.1 GB |
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| EGAF50000369412 | fq.gz | 21.7 GB |
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| EGAF50000369413 | fq.gz | 19.0 GB |
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| EGAF50000369414 | fq.gz | 23.1 GB |
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| EGAF50000369415 | fq.gz | 20.1 GB |
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| 32 Files (390.4 GB) | ||||