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| Status |
Public on Nov 29, 2018 |
| Title |
mRNA sequencing of the mouse and human Hep-Orgs, Chol-Orgs and primary hepatocytes |
| Organisms |
Homo sapiens; Mus musculus |
| Experiment type |
Expression profiling by high throughput sequencing
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| Summary |
The mammalian liver possesses a remarkable regenerative ability. 1) The 'oval cell' response emanates from the biliary tree when all hepatocytes are affected by chronic liver disease. 2) A massive, proliferative response of mature hepatocytes occurs upon acute liver damage such as partial hepatectomy (PHx).
We establish a long-term 3D organoid culture system from mouse and human fetal/pediatric/adult hepatocytes that retain key morphological and functional features of hepatocytes fate. We report the mRNA and single cell sequencing of Hep-Orgs from different donors in different passages. We compared Hep-Orgs with primary hepatocytes, proliferative hepatocytes or Chol-Orgs derived from Epcam+ biliary cells. By analyzing, we determine similar gene expression profile of Hep-Orgs with primary hepatocytes and make genes lists distinguished with undamaged hepatocytes as well. We find the Hep-Orgs resemble proliferative damage-response of hepatocytes after partial hepatectomy while Chol-Orgs express high cholangiocytes markers. The sequencing data constitutes a valuable resource to understand liver organoids especially Hep-Orgs.
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| Overall design |
We generated transciptome data [1] from hepatocytes unbiasely sorted from the labeled mice liver three days after 2/3 partial heptectomy [2] from mouse and human Hep-Orgs and compare them with primary undamaged hepatocytes, proliferative hepatocytes and Chol-Orgs
Please note that the processed *csv files contains extra data columns which do not belong to the current samples. The submitter provided the 'readme.txt' file indicating which column the corresponding data is included.
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| Contributor(s) |
Hu H, Gehart H, Artegiani B, van Es JH, Basak O, Chuva de Sousa Lopes SM, Clevers H |
| Citation(s) |
30500538 |
| |
| Submission date |
Mar 01, 2018 |
| Last update date |
Mar 26, 2019 |
| Contact name |
Huili Hu |
| E-mail(s) |
maier2866@gmail.com
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| Phone |
0031619308926
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| Organization name |
Hubrecht Institute
|
| Lab |
Clevers
|
| Street address |
Upsalalaan 8
|
| City |
Utrecht |
| ZIP/Postal code |
3584CT |
| Country |
Netherlands |
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| Platforms (2) |
| GPL18573 |
Illumina NextSeq 500 (Homo sapiens) |
| GPL19057 |
Illumina NextSeq 500 (Mus musculus) |
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| Samples (29)
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| GSM3028090 |
first plate of hepatocytes from PHx model |
| GSM3028091 |
second plate of hepatocytes from PHx model |
| GSM3028092 |
first plate of undamaged hepatocytes |
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| Relations |
| BioProject |
PRJNA436546 |
| SRA |
SRP133748 |
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