Published March 30, 2023
| Version v1
Dataset
Open
Spatial Transcriptomics in HCC
Authors/Creators
-
Shankar, Rama1
- Tan, Mingdian2
- Zhang, Yueqi3
- Green, Benjamin4
- Zagorski, Joseph W.5
- Goodyke, Austin J.5
- Paithankar, Shreya1
- Adams, Marie6
- Hostetter, Galen6
- Siwicki, Rebecca A.6
- Hein, Sydney6
- Yang, Doris7
- Zhou, Li8
- Mi, Qing-Sheng8
- Ghaziani, Tara T.9
- Dhanasekaran, Renumathy9
- Chesla, Dave10
- Chen, Xin7
- Xiao, Hua3
- So, Samuel2
- Chua, Mei-Sze2
- Chen, Bin1
- 1. Department of Pediatrics and Human Development, College of Human Medicine, Michigan State University, Grand Rapids, MI 49503, USA
- 2. Asian Liver Center, Department of Surgery, School of Medicine, Stanford University, Stanford, California, 94305, USA
- 3. Department of Physiology, College of Human Medicine, Michigan State University, East Lansing, MI 48824, USA.
- 4. University of Hawaii Cancer Center, Honolulu, HI 96813, USA.
- 5. Corewell Health, Grand Rapids, MI 49503, USA
- 6. Van Andel Research Institute, Grand Rapids, MI 49503, USA
- 7. University of Hawaii Cancer Center, Honolulu, HI 96813, USA
- 8. Center for Cutaneous Biology and Immunology, Henry Ford Health, Detroit, MI, 48202, USA
- 9. Asian Liver Center, Department of Surgery, School of Medicine, Stanford University, Stanford, California, 94305, USA.
- 10. Corewell Health, Grand Rapids, MI 49503, USA.
Description
The morbidity of Hepatocellular carcinoma (HCC) is highest in individuals with chronic liver diseases (CLD). However, the effects of cell composition on the progression of CLDs to HCC remain elusive. To gain a better understanding of the spatial distribution of cells and their interactions, we created spatial transcriptome data from two HCC and their normal adjacent FFPE tissues using the 10x visium platform. We processed the data using cellRanger and mapped it to the Human Hg38 reference genome with GRCh38.p3 annotation. All data generated by cellRanger is provided here