Tutorials_scCAMEL_VICUNA

The VICUNA workflow in scCAMEL supports ligand-receptor and intercellular communication analysis. The tutorial below demonstrates an NTN1-centered cross-dataset analysis using the published PyPI scCAMEL 0.47b1 package.

• Tutorial: VICUNA intercellular communication with PyPI scCAMEL 0.47b1

Additional spatial transcriptomics notebooks:

https://github.com/StudioYZ/NB2024/blob/main/SourceCode-ST_ligand-receptor.ipynb

https://github.com/StudioYZ/NB2024/blob/main/SourceCode_ST_position_quantification.ipynb

The intercellular communication analysis has been applied for the research projects below:

Yunyun Xu*, Daohua Lou*, Ping Chen*, Gang Li*, Dimtry Usoskin, Jian Pan, Fang Li, Shungen Huang, Caroline Hess, Ruze Tang, Xiaohan Hu, Juanjuan Yu, Maria Arceo, Ronald R. de Krijger, Arthur S. Tischler, Susanne Schlisio, Patrik Ernfors#, Yizhou Hu#, Jian Wang# “Single-cell MultiOmics and spatial transcriptomics demonstrate neuroblastoma developmental plasticity” (Accepted)

Gao, Y., Yao, X., Zhai, Y., Li, L., Li, H., Sun, X., Yu, P., Xue, T., Li, Y.#*, and Hu, Y.#* (2021) “Single cell transcriptional zonation of human psoriasis skin identifies an alternative immuno-regulatory axis conducted by skin resident cells”. Cell Death Dis., 2021 May 6;12(5):450.

Fatt M., Zhang M., Kupari J., Altinkok M., Yang Y., Hu Y., Svenningsson P., Ernfors P.: Morphine-responsive neurons that regulate mechanical antinociception, Science. 2024 Aug 30;385(6712):eado6593.