From 7764cd032bd7a7bdf7ff9620bc8bfe81ef42690e Mon Sep 17 00:00:00 2001 From: Chia Kuei Mo Mo Date: Fri, 27 Dec 2024 12:41:07 -0600 Subject: [PATCH] Update README.md To include literature link and move Data Access to first read me --- README.md | 24 +++++++++++++++++++----- 1 file changed, 19 insertions(+), 5 deletions(-) diff --git a/README.md b/README.md index a2797fd..92781cc 100644 --- a/README.md +++ b/README.md @@ -1,14 +1,28 @@ -# ST subclone manuscript +# Tumour evolution and microenvironment interactions in 2D and 3D space + +![image](https://github.com/user-attachments/assets/f915b5be-79dc-4c32-b88b-74f3b220e78c) + + ## Overview This is the repo for the manuscript "Spatial clonal evolution and clone-specific microenvironment interactions within three-dimensional tumor structures" ## Repo structure * Figure 1. Spatial microregions across cancers * Figure 2. Focal clonal evolution in microregions -* Figure 3. Genetic changes drive tumour disparities & Cellular pathway at tumour core and edge +* Figure 3. Genetic changes drive tumour disparities & Cellular pathways at tumour core and edge * Figure 4. Clonal-specific Tumor-TME interaction * Figure 5 & 6. 3D tumour structure and TME interactions -## Data Access instruction -Data file for each data type can be access using ID listed in the file "Data_access/Sample_ID_Lookup_table_v1.xlsx" -Please see the readme in the .xlsx file and under the folder for more instructions +## Data Access +Data file for each data type can be accessed using ID listed in the file "Data_access/Sample_ID_Lookup_table_v1.xlsx" + +* CPTAC: CPTAC snRNA-seq data can be accessed through NIH GDC Data Portal using the CPTAC Case ID: https://portal.gdc.cancer.gov/cases/ + +* HTAN: HTAN data can be accessed with HTAN Biospecimen and HTAN Participant ID on HTAN DCC, WUSTL Atlas: https://humantumoratlas.org/explore?selectedFilters=%5B%7B%22group%22%3A%22AtlasName%22%2C%22value%22%3A%22HTAN+WUSTL%22%7D%5D&tab=file + +## Manuscript: +DOI +https://doi.org/10.1038/s41586-024-08087-4 + +## Cite this article +Mo, CK., Liu, J., Chen, S. et al. Tumour evolution and microenvironment interactions in 2D and 3D space. Nature 634, 1178–1186 (2024). https://doi.org/10.1038/s41586-024-08087-4