NPC_scRNA_Spatial_code

KO | EN

gitlite — search

#javascript #hacktoberfest #typescript #llm #golang #go #deep-learning #docker #nodejs #macos #cli #vue #awesome-list #security

NPC_scRNA_Spatial_code

(★ 11)

Data Analysis Process of "Single-cell and spatial transcriptomics reveal the molecular and histological mechanisms of radioresistance and immune escape in recurrent nasopharyngeal carcinoma"

NPC_scRNA_Spatial_code 최신버젼 다운로드

최종 버전 다운로드 (.zip)

// repository documentation

Was this content helpful?

★ 0 (0 ratings)

# NPC_scRNA_ST_code
Data Analysis Process of "Single-cell and spatial transcriptomics reveal mechanisms of radioresistance and immune escape in recurrent nasopharyngeal carcinoma".

For citation or to learn more, please visit our article: Single-cell and spatial transcriptomics reveal mechanisms of radioresistance and immune escape in recurrent nasopharyngeal carcinoma

For bulk RNA-seq access, please visit: https://ngdc.cncb.ac.cn/gsa-human/s/aBR4OloA. <br>

For scRNA-seq and spatial data access, please visit: https://ngdc.cncb.ac.cn/gsa-human/s/6R3na3yw. <br>

Below is the specific content introduction of the code file：

**RNA-seq:**

01: Deconv for bulk RNA-seq

02: Survival analysis

**scRNA-seq:**

01: Load scRNA-seq data data and preprocess

02: Integation by harmony and clustering/annotation for scRNA-seq data

03: NMF anaylsis for single malignant cells

04: DEG analysis

05: Crosstalk (ligand and receptor analysis) using liana

06.1: Trajectory analysis using Monocle3 for CAF (Cancer-associated fibroblast)

06.2: Trajectory analysis using Monocle3 for CD8T

07: CytoTRACE (Cellular (Cyto) Trajectory Reconstruction Analysis using gene Counts and Expression) analysis for CAF

**Spatial transcriptomics:**

01: Progeny (Pathway RespOnsive GENes for activity inference) for spatial data

02: Deconvolution for ST data by using SpaCET (Spatial Cellular Estimator for Tumors)

03: Colocalization score

04: Stemness scores for Malignant near/not near CAFs

05: Spatial interactions using COMMOT

06: Neighbor enrichment using Suqidpy

07: Distance from myeloid to malignant on ST data

NPC_scRNA_Spatial_code

NPC_scRNA_Spatial_code 최신버젼 다운로드

오늘의 추천 프로젝트

Was this content helpful?

Recent Feedback

NPC_scRNA_Spatial_code

NPC_scRNA_Spatial_code 최신버젼 다운로드

오늘의 추천 프로젝트

Was this content helpful?

Recent Feedback

Download README