童梦莎｜厦门大学｜学者主页

2026

TiRank prioritizes phenotypic niches in tumor microenvironment for clinical biomarker discovery

Yu-Xiang Lin, Zening Huang, Ziyan Lin, Yating Lin, Jinsheng Song, Ling Luo, J. Chi, Ye Zheng, You-Xin Gao, Junjie Lin, Xin-Yu Li, Chen-Yu Liang, Lei Zhang, Xinkang Wang, Yu-Qin Sun, Rongshan Yu, Qiyue Chen, Mengsha Tong

Genome Medicine

DOI

2026

AFD-INSTRUCTION: A Comprehensive Antibody Instruction Dataset with Functional Annotations for LLM-Based Understanding and Design

Ling Luo, Wenbin Jiang, Hongyuan Chang, Xinkang Wang, Xushi Zhang, Yueting Xiong, Mengsha Tong, Rongshan Yu

arXiv.org

DOI

2026

Single‐cell analysis reveals cytotoxic and memory CD8+ T cells associated with prolonged survival in relapsed/refractory leukaemia patients after haplo+cord haematopoietic stem cell transplantation

Hua Li, Zhe-Yang Zhang, Ming Zhu, Xiao-Fan Li, Jinxian Dai, Ping-Zhou Chen, Fei Chen, Xian-Ling Chen, Yiding Yang, Xiao-Hong Yuan, Ronghan Tang, Zhi-Juan Zhu, Hongli Lin, Ting Lin, Mengsha Tong, Tao Chen, Yuan-Zhong Chen, Jia-Liang Huang, Nai-Nong Li

Clinical and Translational Medicine

DOI

2025

AI赋能生物信息学翻转课堂的教学创新实践

童梦莎，李佳澳，骆灵，林育祥，林俊杰，王欣康，俞容山

《高校生物学教学研究(电子版)》

2025

A Collaborative Agentic AI Framework for Complex Disease Diagnosis

Ling Luo, Yujin Liu, Mengsha Tong, Qichang Wu, Jin-Zhun Wu, Rong-Shan Yu

International Conference on Agents

DOI

2025

Protocol to predict the origin of cancer of unknown primary from gene expression data using BPformer

Jia-Jing Xie, T. Qi, Ying Chen, Chaoyong Yang, Mengsha Tong, Rogshan Yu

STAR Protocols

DOI

2024

Cross-Run Hybrid Features Improve the Identification of Data-Independent Acquisition Proteomics

Yachen Liu, Longfei Mei, Chen-Yu Liang, Chuan-Qi Zhong, Mengsha Tong, Rongshan Yu

ACS Omega

DOI

2024

ST-Align: A Multimodal Foundation Model for Image-Gene Alignment in Spatial Transcriptomics

Yu-Xiang Lin, Ling Luo, Ying Chen, Xushi Zhang, Zihui Wang, Wenxian Yang, Mengsha Tong, Rongshan Yu

arXiv.org

DOI

2024

Lymphatic-localized Treg-mregDC crosstalk limits antigen trafficking and restrains anti-tumor immunity.

Si-Yuan You, Shu-Qin Li, Lingsu Zeng, Jinsheng Song, Zi-Feng Li, Weiyun Li, H. Ni, Xu Xiao, Wenbo Deng, Hong-Ye Li, Wenbo Lin, Chen-Yu Liang, Yan Zheng, Shih-Chin Cheng, Nengming Xiao, Mengsha Tong, Rong-Shan Yu, Jialiang Huang, Hong-Ling Huang, Hong-Zhi Xu, Jiahuai Han, Jian-Lin Ren, Kai-Rui Mao

Cancer Cell

DOI

2024

SIMarker: Cellular similarity detection and its application to diagnosis and prognosis of liver cancer

Mengsha Tong, Shi-Jie Luo, Lin Gu, Xinkang Wang, Zhe-Yang Zhang, Chen-Yu Liang, Hua-Ying Huang, Yu-Xiang Lin, Jialiang Huang

Comput. Biol. Medicine

DOI

2024

Personalized analysis of human cancer multi-omics for precision oncology

Jiaao Li, Jingyi Tian, Yachen Liu, Zan Liu, Mengsha Tong

Computational and Structural Biotechnology Journal

DOI

2024

PathMethy: an interpretable AI framework for cancer origin tracing based on DNA methylation

Jia-Jing Xie, Yuhang Song, Hailong Zheng, Shi-Jie Luo, Ying Chen, Chen Zhang, Rogshan Yu, Mengsha Tong

Briefings Bioinform.

DOI

2024

Tracing unknown tumor origins with a biological-pathway-based transformer model

Jia-Jing Xie, Ying Chen, Shi-Jie Luo, Wenxian Yang, Yu-Xiang Lin, Lian-Sheng Wang, X. Ding, Mengsha Tong, Rogshan Yu

Cell Reports Methods

DOI

2024

PhosMap: An ensemble bioinformatic platform to empower interactive analysis of quantitative phosphoproteomics

Mengsha Tong, Zan Liu, Jiaao Li, Xin Wei, Wenhao Shi, Chen-Yu Liang, Chun-Yu Yu, Rongting Huang, Yu-Xiang Lin, Xinkang Wang, Shun Wang, Yi Wang, Jialiang Huang, Yi-Ni Wang, Tingting Li, Jun Qin, Dong-Dong Zhan, Zhi-Liang Ji

Comput. Biol. Medicine

DOI

2024

Deciphering cell states and the cellular ecosystem to improve risk stratification in acute myeloid leukemia

Zhe-Yang Zhang, Ronghan Tang, Ming Zhu, Zhi-Juan Zhu, Jiali Zhu, Hua Li, Mengsha Tong, Nai-Nong Li, Jia-Liang Huang

Briefings Bioinform.

DOI

2024

Single-Cell Multi-Omics Reveals Immune Characteristics of T Cells in Patients with Relapsed/Refractory Leukemia after Haplo+Cord HSCT

Nai-Nong Li, Hua Li, Zhe-Yang Zhang, Ming Zhu, Xiao-Fan Li, Ping-Zhou Chen, Fei Chen, Xian-Ling Chen, Yiding Yang, Xiao-Hong Yuan, Ronghan Tang, Zhijuan Zhu, Hongli Lin, Ting Lin, Mengsha Tong, Tao Chen, C. Zhong, Jia-Liang Huang

Blood

DOI

2023

CovidShiny: An Integrated Web Tool for SARS-CoV-2 Mutation Profiling and Molecular Diagnosis Assay Evaluation In Silico

Shaoqian Ma, Ge-Zhi Xiao, Xusheng Deng, Mengsha Tong, Jialiang Huang, Qing-Ge Li, Yongyou Zhang

Viruses

DOI

2023

Prioritizing prognostic-associated subpopulations and individualized recurrence risk signatures from single-cell transcriptomes of colorectal cancer

Mengsha Tong, Yuxiang Lin, Wenxian Yang, Jinsheng Song, Zheyang Zhang, Jiajing Xie, Jingyi Tian, Shijie Luo, Chenyu Liang, Jialiang Huang, Rongshan Yu

Briefings in Bioinformatics

DOI

2022

增强子对基因表达的调控：从新技术到新机制

武成一，陈斐，洪丹妮，朱明，童梦莎，黄佳良

《厦门大学学报(自然科学版)》

2022

Application of individualized differential expression analysis in human cancer proteome

Yachen Liu, Yalan Lin, Wenxian Yang, Yuxiang Lin, Yujuan Wu, Zheyang Zhang, Nuoqi Lin, Xianlong Wang, Mengsha Tong, Rongshan Yu

Briefings in Bioinformatics

DOI

2022

Complexity of enhancer networks predicts cell identity and disease genes revealed by single-cell multi-omics analysis

Danni Hong, Hongli Lin, Lifang Liu, Muya Shu, Jianwu Dai, Falong Lu, Mengsha Tong, Jialiang Huang

Briefings in Bioinformatics

DOI

2019

基于磷酸化组学技术发现弥漫型胃癌分子亚型与激酶靶点

童梦莎

《清华大学》

2019

Phosphoproteomics Enables Molecular Subtyping and Nomination of Kinase Candidates for Individual Patients of Diffuse-Type Gastric Cancer

Mengsha Tong, Chunyu Yu, Jinwen Shi, Wenwen Huang, Sai Ge, Mingwei Liu, Lei Song, Dongdong Zhan, Xia Xia, Wanlin Liu, Jinwen Feng, Wenhao Shi, Jiafu Ji, Jing Gao, Tieliu Shi, Weimin Zhu, Chen Ding, Yi Wang, Fuchu He, Lin Shen, Tingting Li, Jun Qin

iScience

DOI

2016

基于药物诱导的肿瘤耐药细胞系识别临床相关的耐药基因

童梦莎

《福建医科大学》

童梦莎

精选作品

期刊论文

TiRank prioritizes phenotypic niches in tumor microenvironment for clinical biomarker discovery

AFD-INSTRUCTION: A Comprehensive Antibody Instruction Dataset with Functional Annotations for LLM-Based Understanding and Design

Single‐cell analysis reveals cytotoxic and memory CD8+ T cells associated with prolonged survival in relapsed/refractory leukaemia patients after haplo+cord haematopoietic stem cell transplantation

AI赋能生物信息学翻转课堂的教学创新实践

A Collaborative Agentic AI Framework for Complex Disease Diagnosis

Protocol to predict the origin of cancer of unknown primary from gene expression data using BPformer

Cross-Run Hybrid Features Improve the Identification of Data-Independent Acquisition Proteomics

ST-Align: A Multimodal Foundation Model for Image-Gene Alignment in Spatial Transcriptomics

Lymphatic-localized Treg-mregDC crosstalk limits antigen trafficking and restrains anti-tumor immunity.

SIMarker: Cellular similarity detection and its application to diagnosis and prognosis of liver cancer

Personalized analysis of human cancer multi-omics for precision oncology

PathMethy: an interpretable AI framework for cancer origin tracing based on DNA methylation

Tracing unknown tumor origins with a biological-pathway-based transformer model

PhosMap: An ensemble bioinformatic platform to empower interactive analysis of quantitative phosphoproteomics

Deciphering cell states and the cellular ecosystem to improve risk stratification in acute myeloid leukemia

Single-Cell Multi-Omics Reveals Immune Characteristics of T Cells in Patients with Relapsed/Refractory Leukemia after Haplo+Cord HSCT

CovidShiny: An Integrated Web Tool for SARS-CoV-2 Mutation Profiling and Molecular Diagnosis Assay Evaluation In Silico

Prioritizing prognostic-associated subpopulations and individualized recurrence risk signatures from single-cell transcriptomes of colorectal cancer

增强子对基因表达的调控：从新技术到新机制

Application of individualized differential expression analysis in human cancer proteome

Complexity of enhancer networks predicts cell identity and disease genes revealed by single-cell multi-omics analysis

基于磷酸化组学技术发现弥漫型胃癌分子亚型与激酶靶点

Phosphoproteomics Enables Molecular Subtyping and Nomination of Kinase Candidates for Individual Patients of Diffuse-Type Gastric Cancer

基于药物诱导的肿瘤耐药细胞系识别临床相关的耐药基因

预印本

Integrated analysis of single-cell transcriptome of liver cancer and cirrhosis reveals cell lineage similarity and prognostic-associated subpopulations