副教授

电子信息科学与技术学科带头人

海南比勒费尔德应用科学大学（海南比科大）

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工作：曾任上海交通大学医学院副研究员，合作PI为李令杰研究员。曾于美国辛辛那提儿童医院访学，合作者为Qing Richard Lu教授和Yi Zheng教授。

教育：博士毕业于复旦大学生命科学学院计算生物学系，生物统计学专业，导师为田卫东教授。本科毕业于山东大学数学学院，信息安全专业，本科毕业后经保研直接攻读博士学位。

教学：Programming 1 (BiUH), Data Analysis and Intro to ML (BiUH), 群体遗传学 (上交医学院), 常用生物信息学与统计学算法 (上交医学院), RNA测序数据分析 (复旦大学, 暑期学校).

科研：主要研究领域为单细胞与空间多组学算法开发及创新应用，有多年算法开发及数据分析经验。主持国自然青年项目及上海市科委扬帆计划项目，参与多个国家级、省部级项目。主要研究发表在Cell Reports、Cell Discovery、Brief Bioinform等杂志，合作研究发表在Cancer Cell、Cell Stem Cell、PNAS等杂志。

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▸ 研究论文

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• ★ A Novel Prognostic Signature of Mitophagy-Related E3 Ubiquitin Ligases in Breast Cancer, International Journal of Molecular Sciences, 2025.02, paper, co-corresponding author

• Ultrasmall Cu2I2 nanoclusters trigger metabolic-epigenetic reprogramming and endogenous antioxidant systems for alleviating osteoarthritis, Chemical Engineering Journal, 2024.10, paper

• ARID1A loss promotes RNA editing of CDK13 in an ADAR1-dependent manner, BMC Biology, 2024.06, paper

• Long-read sequencing reveals alternative splicing-driven, shared immunogenic neoepitopes regardless SF3B1 status in uveal melanoma, Cancer Immunology Research, 2023.12, paper

• ★ Quantitative analysis of the developmental potential of cells and tissues based on evolutionary conservation of genes and regulatory regions, Journal of Shanghai Jiao Tong University (Medical Science), 2023.11, paper, co-corresponding author

• ★ Feature-weight based measurement of cancerous transcriptome using cohort-wide and sample-specific information, Cellular Oncology, 2023.10, {code, paper, full-text}, corresponding author

• Kinase-independent role of mTOR and on-/off-target effects of an mTOR kinase inhibitor, Leukemia, 2023.08, paper

• ★ InferLoop: leveraging single-cell chromatin accessibility for the signal of chromatin loop, Briefings in Bioinformatics, 2023.05, {code, paper}, first & co-corresponding author

• Loss of phosphatase CTDNEP1 potentiates aggressive medulloblastoma by triggering MYC amplification and genomic instability, Nature Communications, 2023.02, paper

• Inducible lncRNA transgenic mice reveal continual role of HOTAIR in promoting breast cancer metastasis, Elife, 2022.12, paper

• Single-cell multiomics identifies clinically relevant mesenchymal stem-like cells and key regulators for MPNST malignancy, Science Advances, 2022.11, paper

• Conserved and Distinct Functions of the Autism-Related Chromatin Remodeler CHD8 in Embryonic and Adult Forebrain Neurogenesis, Journal of Neuroscience, 2022.11, paper

• ★ FitDevo: accurate inference of single-cell developmental potential using sample-specific gene weight, Briefings in Bioinformatics, 2022.09, {code, paper}, first & co-corresponding author

• CDC42 controlled apical-basal polarity regulates intestinal stem cell to transit amplifying cell fate transition via YAP-EGF-mTOR signaling, Cell Reports, 2022.06, paper

• ★ scMAGIC: accurately annotating single cells using two rounds of reference-based classification, Nucleic Acids Research, 2022.05, {code, paper}, co-first author

• OLIG2 maintenance is not essential for diffuse intrinsic pontine glioma cell line growth but regulates tumor phenotypes, Neuro-Oncology, 2021.11, paper

• Single-cell transcriptomic analysis reveals a hepatic stellate cell-activation roadmap and myofibroblast origin during liver fibrosis, Hepatology, 2021.11, paper

• Adaptive responses to mTOR gene targeting in hematopoietic stem cells reveal a proliferative mechanism evasive to mTOR inhibition, Proceedings of the National Academy of Sciences of the United States of America, 2020.12, paper

• ★ Unsupervised Inference of Developmental Directions for Single Cells Using VECTOR, Cell Reports, 2020.08, {code, paper}, first author

• CTCF-mediated chromatin looping in EGR2 regulation and SUZ12 recruitment critical for peripheral myelination and repair, Nature Communications, 2020.08, paper

• The CAFA challenge reports improved protein function prediction and new functional annotations for hundreds of genes through experimental screens, Genome Biology, 2019.11, paper

• ★ A novel approach to remove the batch effect of single-cell data, Cell Discovery, 2019.09, {code, paper}, first author

• Single-Cell Transcriptomics in Medulloblastoma Reveals Tumor-Initiating Progenitors and Oncogenic Cascades during Tumorigenesis and Relapse, Cancer Cell, 2019.07, paper

• Single-cell Transcriptomics Uncovers Glial Progenitor Diversity and Cell Fate Determinants during Development and Gliomagenesis, Cell Stem Cell, 2019.03, paper

• ★ PhenoPro: a novel toolkit for assisting in the diagnosis of Mendelian disease, Bioinformatics, 2019.02, {code, paper}, co-first author

• Dual requirement of CHD8 for chromatin landscape establishment and histone methyltransferase recruitment to promote CNS myelination and repair, Developmental Cell, 2018.05, paper

• ★ SPRINT: an SNP-free toolkit for identifying RNA editing sites, Bioinformatics, 2017.07, {code, paper}, first author

• Genome-wide identification of regulatory sequences undergoing accelerated evolution in the human genome, Molecular Biology and Evolution, 2016.07, paper

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▸ 工作 & 教育

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• 副教授 & 学科带头人，电子信息科学与技术，海南比勒费尔德应用科学大学, 中国, 2025.03 至今

• 副教授, 计算机科学, 海南比勒费尔德应用科学大学, 中国, 2025.02-2025.03

• 副研究员, 组织胚胎学与遗传发育学系, 上海交通大学医学院, 中国, 2024.01-2025.01

• 助理研究员, 组织胚胎学与遗传发育学系, 上海交通大学医学院, 中国, 2020.10-2023.12

• 访问学者, 辛辛那提儿童医院医学中心, 美国, 2018.01-2020.01. 合作者: Prof. Qing Richard Lu 和 Prof. Yi Zheng

• 博士, 生物统计学, 生命科学学院, 复旦大学, 中国, 2015.09-2020.06. 导师: 田卫东 教授

• 暑期学校, 加州大学洛杉矶分校, 美国, 2013.08-2013.09. 生物统计学导论. 主讲: Prof. Gjertson, D.W.

• 本科, 信息安全, 数学学院, 山东大学, 中国, 2011.09-2015.06

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▸ 联系方式

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• 电子邮箱（工作）: feng.zhang at hainan-biuh.edu.cn

• 电子邮箱 （个人）: jumphone at outlook.com

• 工作地址: 海南陵水黎安国际教育创新试验区, 572400, 中国