▸ 主要研究

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• 基于基因及调控区进化保守性评估细胞和组织发育潜能的定量分析, 上海交通大学学报(医学版), 2023, 论文, 共同通讯作者

• Feature-weight based measurement of cancerous transcriptome using cohort-wide and sample-specific information, Cellular Oncology, 2023, {代码, 论文, 免费全文}, 通讯作者

• InferLoop: leveraging single-cell chromatin accessibility for the signal of chromatin loop, Briefings in Bioinformatics, 2023, {代码, 论文}, 第一&共同通讯作者

• FitDevo: accurate inference of single-cell developmental potential using sample-specific gene weight, Briefings in Bioinformatics, 2022, {代码, 论文}, 第一&共同通讯作者

• scMAGIC: accurately annotating single cells using two rounds of reference-based classification, Nucleic Acids Research, 2022, {代码, 论文}, 共一作者

• Unsupervised Inference of Developmental Directions for Single Cells Using VECTOR, Cell Reports, 2020, {代码, 论文}, 第一作者

• A novel approach to remove the batch effect of single-cell data, Cell Discovery, 2019, {代码, 论文}, 第一作者

• PhenoPro: a novel toolkit for assisting in the diagnosis of Mendelian disease, Bioinformatics, 2019, {代码, 论文}, 共一作者

• SPRINT: an SNP-free toolkit for identifying RNA editing sites, Bioinformatics, 2017, {代码, 论文}, 第一作者

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▸ 合作研究

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• Ultrasmall Cu2I2 nanoclusters trigger metabolic-epigenetic reprogramming and endogenous antioxidant systems for alleviating osteoarthritis, Chemical Engineering Journal, 2024, 论文

• ARID1A loss promotes RNA editing of CDK13 in an ADAR1-dependent manner, BMC Biology, 2024, 论文

• Long-read sequencing reveals alternative splicing-driven, shared immunogenic neoepitopes regardless SF3B1 status in uveal melanoma, Cancer Immunology Research, 2023, 论文

• Kinase-independent role of mTOR and on-/off-target effects of an mTOR kinase inhibitor, Leukemia, 2023, 论文

• Loss of phosphatase CTDNEP1 potentiates aggressive medulloblastoma by triggering MYC amplification and genomic instability, Nature Communications, 2023, 论文

• Inducible lncRNA transgenic mice reveal continual role of HOTAIR in promoting breast cancer metastasis, Elife, 2022, 论文

• Human fetal cerebellar cell atlas informs medulloblastoma origin and oncogenesis, Nature, 2022, 论文

• Single-cell multiomics identifies clinically relevant mesenchymal stem-like cells and key regulators for MPNST malignancy, Science Advances, 2022, 论文

• Conserved and Distinct Functions of the Autism-Related Chromatin Remodeler CHD8 in Embryonic and Adult Forebrain Neurogenesis, Journal of Neuroscience, 2022, 论文

• CDC42 controlled apical-basal polarity regulates intestinal stem cell to transit amplifying cell fate transition via YAP-EGF-mTOR signaling, Cell Reports, 2022, 论文

• OLIG2 maintenance is not essential for diffuse intrinsic pontine glioma cell line growth but regulates tumor phenotypes, Neuro-Oncology, 2021, 论文

• Single-cell transcriptomic analysis reveals a hepatic stellate cell-activation roadmap and myofibroblast origin during liver fibrosis, Hepatology, 2021, 论文

• 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, 论文

• CTCF-mediated chromatin looping in EGR2 regulation and SUZ12 recruitment critical for peripheral myelination and repair, Nature Communications, 2020, 论文

• The CAFA challenge reports improved protein function prediction and new functional annotations for hundreds of genes through experimental screens, Genome Biology, 2019, 论文

• Single-Cell Transcriptomics in Medulloblastoma Reveals Tumor-Initiating Progenitors and Oncogenic Cascades during Tumorigenesis and Relapse, Cancer Cell, 2019, 论文

• Single-cell Transcriptomics Uncovers Glial Progenitor Diversity and Cell Fate Determinants during Development and Gliomagenesis, Cell Stem Cell, 2019, 论文

• Dual requirement of CHD8 for chromatin landscape establishment and histone methyltransferase recruitment to promote CNS myelination and repair, Developmental Cell, 2018, 论文

• Genome-wide identification of regulatory sequences undergoing accelerated evolution in the human genome, Molecular Biology and Evolution, 2016, 论文

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▸ 工作经历 & 教育经历

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• 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-至今

• 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, 2020-2023

• 访问学者, 辛辛那提儿童医院医学中心, 美国, 2018-2020. 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, 2015-2020. 导师: 田卫东 教授

• 暑期学校, 加州大学洛杉矶分校, 美国, 2013. 生物统计学导论. 主讲: Prof. Gjertson, D.W.

• 本科, 数学学院, 山东大学, 中国, 2011-2015

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▸ 联系方式

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• 中国上海重庆南路280号，邮编200025

• fzhang@shsmu.edu.cn