师资队伍

苏现斌

 

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传真:
邮箱: xbsu@sjtu.edu.cn
主页: https://www.researchgate.net/profile/Xianbin_Su

学习经历
2008/9 - 2012/12,香港大学,微生物学,博士

2004/9 - 2008/7,中国科学技术大学,生物科学,学士

 

工作经历
2018/12 - 至今,上海交通大学,系统生物医学研究院,副研究员

2014/6 - 2018/12,上海交通大学,系统生物医学研究院,助理研究员

2012/12 - 2014/3,Fluidigm,Field Application Specialist

 

人才奖项
2015年 上海市青年科技英才扬帆计划

 

学会兼职与审稿人
纽约科学院(NYAS)Professional Member;
Sigma Xi科学荣誉协会Full membership;
中国生物工程学会计算生物学与生物信息学专业委员会委员;
中国遗传学会会员;
中国抗癌协会会员;
中国环境诱变剂学会会员;
中国生物化学与分子生物学会会员.

BMC Genomics,Gene,Comput Biol Med,Comput Struct Biotechnol J,Front Genetics,Front Oncology,Sci Rep等期刊审稿人.

肿瘤进化;单细胞生物学.

代表性成果包括:

[1]. 系统揭示中国膀胱腺癌患者中普遍存在化学毒物诱导的突变指纹,明确了膀胱腺癌的致病原因,进一步的生存分析发现具有该指纹的患者预后好于具有APOBEC相关突变指纹的患者(Journal of Pathology 2024, 262(3):334-346;摘要同时发表于Journal of Clinical Oncology 2024, doi:10.1200/JCO.2024.42.4_suppl.655);

[2]. 首次系统揭示肿瘤中性进化外表下可能隐藏共存亚克隆及动态进化,动摇了基于群体水平突变进行肿瘤克隆结构预测的传统范式(Ann NY Acad Sci 2022, 1517: 213-224);(新闻报导见http://www.ebiotrade.com/newsf/2022-9/20220925064207524.htm)

[3]. 首次实现单细胞及单突变分辨率的肝癌克隆进化重构,发现肝癌原发灶和门静脉癌栓(PVTT)共同起源但转移很早发生,此后二者独立进化演变(J Hematol Oncol 2021, 14:22);(新闻报导见https://scsb.sjtu.edu.cn/News/12343.html)

[4]. 通过对罕见的前列腺基底细胞癌样本进行单细胞全基因组扩增及单细胞RNA测序,首次揭示其突变规律及表达谱特征(Prostate 2020, 80:508–517);(中文解说见https://zhuanlan.zhihu.com/p/112796947)

[5]. 在单细胞水平重构肝脏发育过程中干/祖细胞两系分化轨迹,为胆管上皮细胞的命运决定时间节点提供新见解 (BMC Genomics 2017, 18:946; PNAS 2019, 116(20):9775-9784; Nature Methods 2020, 17:799–806)。

(#共同第一作者, *通讯作者)

2024

Guoliang Yang#, Akezhouli Shahatiaili#, Shihao Bai#, Liyang Wang#, Di Jin, Ming Cao, Peipei Su, Qiang Liu, Kun Tao, Qi Long, Yi Shi, Jing Xiao, Futong Tian, Lianhua Zhang*, Haige Chen*, Xianbin Su*. Mutational signature and prognosis in adenocarcinoma of bladder. (Journal of Pathology, 2024, 262(3):334-346)
(Abstract also appear in Journal of Clinical Oncology, https://doi.org/10.1200/JCO.2024.42.4_suppl.655)

Ruihong Li, Peipei Su, Yi Shi, Hui Shi, Shengqian Ding, Xianbin Su*, Peijie Chen*, Die Wu*. Gene doping detection in the era of genomics. (Drug Testing and Analysis, 2024, doi: 10.1002/dta.3664)


2023

Xin Zou#,*, Yujun Liu#, Miaochen Wang#, Jiawei Zou, Yi Shi, Xianbin Su, Juan Xu, Henry H Y Tong , Yuan Ji, Lv Gui*, Jie Hao*. scCURE identifies cell types responding to immunotherapy and enables outcome prediction. (Cell Report Methods, 2023, 3(11): 100643)

Sheng Cheng#, Yunhan Zou#, Man Zhang#, Shihao Bai, Kun Tao, Jiaoxiang Wu, Yi Shi, Yuelan Wu, Yinzhong Lu, Kunyan He, Peng Sun, Xianbin Su*, Shangwei Hou*, Bo Han*. Single-cell RNA sequencing reveals the heterogeneity and intercellular communication of hepatic stellate cells and macrophages during liver fibrosis. (medComm, 2023, 4:e378)

2022

Xianbin Su*#, Shihao Bai#, Gangcai Xie#, Yi Shi#, Linan Zhao, Guoliang Yang, Futong Tian, Kun-Yan He, Lan Wang, Xiaolin Li, Qi Long*, Ze-Guang Han*. Accurate tumor clonal structures require single-cell analysis. (Ann NY Acad Sci, 2022, 1517:213-224)

Lan Wang*#, Chuan-Huai Deng, Qing Luo, Xian-Bin Su#, Xue-Ying Shang, Shu-Jin Song, Sheng Cheng, Yu-Lan Qu, Xin Zou, Yi Shi, Qian Wang, Shi-Chun Du, Ze-Guang Han*. Inhibition of Arid1a increases stem/progenitor cell-like properties of liver cancer. (Cancer Letters, 2022, 546:215869)

Zehua Guo#, Liangjie Liu#, Mofan Feng#, Kai Su, Runqiu Chi, Keyi Li, Qing Lu, Xianbin Su, Lintai Da, Song Cao, Mingxuan Zhang, Luming Meng, Dan Cao, Jiayi Wang, Guang He*, Yi Shi*. 3D genome assisted protein-protein interaction prediction. (Future Generation Computer Systems,2022,137:87-96)

2021

Xianbin Su*#, Linan Zhao#, Yi Shi#, Rui Zhang, Qi Long, Shihao Bai, Qing Luo, Yingxin Lin, Xin Zou, Shila Ghazanfar, Kun Tao, Guoliang Yang, Lan Wang, Kun-Yan He, Xiaofang Cui, Jian He, Jiao-Xiang Wu, Bo Han, Bin Yan, Biao Deng, Na Wang, Xiaolin Li, Pengyi Yang, Shangwei Hou, Jielin Sun, Jean Y. H. Yang, Jinhong Chen* and Ze-Guang Han*, Clonal Evolution in Liver Cancer at Single-cell and Single-variant Resolution. (Journal of Hematology & Oncology, 2021, 14:22)

Zehua Guo#, Kai Su#, Liangjie Liu#, Xianbin Su#, Mofan Feng#, Song Cao#, Mingxuan Zhang#, Runqiu Chi, Luming Meng, Guang He*, and Yi Shi*. Improving Protein-protein Interaction Prediction by Incorporating 3D Genome Information. Y. Wei et al. (Eds.): ISBRA 2021, LNBI 13064, pp. 511-520, 2021. https://doi.org/10.1007/978-3-030-91415-8_43

Jiao-Xiang Wu#, Kun-Yan He*#, Zhuang-Zhuang Zhang#, Yu-Lan Qu, Xian-Bin Su, Yi Shi, Na Wang, Lan Wang, Ze-Guang Han*. LZP is required for hepatic triacylglycerol transportation through maintaining apolipoprotein B stability. (PLOS Genetics, 2021, 17(2):e1009357)

Kun-Yan He*, Guang-Xing Wang, Li-Nan Zhao, Xiao-Fang Cui, Xianbin Su, Yi Shi, Tian-Pei Xie, Shangwei Hou*, Ze-Guang Han*. Cinobufagin is a selective anti-cancer agent against tumors with EGFR amplification and PTEN deletion. (Frontiers in Pharmacology, 2021, 12:775602.)

2020

Xianbin Su#, Qi Long#, Juanjie Bo#, Yi Shi#, Li-Nan Zhao, Yingxin Lin, Qing Luo, Shila Ghazanfar, Chao Zhang, Qiang Liu, Lan Wang, Kun-Yan He, Jian He, Xiao-Fang Cui, Jean Y. H. Yang, Ze-Guang Han*, Guoliang Yang*, Jian-Jun Sha*. Mutational and transcriptomic landscapes of a rare human prostate basal cell carcinoma. (The Prostate, 2020, 80:508–517.)

Yi Shi*#, Mingxuan Zhang#, Luming Meng*#, Xianbin Su#, Xueying Shang#, Zehua Guo#, Qingjiao Li#, Mengna Lin, Xin Zou, Qing Luo, Yaoliang Yu, Yanting Wu, Lintai Da*, Tom Weidong Cai*, Guang He* and Ze-Guang Han*. A novel neoantigen discovery approach based on chromatin high order conformation. (BMC Medical Genomics, 2020, 13(Suppl 6):62)

Shila Ghazanfar, Yingxin Lin, Xianbin Su, David Ming Lin, Ellis Patrick, Ze Guang Han, John C. Marioni*, Jean Yee Hwa Yang*. Investigating higher order interactions in single cell data with scHOT. (Nature Methods, 2020, 17:799–806)

Yi Shi#*, Zehua Guo#, Xianbin Su#, Luming Meng*, Mingxuan Zhang, Jing Sun, Chao Wu, Minhua Zheng, Xueyin Shang, Xin Zou, Wangqiu Cheng, Yaoliang Yu, Yujia Cai, Chaoyi Zhang, Weidong Cai, Lintai Da*, Guang He*, Ze-guang Han*. DeepAntigen: A Novel Method for Neoantigen Prioritization via 3D Genome and Deep Sparse Learning. (Bioinformatics, 2020, btaa596, https://doi.org/10.1093/bioinformatics/btaa596.)

赵利楠,王娜,杨国良,苏现斌,韩泽广*. 基于单细胞靶向测序探究基因碱基突变的方法. 遗传, 42(7):703-712, doi: 10.16288/j.yczz.20-046.

2019

Xianbin Su#*, Yi Shi#, Ruihong Li#, Zhao-Ning Lu#, Xin Zou, Jiao-Xiang Wu, Ze-Guang Han. Application of qPCR assays based on haloacids transporter gene dehp2 for discrimination of Burkholderia and Paraburkholderia. (BMC Microbiology, 2019, 19:36)

Yingxin Lin, Shila Ghazanfar, Kevin Y. X. Wang, Johann A. Gagnon-Bartsch, Kitty K. Lo, Xianbin Su, Ze-Guang Han, John T. Ormerod, Terence P. Speed, Pengyi Yang*, Jean Yee Hwa Yang*. scMerge leverages factor analysis, stable expression, and pseudoreplication to merge multiple single-cell RNA-seq datasets. (PNAS, 2019, 116: 9775-9784)

Qian Shi, Fei Zhuang, Ji-Ting Liu, Na Li, Yuan-Xiu Chen, Xian-Bin Su, Ai-Hong Yao, Qing-Ping Yao, Yue Han, Shan-Shan Li, Ying-Xin Qi*, Zong-Lai Jiang. Single-cell analyses reveal functional classification of dendritic cells and their potential roles in inflammatory disease. (FASEB J, 2019, 33(3): 3784-3794)


2018

Yuchen Yuan#, Yi Shi#*, Xianbin Su, Xin Zou, Qing Luo, David Dagan Feng*, Weidong Cai*, Ze-Guang Han*. Cancer type prediction based on copy number aberration and chromatin 3D structure with convolutional neural networks. (BMC Genomics, 2018, 19 (Suppl 6):4919)


2017

Xianbin Su#, Yi Shi#, Xin Zou#, Zhao-Ning Lu#, Gangcai Xie, Jean Y.H. Yang, Chong-Chao Wu, Xiao-Fang Cui, Kun-Yan He, Qing Luo, Yu-lan Qu, Na Wang, Lan Wang, Ze-Guang Han*. Single-cell RNA-Seq analysis reveals dynamic trajectories during mouse liver development. (BMC Genomics, 2017, 18:946)

Yu-Jun Dai#, Yue-Ying Wang#*, Jin-Yan Huang#, Li Xia#, Xiao-Dong Shi, Jie Xu, Jing Lu, Xian-Bin Su, Ying Yang, Wei-Na Zhang, Pan-Pan Wang, Song-Fang Wu, Ting Huang, Jian-Qing Mi, Ze-Guang Han, Zhu Chen*, Sai-Juan Chen*. Conditional knockin of Dnmt3a R878H initiates acute myeloid leukemia with mTOR pathway involvement. (PNAS, 2017, 114:5237-5242)


2016

Xianbin Su*, Ruihong Li, Ka-Fai Kong, Jimmy S. H. Tsang*. Transport of haloacids across biological membranes. (Biochimica et Biophysica Acta, 2016, 1858: 3061-3070)

Xianbin Su*, Ruihong Li, Jimmy S. H. Tsang*. The 228 bp upstream non-coding region of haloacids transporter gene dehp2 has regulated promoter activity. (Gene, 2016, 593: 322-329)

Yi Shi#,Xian-Bin Su#, Kun-Yan He, Bing-Hao Wu, Bo-Yu Zhang, Ze-Guang Han*. Chromatin accessibility contributes to simultaneous mutations of cancer genes. (Scientific Reports, 2016, 6:35270)

2013

Xianbin Su, Liyu Deng, Ka Fai-Kong, Jimmy S. H. Tsang*. Enhanced degradation of haloacid by heterologous expression in related Burkholderia species. (Biotechnology and Bioengineering, 2013, 110: 2687–2696)

Xianbin Su, Jimmy S. H. Tsang*. Existence of a robust haloacids transport system in a Burkholderia species bacterium. (Biochimica et Biophysica Acta, 2013, 1828: 187-192)


2012

Xianbin Su, Ka-Fai Kong, Jimmy S. H. Tsang*. Transports of acetate and haloacetate in Burkholderia species MBA4 are operated by distinct systems. (BMC Microbiology, 2012, 12:267)

主持项目:

国家自然科学基金青年项目,81802806,基于单细胞分析探究肝癌克隆结构演变及其调控规律,2019/1-2021/12。

上海市青年科技英才扬帆计划,15YF1405800,基于单细胞转录组演变研究小鼠肝脏发育和损伤修复特征,2015/1-2017/12,已结题。

上海交通大学青年人才科研能力培育专项,15Z111260007,基于单细胞转录组演变研究小鼠肝脏发育和损伤修复特征,2014/6-2017/12,已结题。

上海交通大学“医工交叉研究基金”,YG2023QNB06,SR-A1通过激活NLRP3炎症小体促进炎症风暴参与AOSD继发MAS的机制研究,2023/1-2025/12,在研。

上海交通大学“医工交叉研究基金”, YG2021QN80,LPCAT1增强自噬促进NAFLD相关肝癌发生的机制研究,2021/1-2023/12。

上海交通大学“医工交叉研究基金”, YG2017MS67,周期性呕吐痴呆型线粒体病家系致病基因筛选和发病机制的研究,2018/1-2020/12。

上海交通大学“医工交叉研究基金”,YG2016QN71,基于发育相关基因表达谱分析筛选不同生物学行为神经母细胞瘤的分子标志物研究,2017/1-2019/12。

上海交通大学“医工交叉研究基金”,YG2014QN14,二甲双胍抑制膀胱癌进展的作用机制研究,2015/1-2017/12,已结题,考核为优秀。


参与项目:

医学基因组学国家重点实验室揭榜挂帅项目,高通量单细胞多组学创新技术研究及应用,2022/2-2024/2,在研。

上海交通大学“重点前瞻布局-重点突破A类”基金,19X160020007,高通量单细胞多组学创新技术研究及应用,2020/1-2022/12

上海交通大学“转化医学交叉基金”重点项目,基于单细胞分析结合临床病理研究探索IL 38在结直肠癌的精准靶点治疗中应用,2019/1-2021/12。

上海交通大学“转化医学交叉基金”重点项目,单细胞组学技术及其在肝癌精准诊疗中的转化研究,2019/1-2021/12。

国家重点研发计划"重大慢性非传染性疾病防控研究"重点专项,2017YFC1308600,胰腺癌转移的新型阶段化分子特征谱及其机制研究,2017/7-2020/12。

SJTU-USYD 转化医学专项基金,AF6260003/004,基于单细胞技术与染色质高级结构的突变谱与肿瘤分型和早期预测的深度相关性研究,2016/5-2020/4。

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