2024
2023
2022
2021
2020
2019
2018
2017
2016
2015
2024
11.24
Congrats: Dong Zhuoer passed the PhD thesis defense
Event: Dong Zhuoer passed the PhD thesis defense
Venue: Room E203, Biomedical Building, THU
2024
10.19
Congrats: Prof. Zhang was awarded the "2024 Scientific Explorer Prize" for his work in the intelligent prediction of RNA three-dimensional structures and small molecule intervention!
Event: Prof. Zhang was awarded the "2024 Scientific Explorer Prize" for his work in the intelligent prediction of RNA three-dimensional structures and small molecule intervention!
Time: 19 Oct 2024
Link:Xplorer Prize
2024
09.06
Congrats: Huang Yong passed the PhD thesis defense
Event: Huang Yong passed the PhD thesis defense
Venue: Room E403, Biomedical Building, THU
2024
5.31
Publication: Our paper on tissue module discovery in single-cell-resolution spatial transcriptomics data was accepted by Cell Systems!
Title: Tissue module discovery in single-cell-resolution spatial transcriptomics data via cell-cell interaction-aware cell embedding
Authors: Y. Li, J. Zhang, et al.
Time: 31 May 2024
Link:Cell Systems
2024
05.23
Congrats: Li Yuzhe passed the PhD thesis defense
Event: Li Yuzhe passed the PhD thesis defense
Venue: Block B, Biomedical Building, THU
2024
05.23
Congrats: Tian Kang passed the PhD thesis defense
Event: Tian Kang passed the PhD thesis defense
Venue: Block B, Biomedical Building, THU
2024
3.26
Publication: Our paper on mapping of the influenza A virus genome RNA structure and interactions was accepted by Cell Reports!
Title: Mapping of the influenza A virus genome RNA structure and interactions reveals essential elements of viral replication
Authors: R. Yang, M. Pan, J. Guo, Y. Huang, et al.
Time: 26 Mar 2024
Link:Cell Reports
2024
1.9
Publication: Our paper on identification of functionally conserved lncRNA was accepted by Nature Genetics!
Title: Computational prediction and experimental validation identify functionally conserved lncRNAs from zebrafish to human
Authors: W. Huang, T. Xiong, Y. Zhao, et al.
Time: 9 Jan 2024
Link:Nature Genetics
2023
12.21
Congrats: Yang Rui passed the PhD thesis defense
Event: Yang Rui passed the PhD thesis defense
Venue: Room 143, Bioscience Building, THU
2022
11.17
Congrats: Our paper on predicting dynamic cellular protein–RNA interactions won the annual outstanding paper award of Cell Research!
Title: Predicting dynamic cellular protein–RNA interactions by deep learning using in vivo RNA structures
Authors: Lei Sun, Kui Xu, Wenze Huang, Yucheng T. Yang et al.
Link:Cell Research
2022
8.17
Congrats: Prof. Zhang won the CSBMB-Promega Award for Biochemistry!
Event: Prof. Zhang won the CSBMB-Promega Award for Biochemistry!
Time: 17 Aug 2022
2021
11.17
Publication: Our paper on missing RNA structure profiles imputation was accepted by Nature Machine Intelligence!
Title: A deep learning method for recovering missing signals in transcriptome-wide RNA structure profiles from probing experiments
Authors: J. Gong, K. Xu, et al.
Time: 17 Nov 2021
2021
11.4
Publication: Our paper on viral RNA–host protein interactomes was accepted by Cell Research!
Title: Comparison of viral RNA–host protein interactomes across pathogenic RNA viruses informs rapid antiviral drug discovery for SARS-CoV-2
Authors: S. Zhang, W. Huang, et al.
Time: 4 Nov 2021
Link:Cell Research
2021
11.1
Publication: Our paper on chromatin-remodeling enzyme Smarca5 was accepted by eLife!
Title: The chromatin-remodeling enzyme Smarca5 regulates erythrocyte aggregation via Keap1-Nrf2 signaling
Authors: Y. Ding, Y. Li, et al.
Time: 1 Nov 2021
Link:eLife
2021
9.12
Congrats: Huang Wenze passed the PhD thesis defense
Event: Huang Wenze passed the PhD thesis defense
Venue: Room 325, Bioscience Building, THU
2021
6.30
Publication: Our paper on RNA structure probing review was accepted by Nature Chemical Biology!
Title: RNA structure probing uncovers RNA structure-dependent biological functions
Authors: X. Wang, C. Liu, et al.
Time: 30 June 2021
2021
6.7
Publication: Our paper on icSHAPE-MaP of Dicer targeted RNAs was accepted by Nature Communications!
Title: RNA structure probing reveals the structural basis of Dicer binding and cleavage
Authors: Q. Luo, J. Zhang, P. Li, et al.
Time: 07 June 2021
2021
5.23
Congrats: Li Pan, Xu Kui and Zhang Jinsong passed the PhD thesis defense
Event: Li Pan, Xu Kui and Zhang Jinsong passed the PhD thesis defense
Venue: Room E109, Biomedical Building, THU
2021
5.17
Seminar: We invited Dr. Marco MARCIA from EMBL Grenoble to talk about how RNA 3D structure determines MEG3 function
Title: The multiple dimensions of lncRNAs - How 3D structure determines MEG3 function
Speaker: Marco MARCIA, PhD
Time: 3:30-4:30 pm, May 17th (Monday), 2021
Zoom ID: 982 4074 1662
2021
5.12
Lei Sun won Outstanding Postdoctoral Fellow of Tsinghua University!
Direction: RNA secondary structure
Link:Tsinghua Postdoct
2021
2.23
Publication: Our paper on Predicting dynamic cellular protein–RNA interactions was accepted by Cell Research!
Title: Predicting dynamic cellular protein–RNA interactions by deep learning using in vivo RNA structures
Authors: Lei Sun, Kui Xu, Wenze Huang, Yucheng T. Yang et al.
Time: 23 Feb 2020
Link:Cell Research
2021
2.9
Publication: Our paper on structural characterization of the SARS-CoV-2 RNA genome was accepted by Cell!
Title: In vivo structural characterization of the SARS-CoV-2 RNA genome identifies host proteins vulnerable to repurposed drugs
Authors: Lei Sun,Pan Li,Xiaohui Ju,Jian Rao,Wenze Huang et al.
Time: 9 Feb 2021
Link:Cell
2021
1.10
Lei Xiong won the Outstanding Graduates of Beijing!
Direction: Single Cell
2020
9.14
Congrats: Gong Jing, Piao Meiling and Xiong Lei passed the PhD thesis defense
Event: Xiong Lei,Piao Meiling and Gong jing passed the PhD thesis defense
Venue: Room E109, Biomedical Building, THU
2020
5.18
Publication: Our paper on RNA structural dynamics regulation of early embryogenesis was accepted by Genome Biology!
Title: RNA structural dynamics regulate early embryogenesis through controlling transcriptome fate and function
Authors: Boyang Shi, Jinsong Zhang, Jian Heng, Jing Gong et al.
Time: 18 May 2020
Link:Genome Biology
2020
2.17
Congrats: SCALE method is selected as "Top Ten Advances in Bioinformatics in China" in 2019
Title: SCALE method for single-cell ATAC-seq analysis via latent feature extraction
Authors: L. Xiong, K. Xu, K. Tian, et al.
Time: 17 February 2020
2020
2.15
Congrats: SCALE method is selected as "Top Ten Algorithms and Tools for Bioinformatics in China" in 2019
Title: SCALE method for single-cell ATAC-seq analysis via latent feature extraction
Authors: L. Xiong, K. Xu, K. Tian, et al.
Time: 15 February 2020
2020
2.3
Publication: Our paper on Keth-seq for transcriptome-wide RNA structure was accepted by Nature chemical biology!
Title: Keth-seq for transcriptome-wide RNA structure mapping
Authors: X. Weng, J. Gong, Y. Chen, T. Wu et al.
Time: 03 February 2020
2019
12.30
Congrats: Lei Xiong won the 2019 Advanced Innovation Center Structure Biology outstanding scholarship
Project: SCALE method for single-cell ATAC-seq analysis via latent feature extraction
Direction: Single Cell
Amount: RMB 20,000
2019
12.30
Congrats: Pan Li won the 2019 Advanced Innovation Center Structure Biology outstanding scholarship
Project: Integrative Analysis of Zika Virus Genome RNA Structure Reveals Critical Determinants of Viral Infectivity
Direction: RNA secondary structure
Amount: RMB 20,000
2019
11.15
Seminar: We invited Dr. William J. Greenleaf from Stanford University to talk about a single cell framework for multi-omic analysis
Title: A single cell framework for multi-omic analysis of disease identifies malignant regulatory signatures
Speaker: William J. Greenleaf, PhD
Time: 13:30-15:00 pm, Nov. 15th (Friday), 2019
Venue: ZhengYutong Lecture Hall(郑裕彤讲堂)
2019
10.8
Publication: Our paper on single-cell ATAC-seq analysis was accepted by Nature Communications!
Title: SCALE method for single-cell ATAC-seq analysis via latent feature extraction
Authors: L. Xiong, K. Xu, K. Tian, et al.
Time: 08 October 2019
2019
8.23
Congrats: Sun lei passed the PhD thesis defense
Event: Ph.D. student Sun lei completed his doctoral diploma and is about to receive his Ph.D.
Venue: Room 425, New Life Science Building, THU
2019
8.23
Seminar: We invited Dr. Yaël Fregier from University of Artois to talk about Transfer learning for GANs
Title: Transfer learning for GANs
Speaker: Yaël Fregier, PhD
Time: 16:00-17:00pm, Aug. 23th (Friday), 2019
Venue: Room 407, New Life Science Building, THU
2019
8.12
Seminar: We invited Dr. Eric Miska from University of Cambridge to talk about RNA structure and chemical modification
Title: RNA:from structure and chemical modification to new functions
Speaker: Eric Miska, PhD
Time: 11:00-12:00pm, Aug. 12th (Monday), 2019
Venue: Room 143, New Life Science Building, THU
2019
8.5
Seminar: We invited Dr. Chuan He from HHMI to talk about RNA methylation and chromatin structure
Title: Studies of RNA methylation and chromatin structure
Speaker: Chuan He, PhD
Time: 14:30-16:00am, Aug. 5th (Monday), 2019
Venue: Room B323, Medical Science Building, THU
2019
7.3
Seminar: We invited Dr. Zhang Chaolin from Columbia University to talk about RNA in neurodevelopment
Title: An RNA-centric view of neurodevelopment: From single nucleotide resolution maps to functions
Speaker: Chaolin Zhang, PhD
Time: 16:00-18:00, July 3rd, 2019
Venue: Room B323, Medical Building, THU
2019
5.17
Seminar: We invited Dr. Yi Xing from University of Pennsylvania to talk about alternative isoform variation
Title: Alternative isoform variation in cancer transcriptomes
Speaker: Xing yi, PhD
Time: 14:00-15:00, May 17th, 2019
Venue: Room 143, New Biology Building, THU
2019
2.7
Publication: Our paper on RNA structures across cellular compartments was accepted by Nature Structure & molecular biology!
Title: RNA structure maps across mammalian cellular compartments
Authors: L. Sun, F. M. Fazal, P. Li et al.
Time: 07 February 2019
2019
2.2
PhD student Kui Xu attends the 33rd AAAI Conference on Artificial Intelligence (AAAI 2019) for spotlight presentation at Hawaii, USA
Date: Jan. 27th, 2019 – Feb. 2nd, 2019
Attendee: Kui Xu
Link:AAAI-19
2018
12.1
Congrats: Qian Xingyang won the 2018 Advanced Innovation Center Structure Biology innovation scholarship
Project: Functional and structural analysis of conserved secondary structural elements of lncRNA
Direction: RNA secondary structure
Amount: RMB 30,000
2018
11.30
Seminar: We invited Dr. Anindya Dutta from University of Virginia to talk about tRNA-Derived fragments and long noncoding RNAs
Title: tRFs and long noncoding RNAs, with a short digression on HPV induced cell transformation
Speaker: Anindya Dutta MD, PhD
Time: 11:00-12:00am, Nov. 30th (Friday), 2018
Venue: Room 143, New Biology Building, THU
2018
11.21
Publication: Our paper on ZIKV RNA structures was accepted by Cell Host & Microbe and online today!
Title: Integrative Analysis of Zika Virus Genome RNA Structure Reveals Critical Determinants of Viral Infectivity
Authors: P. Li, Y. Wei, M. Mei, L. Tang et al.
Time: 21 November 2018
Link:Cell Host & Microbe
2018
11.17
Publication: Our review on lncRNA structure and interaction was accepted by Trends in Biochemical Sciences and online today!
Title: Revealing lncRNA Structures and Interactions by Sequencing-Based Approaches
Authors: X. Qian, J. Zhao, P.Y. Yeung et al.
Time: 17 November 2018
2018
11.8
Seminar: We invited Dr. Xingqi Chen from Karolinska Institute to talk about ATAC-seq
Title: Joint single-cell DNA accessibility and protein eptiope profiling reveals environmental regulation of epigenomic heterogeneit
Speaker: Xingqi Chen, PhD
Time: 2:00-3:00 pm, Nov. 8th (Thursday), 2018
Venue: Room 143, New Biology Building, THU
2018
11.1
Publication: Our paper on molecular structure estimation from Cryo-EM density volumes was accepted by The 33rd AAAI Conference on Artificial Intelligence (AAAI)!
Title: A²-Net: Molecular Structure Estimation From Cryo-EM Density Volumes
Authors: Kui Xu et al.
Time: 1 November 2018
Link:AAAI-19
2018
10.23
Seminar: We invited Dr. Shuo Gu from NIH to talk about miRNA processing
Title: Structural differences between pri-miRNA paralogs promotes alternative Drosha cleavage and expands target repertories
Speaker: Shuo Gu, PhD
Time: 1:30-3:00 pm, Oct. 23th (Tuesday), 2018
Venue: Room 143, New Biology Building, THU
2018
8.22
Seminar: We invited Dr. Ye Grace Chen from Yale University to talk about circular RNA in immunity
Title: Circular RNA immunity
Speaker: Ye Grace Chen, PhD
Time: 10:00-11:00 am, Aug. 22nd (Wednesday), 2018
Venue: Room 143, New Biology Building, THU
2018
8.7
Our RNA-RNA interactions review paper was accepted by Quantitative Biology and online today !
Title: Advances and challenges towards the study of RNA-RNA interactions in a transcriptome-wide scale
Authors: J. Gong, Y. Ju et al.
Time: 07 August 2018
Link:Quantitative Biology
2018
7.17
Seminar: We invited Dr. Xiang-Jun Lu from Columbia University to talk about illuminating the 3D structure of RNA with 3DNA-DSSR
Title: Illuminating the 3D structure of RNA with 3DNA-DSSR
Speaker: Xiang-Jun Lu
Time: 2:00-3:00 pm, June. 27th (Wednesday), 2018
Venue: Room 143, New Biology Building, THU
2018
7.6
Seminar: We invited Dr. Yinghao Wu from Albert Einstein College to talk about membrane receptors
Title: Understand binding kinetics of membrane receptors and their functional roles in cell adhesion and signaling by multi-scale modeling
Speaker: Yinghao Wu, PhD
Time: 2:00-3:00pm, July. 6th (Friday), 2018
Venue: Room B416, Medical Science Building, THU
2018
1.8
Seminar: We invited Dr. Yanlei Diao from University of Massachusetts Amherst to talk about big and fast data analysis for genomics
Title: Big and fast data analysis for genomics
Speaker: Yanlei Diao
Time: 10:00-11:00 am, Jan. 8th (Monday), 2018
Venue: Room 143, New Biology Building, THU
2017
12.21
Congrats: Xu Kui won the 2017 Advanced Innovation Center Structure Biology innovation scholarship
Project: Application of virtual reality technology in structural biology
Direction: Computational structural biology, graphic images, machine learning
Amount: RMB 30,000
2017
12.21
Congrats: Piao Meiling won the 2017 Advanced Innovation Center Structure Biology innovation scholarship
Project: Probing RNA structurome in mouse early embryos by smartSHAPE, a new low-input RNA secondary structure probing technique
Direction: RNA secondary structure
Amount: RMB 30,000
2017
11.6
Seminar: We invited Dr. Mark A. Kay from Stanford University to talk about a functional tRNA
Title: A tRNA derived small RNA regulates ribosome biogenesis and is a target for cancer therapy
Speaker: Mark A. Kay MD, PhD
Time: 10:00-11:00 am, Nov. 6th (Monday), 2017
Venue: Room 143, New Biology Building, THU
2017
10.18
Seminar: We invited Dr. Huang Huang from Stanford University to talk about single cell analysis of antigen-specific T cell response
Title: Single cell analysis of antigen-specific T cell response against Mycobacterium tuberculosis
Speaker: Huang Huang, PhD
Time: 10:00-11:00 am, Oct. 18th (Wednesday), 2017
Venue: Room 143, New Biology Building, THU
2017
10.12
Publication: Our review on RNA structure probing was accepted by GPB and online today!
Title: NA Regulations and Functions Decoded by Transcriptome-wide RNA Structure Probing
Authors: M. Piao et al.
Time: 12 October 2017
2017
10.4
Publication: Our paper on RNA-RNA interaction database RISE was accepted by NAR and online today!
Title: RISE: a database of RNA interactome from sequencing experiments
Authors: J. Gong, D. Shao et al.
Time: 4 October 2017
2016
10.19
Seminar: We invited Dr. Huafeng Xu from UCSF to talk about protein evolution
Title: Protein evolution under a computational microscope
Speaker: Huafeng Xu, PhD
Time: 2:00-3:00 pm, Oct. 19th (Wednesday), 2016
Venue: Room 143, New Biology Building, THU
2016
8.13
Seminar: We invited Dr. Michael Snyder from Stanford University to talk about autism spectrum disorders
Title: Building integrative frameworks to study autism spectrum disorders
Speaker: Michael Snyder, PhD
Time: 10:30-11:30 pm, Aug. 8th (Thursday), 2016
Venue: Room 143, New Biology Building, THU
2016
5.31
Seminar: We invited Dr. Ido Golding from Baylor College of Medicine to talk about kinetics of gene regulation
Title: Deciphering the stochastic kinetics of gene regulation
Speaker: Ido Golding, PhD
Time: 10:00-11:30 am, May. 31st (Tuesday), 2016
Venue: Room 143, New Biology Building, THU
2016
5.9
Seminar: We invited Dr. Luonan Chen from Shanghai Institutes for Biological Sciences to talk about early-signals for critical transition
Title: Detecting early-signals for critical transition during complex biological processes by dynamical network biomarkers
Speaker: Luonan Chen, PhD
Time: 10:00-11:30 am, May. 9th (Monday), 2016
Venue: Room B321, Medical Science Building, THU
2016
3.24
Seminar: We invited Dr. Yi Xing from University of Pennsylvania to talk about transcriptome isoform complexity
Title: Elucidate transcriptome isoform complexity using massive RNA-seq data
Speaker: Yi Xing, PhD
Time: 10:00-11:00 am, Mar. 24th (Thursday), 2016
Venue: Room 143, New Biology Building, THU
2015
12.25
Seminar: We invited Dr. Wei Wang from UCSD to talk about epigenomics in development
Title: Epigenomics in development
Speaker: Wei Wang, PhD
Time: 2:00-3:00 pm, Dec. 25th (Friday), 2015
Venue: Room 143, New Biology Building, THU
2015
11.16
Seminar: We invited Dr. Mark A. Kay from Stanford University to talk about novel nucleic acid vector approaches
Title: Novel nucleic acid vector approaches for delivering genes and non-coding RNAs
Speaker: Mark A. Kay MD, PhD
Time: 9:30-10:30am, Nov. 16th (Monday), 2015
Venue: Room 143, New Biology Building, THU
2015
7.15
Seminar: We invited Dr. Yaoqi Zhou from Institute for Glycomics to talk about personalized medicine
Title: 迈向个性化医疗：生物信息学和分子生物学的结合
Speaker: 周耀旗 博士
Time: 10:30-11:30am, July. 15th (Wednesday), 2015
Venue: Room B323, Medical Science Building, THU
2015
5.23
Welcome: Sun Lei joined the lab!
Time: May 23rd, 2015
Position: PhD Student
Field: RNA Structure probing and functional analysis
2015
3.31
Welcome: Xu Kui joined the lab!
Time: Mar. 31st, 2015
Position: PhD Student
Field: Machine learning, 3D image modeling
2015
2.28
Welcome: Wei Wendi joined the lab!
Time: Feb. 28th, 2015
Position: Lab manager
Field: Financial reimbursement, staff reception, …
