Events
2020
-
BMDC holds the 2nd SAB Meeting
2020-11-19The 2nd SAB Meeting of Bio-Med Big Data Center (BMDC) was successfully held online on November 17th, 2020, hosted by Prof. Yixue Li, Director of BMDC. Eight SAB members from China, United States, Britain, Germany and Canada participated the meeting. The meeting took the virtual form due to the Covid-19 situation.Prof. Zefeng Wang, Managing Director of CAS-MPG Partner Institute for Computational Biology, SINH, CAS first gave an opening address, followed by a status report by Prof. Yixue Li. Prof. Li, outlining the progress BMDC had made and challenges it was facing in the past two years since last SAB meeting. He also introduced BMDCs future plan in research, collaboration and data services.Prof. Rolf Apweiler, the co-chair of the SAB, then chaired the discussion session. SAB members congratulated to BMDC for the progress it had achieved. Constructive suggestions were made focusing on BMDCs collaboration with domestic and international partners in the area of data services. Prof. HenningHermjakob from EMBL was introduced as the new member of SAB.At the end of the meeting, Prof. Rolf Apweiler and Acad. Guoping Zhao, Chief Scientist of BMDC, gave closing notes.
More -
New Home of Data Resources and Services from Bio-Med Big Data Center
2020-11-10The new version of BMDC website features:1.A clear BMDCs scientific and service scope as demonstrated by its Mission Statement and the Trinity of Biomedical Information Infrastructure service model in the front page;2. The reorganization of BMDC data resources and services for logical grouping (databases and tool & pipelines) and easy access. Their service validity is carefully accessed and tested;3. The introduction of search capacity to allow easy discovery of data resource and service made available to the public at the website. Although only 4 databases are currently searchable in this -release of the search engine, more resources and services will be added for search when they become available.Please send any comments and suggestions for the further improvement of the website to bmdc-support@picb.ac.cn.
More -
Bio-Med Big Data Center (BMDC) assisted the research that established Long-Term Expansion of Pancreatic Islet Organoids from Resident Procr+ Progenitors
2020-03-19A novel endocrine progenitor in adult mouse pancreas and an in-vitro method for the induction and long-term expansion of islet-like organoids were establishes for the first time by the research group led by Prof. Yi Arial Zeng, CAS Center for Excellence in Molecular Cell Science, Institute of Biochemistry and Cell Biology, CAS. The study was published by CELL on the 19th of March, 2020 (Long-Term Expansion of Pancreatic Islet Organoids from Resident Procr+ Progenitors, https://doi.org/10.1016/j.cell.2020.02.048 ). Omics Core of BMDC assisted the research with the construction of single-cell RNA library, and the analysis of single-cell RNA sequencing data. In the meantime, the relevant data were deposited and published at the NODE database.
More -
A joint development of an automatic analysis cloud platform for virus genome identification (VIC)
2020-02-09On February 10, an automatic analysis cloud platform for virus genome identification (VIC), jointly developed by Institut Pasteur of Shanghai , CAS and Bio-Med Big Data Center, SINH, CAS using Huawei cloud computing technology, was released. Its service can be accessed at https://biosino.org/vic/.
More
The platform takes Illumina-based RNAseq data as inputs, has following key functions (refer to the left figure):
1) Automatic data quality control;
2) Genome mapping and assembly;
3) Virus composition and abundance analysis for various viruses, including novel coronavirus COVID-19.
2019
-
New updates in NODE submission portal
2019-09-29Enhancements added to v3 NODE submission portal include:
More
1: Batch upload: "step by step-multiple" creates batch-upload for samples, experiments and archive records;
2: Multi-omics submission: users can now upload raw data of multiple omics data types into one project;
3: Append new data to an existing project: users can use "step by step-multiple" to append new samples and experiments to an existing projects. -
Bio-Med Big Data Center (BMDC) assists the research that reveals crucial function of circular-RNA in innate immune process
2019-04-25A latest research on circular-RNA and its role in innate immune regulation, by Prof. Li Yangs laboratory of CAS-MPG Partner Institute for Computational Biology, was published in a prestigious scientific journal Cell (Structure and degradation of circular RNAs regulate PKR activation in innate immunity, DOI: 10.1016/j.cell.2019.03.046). Studys nucleic sequence data were produced by Multi-Omics Core Facility of BMDC, and managed by NODE database, a new generation of data hub for multi-omics big data.
More -
Bio-Med Big Data Center (BMDC) participates in a study of novel off-target analysis technique
2019-03-11Prof. Yixue Li, the director of BMDC, co-authored a research article with Prof. Hui Yang of Key Laboratory of Primate Neurobiology, CAS and Lars M. Steinmetz of Stanford University on a novel off-target analysis technique genome-wide off-target analysis by two-cell embryo injection (GOTI), published on Feb. 28th 2019 in Science (Cytosine base editor generates substantial off-target single-nucleotide variants in mouse embryos, DOI: 10.1126/science.aav9973). By using this technique, they observed the occurrence of a large number of unpredictable off-target single-nucleotide editing events, suggesting the serious safety risk of base-editing technique.
More
2018
-
NODE database has been accepted by FAIRsharing as a recommended international biological data source
2018-09-06The National Omics Data Encyclopedia ( NODE ), developed and maintained by Bio-Med Big Data Center at CAS-MPG Partner Institute for Computational Biology, was publicly released in September 2018. Its registry at FAIRsharing was recently upgraded its status to R (https://fairsharing.org/FAIRsharing.EivZJw), an indicator of the maturity of a database by the standard of FAIRshing principles: findable, accessible, interoperable and reproducible. FAIRsharing is an international curated, informative and educational resource on data and metadata standards, inter-related to databases and data policies ( https://fairsharing.org ).
More -
Bio-Med Big Data Center (BMDC) assisted the discovery of the mechanism of Haematopoietic stem and progenitor cells (HSPCs) homing
2018-11-20A complete and dynamic process of HSPC homing was revealed for the first time by the research group led by Prof. Weijun Pan, Shanghai Institute of Nutrition and Health, CAS. This study was published by
Moreon the 20th of November, 2018 (VCAM-1+ macrophages guide the homing of HSPCs to a vascular niche, DOI: 10.1038/s41586-018-0709-7) . Uli Schwarz Quantitative Biology Core Facility of BMDC assisted with the long-time, muliti-sample, in vivo imaging technique, ensured the work completed successfully. In the meantime, the interactive 3D- reconstruction models and the videos of the in-vivo imaging were delivered and published at the NODE database. -
NODE publishes data from a novel base-editing system
2018-03-21A collaboration between research teams of Li Yang at CAS-MPG Partner Institute for Computational Biology and Jia Chen, Xingxu Huang at Shanghai Sci.-Tech. University has developed a series of CRISPR/Cpf1 (Cas12a)-based base-editors (dCpf1-BE) (published in Nature Biotechnology, Base editing with a Cpf1-cytidine deaminase fusion, DOI: 10.1038/nbt.4102 ). Sample data used in the study are available at NODE database.
More -
Transcriptomic data from somatic-cloned macaque monkey was successfully deposited and made public at NODE
2018-01-30Twenty GBs of transcriptomic sequencing data from somatic-cloned macaque money samples were simultaneously released at NODE (http://www.biosino.org/node/cloneMonkey) and NCBI. The somatic-cloning research was conducted jointly by Muming Pu, Qiang Sun and team at Institute of Neuroscience, CAS. The work was published in Cell (Cloning of macaque monkeys by somatic Cell nuclear transfer, DOI 10.1016/j.cell.2018.01.020 ).
More -
The birth of world first somatic-cloned monkey - a new era for non-human primate experimental animal
2018-01-29Zhongzhong and Huahua, the first somatic-cloned monkeys, were given birth at the Institute of Neuroscience, CAS, as reported online as a cover article by Cell on January 25th, 2018 (Cloning of macaque monkeys by somatic Cell nuclear transfer, DOI 10.1016/j.cell.2018.01.020 ). This 5 year-long milestone work in the area of non-human primate experimental animal, authored by Qiang Sun and his/her team, has paved a new path for mechanism research, clinical intervention, diagnostic and treatment applications for human brain diseases.
More -
A new mechanism of Hippo-YAP pathway in regulation of RNA expression
2018-01-10A joint research by Zefeng Wang at CAS-MPG Partner Institute for Computational Biology and Yang Wang at Dalian Meidcal University was published on Nature Communications( A splicing isoform of TEAD4 attenuates the Hippo-YAP signalling to inhibit tumour proliferation , DOI 10.1038/ncomms11840 ).
More