Speaker: Tieliu Shi , PhD
Professor of Bioinformatics & Computational Biology
School of Life Sciences
East China Normal University
Email: tieliushi01@gmail.com
Web：http://www.biomed.ecnu.edu.cn/biomeden/98/9d/c9349a104605/page.htm
Time : 10:00-11:30 am , Jan. 11（Thursday）
Venue: Room 300, SIBS Main Building, Yueyang Road 320
Host： Prof. Sijia Wang
CAS-MPG Partner Institute for Computational Biology
Title：Standardized Disease Annotation Knowledge Bases for Precision Medicine
Abstract:
Precision medicine for disease prevention and treatment strategiest is currently the most popular practice in clinical application. However, these promising applications greatly rely on data mining, sharing and exchange. Currently, one of the major challenges for the application of big data is the lack of uniformly structured data in clinical practice, because different Healthy Information Systems and different Electronic Medical Records are applied by different hospitals, and different vocabularies are used to describe clinical observations and treatment strategies by different healthcare providers. The high disparity in clinical data among hospitals and healthcare providers is a significant obstacle for the data sharing and downstream analysis. To facilitate precision medicine in clinical applications, it is necessary to build a platform to standardize clinical information and use it for the integration of various clinical resources for individual patient’ precise diagnosis, prognosis, and therapeutic strategies.To this end, we built systems to standardize and classify pediatric and rare diseases - PedAM (Pediatrics Annotation & Medicine) and eRAM (Encyclopedia of Rare Disease Annotation for Precision Medicine). Both platforms integrate biomedical resources and clinical data from Electronic Medical Records (EMRs) and to support the development of computational tools which will enable robust data analysis and integration. Currently, near 10 million abstracts from PubMed and 1 million full text articles from PubMed Central have been text-mined, the extracted sentences describing the disease-manifestation (D-M) and disease-phenotype (D-P) are all stored in our database and can be traced back to the original published papers through PubMed ID. Currently, eRAM contains 15,942 diseases, with 27,329 unified human phenotype terms, 12,207 phenotypes from matched corresponding mouse phenotype ontology, 75,335 manifestations, when PedAM contains standardized 8528 pediatric disease terms (4542 unique disease concepts and 3986 synonyms).
簡介：
石鐵流 教授，博導。于1992年在中科院上海植物生理研究所(現中科院上海植物生理生態(tài)研究所)獲得植物生理專業(yè)碩士學位。1999于美國Louisville大學獲計算機碩士學位，2000年于Louisville大學獲得分子生物學博士學位。2002年6月回國，加入到中科院上海生命科學研究院生物信息中心，擔任副主任。2008年底加入到華東師范大學生命醫(yī)學研究所，為生命科學學院特聘教授。 多年來從事生物信息學和計算系統(tǒng)生物學的研究。主要的研究方向是： 1. 臨床信息標準化以及基因型表型的關聯研究；2. 高通量數據（測序數據和蛋白質組學數據）分析及方法學開發(fā)；3. 整合臨床信息和多組學數據的疾病基因及機理研究，生物分子標記的發(fā)現；4. 基因調控網絡的研究和蛋白質相互作用網絡的研究；5. 藥物靶點，作用機理及藥物副作用的研究，包括傳統(tǒng)的中藥。 主持和參與了多項國家863項目、973項目和“中國人類蛋白質組”等重大研究計劃項目，國家自然科學基金項目。已在Nature Biotechnology，Nature Communication, Cell Research，Genome Biology 等雜志上發(fā)表100多篇SCI的研究論文，建立了一站式蛋白質組學數據分析平臺、測序數據分析及疾病基因組的分析平臺。已申請了各種疾病檢測的專利十多項。 目前擔任中國遺傳協會生物大數據分會理事，上海植物生理學會理事和上海生物信息學學會理事，上海市基因健康專委會委員和上海市計算機生物信息學專委會委員。同時擔任《中國科學–生命科學》（Science China-Life Sciences）雜志的常務編委，Pediatric Investigation雜志副主編等。
All are welcome！
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