서울대학교 생물정보연구소와 생물정보학 협동과정 공동 주최로 세미나를 아래와 같이 열고자 하오니, 많은 참여 바랍니다.

일시: 2018년 3월 22일 목요일 오후 5시

연사: 박찬이(국립암센터)

장소: 서울대학교 25동 411호

TITLE: ASpedia: a comprehensive encyclopedia of human alternative splicing

ABSTRACT: Alternative splicing confers the human genome complexity by increasing the diversity of expressed mRNAs.Hundreds or thousands of splicing regions have been identified through differential alternative splicing analysis of high-throughput datasets. However, it is hard to explain the functional impact of each splicing event. Protein domain formation and nonsense-mediated decay are considered the main functional features of splicing. However, other functional features such as miRNA target sites, phosphorylation sites and single-nucleotide variations are directly affected by alternative splicing and affect downstream function. Hence, we established ASpedia: a comprehensive database for human alternative splicing annotation, which encompasses a range of functions, from genomic annotation to isoformspecific function (ASpedia, http://combio.snu.ac.kr/ aspedia). The database provides three features: (i) genomic annotation extracted from DNA, RNA and proteins; (ii) transcription and regulation elements analyzed from next-generation sequencing datasets; and (iii) isoform-specific functions collected from known and published datasets. The ASpedia web application includes three components: an annotation database, a retrieval system and a browser specialized in the identification of human alternative splicing events. The retrieval system supports multiple AS event searches resulting from high-throughput analysis and the AS browser comprises genome tracks. Thus, ASpedia facilitates the systemic annotation of the functional impacts of multiple AS events.

EDUCATION AND TRAINING

1996.03 - 2000.02 아주대학교 수학과 학사

2000.02 - 2002.02 아주대학교 정보통신공학 석사

2010.02 - 2014.08 이화여자대학교 생물정보학 박사

2002.01 - 2006.07 한국생명공학연구원 국가생명연구 자원정보센터 연구원

2008.09 - 2010.01 현대정보기술 대리

2014.09 - 2015.02 이화여자대학교 연구교수

2015.03 - 2016.02 삼성서울병원 연구원

2016.03 - 현재 국립암센터 임상유전체분석실 주임연구원

2017.03 - 현재 국립암센터 신표적탐색연구과 주임연구원

SELECTED PUBLICATION

- ASpedia:a comprehensive encyclopedia of human alternative splicing: Nucleic Acids Research. 46(D1):D58~D63 (10.162)

- Isolation and Functional Examination of the Long Non-Coding RNA Redrum: Molecules and Cells. Online:Published (3.054)

- Host immune response index in gastric cancer identified by comprehensive analyses of tumor immunity: OncoImmunology. 6(11):e1356150~e1356150 (7.719)

- Deamination Effects in Formalin-Fixed, Paraffin-Embedded Tissue Samples in the Era of Precision Medicine.: The Journal of Molecular Diagnostics. 19(1):137~146 (5.201)

- Identification of the BRAF V600E mutation in gastroenteropancreatic neuroendocrine tumors: Oncotarget. 7(4):4024~4035 (6.359)

- Programming of plant leaf senescence with temporal and inter-organellar coordination of transcriptome in Arabidopsis: Plant Physiology. Online:Published (6.841)

- Patient-derived cell models as preclinical tools for genome-directed targeted therapy: Oncotarget. 6:25619~25630 ()

- Cytosolic Hsp60 orchestrates the survival and inflammatory responses of vascular smooth muscle cells in injured aortic vessels: Cardiovascular Research. 106:498~508 ()

- Deregulation of immune response genes in patients with Epstein-Barr virus-associated gastric cancer and outcomes: Gastroenterology. 148:137~147 ()

- Gastrointestinal malignancies harbor actionable MET exon 14 deletions: Oncotarget. 6:28211~28222 ()

서울대학교 생물정보연구소

생물정보학 협동과정 공동주최