Liping Wei, Ph.D.
Bioinformatics group II
Professor, Director Center for Bioinformatics, College of Life Sciences Peking University
1.Developing new bioinformatic methods for analyzing next-generation sequencing data and studying the patterns and mechanisms of genomic mosaicism
2.Finding the genetic factors contributing to autism and related childhood neuropsychiatric disorders.
Genomic mosaicism is a biological phenomenon in which genetic alterations occurring during development or aging give rise to two or more cell populations with distinct genome sequences within one individual. Thus genomic mosaicism is an important phenomenon widely existing in human bodies. The occurrence, selection, expansion and transmission of genomic mosaicism is important to human genetics and evolution, and may play critical roles in diseases. We have developed new bioinformatics methods for the detection and quantification of genomic mosaicism without matched control tissues from various NGS data. Recent research by our group have discovered postzygotic mosaicisms in whole genome sequences of healthy individuals, and identified parental mosaicism for approximately 10% of “de novo” SCN1A mutations in children with severe child psychiatric disorder Dravet Syndrome.
Another long-term mission of our group is to find better treatment for autism and related childhood neuropsychiatric disorders. At the present stage, we are studying the genetic basis of these disorders. We have built a world-class ASD sample biobank, which already have more than 1500 ASD families and 1000 normal control samples with detailed phenotype data integrated by a MySQL relational database. Firstly, we hope to use detailed phenotyping of patients to find extreme subtypes or new diseases. Then based on Whole genome, whole exome and targeted region sequencing data, we are using advanced bioinformatics technologies to find underlying genetics causes of childhood neuropsychiatric disorders.
Ye AY, Dou YM, Yang XX, Wang S, Huang AY,Wei LP. (2018) A model for postzygotic mosaicisms quantifies the allele fraction drift, mutation rate, and contribution to de novo mutations.Genome Res., 28: 943-951.
Wang M, Tai C, Weinan E,Wei LP. (2018) DeFine: deep convolutional neural networks accurately quantify intensities of transcription factor-DNA binding and facilitate evaluation of functional non-coding variants.Nucleic Acids Res.,46: e69.
Huang AY, Yang XX, Wang S, Zheng XN, Wu QX, Ye AY,Wei LP. (2018) Distinctive types of postzygotic single-nucleotide mosaicisms in healthy individuals revealed by genome-wide profiling of multiple organs.PLoS Genet.,14: e1007395.
Yang CH, Li JR, Wu QX, Yang XX, Huang AY, Zhang J, Ye AY, Dou YM, Yan LL, Zhou WZ, Kong L, Wang M, Ai C, Yang DC,Wei LP. (2018) AutismKB 2.0: a knowledgebase for the genetic evidence of autism spectrum disorder.Database, doi: 10.1093/database/bay106.
Dou Y, Yang X, Li Z, Wang S, Zhang Z, Ye AY, Yan L, Yang C, Wu Q, Li J, Zhao B, Huang AY, Wei LP. (2017). "Postzygotic single-nucleotide mosaicisms contribute to the etiology of autism spectrum disorder and autistic traits and the origin of mutations." Hum Mutat 38(8): 1002-1013.
Huang AY, Zhang Z, Ye AY, Dou Y, Yan L, Yang X, Zhang Y, Wei LP. (2017) MosaicHunter: accurate detection of postzygotic single-nucleotide mosaicism through next-generation sequencing of unpaired, trio, and paired samples. Nucleic Acids Res, 45(10): e76
Wang M, Wei LP. (2016) iFish: predicting the pathogenicity of human nonsynonymous variants using gene-specific/family-specific attributes and classifiers. Sci Rep., 16:6: 31321.
Xu X, Yang X, Wu Q, Liu A, Yang X, Ye AY, Huang AY, Li J, Wang M, Yu Z, Wang S, Zhang Z, Wu X, Wei LP, Zhang Y. (2015) Amplicon resequencing identified parental mosaicism for approximately 10% of "de novo" SCN1A mutations in children with dravet syndrome. Hum. Mutat, 36: 861-872.
Zhao HQ, Zhang P, Gao H, He X, Dou Y, Huang AY, Liu X, Ye AY, Dong MQ, Wei LP. (2015) Profiling the RNA editomes of wild-type C. elegans and ADAR mutants. Genome Res., 25: 66-75.
Ding Y, Wang M, He Y, Ye AY, Yang X, Liu F, Meng Y, Gao G, Wei LP. (2014) Bioinformatics: introduction and methods", a bilingual massive open online course (MOOC) as a new example for global bioinformatics education. PLoS Comput. Biol., 10: e1003955.
Zhou WZ, Ye AY, Sun Z, Tian HH, Pu TZ, Wu YY, Wang DD, Zhao M, Lu SJ, Yang CH, Wei LP. (2014) Statistical analysis of twenty years (1993-2012) of data from mainland China’s first intervention center for children with autism spectrum disorder. Mol. Autism., 5: 52.
Meng Wang, Jie Zhang, Zheng Zhang, Changhong Yang, Sheng Wang, Zhe Yu