Xing Laboratory of RNA Genomics and Bioinformatics

Welcome to the Xing Laboratory of RNA Genomics and Bioinformatics!

Current Research Topics:
The long-term goal of our research is to elucidate how genomic and environmental variation of RNA regulatory networks impacts phenotypic traits and diseases. We are a hybrid computational and experimental lab. We combine genomic, bioinformatic, molecular, and network approaches to study mRNA processing and post-transcriptional gene regulation in mammalian cells. We develop novel computational and statistical methods for analysis of massive genome and transcriptome data. We integrate computational studies with high-throughput and experimental research to systematically investigate the variation and dynamics of RNA regulatory networks between species, within human populations, and in response to developmental and disease signals.

Recent News

  • March 2018: We received a National Cancer Institute R01 grant to study alternative isoform variation in prostate cancer.

  • May 2017: Our R01 grant to study the variation and regulation of alternative splicing in mammalian transcriptomes is renewed by the NIH for four more years.

  • February 2017: Dr. Xing joins the Scientific Advisory Committee of the Center for Dynamic RNA Epitranscriptomes at the University of Chicago. This is a Center for Excellence in Genomic Sciences (CEGS) funded by the National Human Genome Research Institute, with the main focus being to develop single base, quantitative, and sensitive sequencing methods for RNA modifications.

  • January 2017: Our m6A-LAIC-seq method for m6A level and isoform characterization sequencing is highlighted by Nature Methods "Method of the Year 2016" review for "Epitranscriptome Analysis".

  • January 2017: Bioinformatics Ph.D. student Zijun Zhang was awarded a Keystone Symposia Future of Science Fund to present his work at the meeting "Omics strategies to study the proteome".

  • September 2016: We received a research grant from the Parker Institute for Cancer Immunotherapy.

  • September 2016: We received an R01 grant from the NIH Big Data to Knowledge (BD2K) initiative to develop statistical methods and informatics pipelines for integrating transcriptomic and proteomic big data.

  • July 2016: We received a National Institute of Mental Health (NIMH) R01 grant (with Drs. Douglas Black and Kathrin Plath) to study alternative splicing regulation in the mammalian brain.

  • July 2016: Jinkai's work on m6A-LAIC-seq (m6A level and isoform characterization sequencing) is published by Nature Methods. See UCLA news release, GenomeWeb news story, and News & Views by Nature Methods.

  • June 2016: Shihao's SURVIV paper is published by Nature Communications. SURVIV is a statistical method for survival analysis of mRNA isoform variation in cancer transcriptomes. See UCLA news release and GenomeWeb news story.

  • January 2016: Lan's work on primate-specific, protein-coding Alu exons is published by Genome Biology (also see "Proteome diversification by genomic parasites", research highlight by Eli Eisenberg).