Lan Lin, Ph.D.

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Assistant Professor of Pathology and Laboratory Medicine
Department: Pathology and Laboratory Medicine
Graduate Group Affiliations

Contact information
The Children's Hospital of Philadelphia
Perelman School of Medicine, University of Pennsylvania
Colket Translational Research Building 9052
3501 Civic Center Blvd
Philadelphia, PA 19104
Office: 215-590-1966
Lab: 215-590-0187
B.S. (Biotechnology)
Beijing University, 2001.
Ph.D. (Cellular and Molecular Pathology)
University of California, Los Angeles, 2007.
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Description of Research Expertise

The Lin laboratory studies RNA modifications (a.k.a “epitranscriptomics”) in human diseases including cancer. Post-transcriptional RNA processing and modifications are important mechanisms for gene regulation and functional diversity in eukaryotic cells. We develop and apply high-throughput sequencing strategies and transcriptome engineering technologies to study the regulation and function of RNA modifications including A-to-I RNA editing and m6A RNA methylation.

RNA editing has emerged as an important and widespread mechanism for generating transcriptome diversity in eukaryotic cells. Aberrant RNA editing has been implicated in a variety of diseases including neurological diseases and cancer. The most abundant type of RNA editing is the A-to-I RNA editing (the deamination of adenosine to inosine) mediated by the ADAR family of RNA editing enzymes. We combine genomic, bioinformatic, and molecular approaches to study the regulation, genetic variation, and function of A-to-I RNA editing, as well as the roles of RNA editing in shaping complex traits and diseases.

N6-methyladenosine (m6A) is an abundant and dynamically regulated class of RNA base modification in mRNAs and non-coding RNAs. It affects multiple aspects of RNA metabolism and controls developmental transitions by regulating mRNA decay and translation. We are developing sensitive sequencing methods to detect RNA m6A methylation in a wider array of clinical and biological samples and using transcriptome engineering technologies to investigate the regulatory and functional consequences of m6A methylation.

Selected Publications

Robert Wang, Ingo Helbig, Andrew C Edmondson, Lan Lin, Yi Xing: Splicing defects in rare diseases: transcriptomics and machine learning strategies towards genetic diagnosis. Briefings in Bioinformatics(bbad284), Aug 2023.

Feng Wang, Yang Xu, Robert Wang, Beatrice Zhang, Noah Smith, Amber Notaro, Samantha Gaerlan, Eric Kutschera, Kathryn E. Kadash-Edmondson, Yi Xing, Lan Lin: TEQUILA-seq: a versatile and low-cost method for targeted long-read RNA sequencing. Nature Communications 14(4760), Aug 2023.

Gao Y+*, Wang F*, Wang R, Kutschera E, Xu Y, Xie S, Wang Y, Kadash-Edmondson K, Lin L, Xing Y+: ESPRESSO: Robust discovery and quantification of transcript isoforms from error-prone long-read RNA-seq data. Science Advances 9(3), Jan 2023.

Wang Z, Pan Z, Adhikari S, Harada BT, Shen L, Yuan W, Abeywardana T, Al-Hadid Q, Stark JM, He C, Lin L*, Yang Y*. : m(6) A deposition is regulated by PRMT1-mediated arginine methylation of METTL14 in its disordered C-terminal region. EMBO J 40(5), Jan 2021 Notes: *Co-corresponding authors.

Xin R, Gao Y, Gao Y, Wang R, Kadash-Edmondson KE, Liu B, Wang Y, Lin L, Xing Y.: isoCirc catalogs full-length circular RNA isoforms in human transcriptomes. Nat Commun 12: 266, Jan 2021.

Zheng Z, Wu M, Zhang J, Fu W, Xu N, Lao Y, Lin L*, Xu H*: The Natural Compound Neobractatin Induces Cell Cycle Arrest by Regulating E2F1 and Gadd45α. Frontiers in Oncology 9: 654, July 2019 Notes: *Co-corresponding authors.

Zhang Z, Park E, Lin L, Xing Y,: A panoramic view of RNA modifications: exploring new frontiers. Genome Biology 19(11), Jan 2018.

Park E, Pan Z, Zhang Z, Lin L, Xing Y: The expanding landscape of alternative splicing variation in human populations. Am J Hum Genet 102(1): 11-26, Jan 2018.

Wang J, Pan Y, Shen S, Lin L, Xing Y: rMATS-DVR: rMATS discovery of differential variants in RNA. Bioinformatics 33(14): 2216-2217, July 2017.

Park E, Guo J, Shen S, Demirdjian L, Wu YN, Lin L, Xing Y: Population and allelic variation of A-to-I RNA editing in human transcriptomes. Genome Biol 18(1): 143, July 2017.

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Last updated: 05/20/2024
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