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Genetics Faculty

Fulai Jin
Assistant Professor
Department of Genetics
School of Medicine
Case Western Reserve University
Biomedical Research Building 621
2109 Adelbert Road
Cleveland, Ohio 44106-4955
Tel: (216) 368-1811
Fax: (216) 368-3432

About Fulai Jin

Dr. Fulai Jin has an interdisciplinary background. He got a B.S. degree of biology and a B.E. degree of computer sciences from University of Science and Technology of China (USTC). He then obtained a PhD degree in Molecular and Medical Pharmacology from University of California, Los Angeles (UCLA). In graduate school, Dr. Jin worked in the field of chemical biology performing screens for small molecules or drug target genes using various functional genomic approaches. He developed a smart-pooling method to improve the efficiency of such screening experiments. In the meantime, Dr. Jin also obtained formal training in biostatistics. After graduation, Dr. Jin did his postdoc training with Dr. Bing Ren at Ludwig Institute for Cancer Research and switched to the field of genomics, epigenetics and transcription regulation. During his postdoc, Dr. Jin used a new genomic method called Hi-C and generated the first high-resolution genome-wide map of DNA looping interactions in mammalian cell, which can reveal contacts between any two 5-10kb DNA segments. Such information of 3D genome architecture is critical for our understanding of gene regulation in human diseases. Dr. Jin joined the Genetics Department in 2015 as an assistant professor.


Organization of mammalian genome is very complex. Recent advances of sequencing technologies have already allowed us to characterize genome and epigenome in one-dimensional space. For example, using antibodies against histone marks or protein factors, we can use ChIP-seq to map euchromatin, heterochromatin, as well as many types of cis-regulatory elements including promoters, enhancers, and insulators (see Figure).

In the 3D space, mammalian genome is also folded and packed in a highly organized fashion. Besides the well know chromatin relaxation and compaction associated with "open" and "closed" chromatin, DNA also form long-range loops which allow contacts between various cis-regulatory elements. Understanding genome organization is very important for genetics study. For example, mutations at enhancers may alter the expression levels of target genes from hundreds of kilobases away, leading to human diseases.

The Jin lab is interested in the global study of 3D genome architecture. The lab has both "wet" components and "dry" components. Research projects focus on several key challenges in this emerging field. (1) Developing experimental and computational tools for genome-wide identification of DNA looping interactions at high-resolution. (2) Understanding the genetic and epigenetic mechanisms that may governs genome architecture. (3) Understanding the impacts of genome architecture on cellular functions and human diseases.

Selected Publications

Xu Z, Zhang G, Duan Q, Chai S, Zhang B, Wu C, Jin F, Yue F, Li Y, Hu M (2016)
HiView: an integrative genome browser to leverage Hi-C results for the interpretation of GWAS variants.
BMC Res Notes;9(1):159
See PubMed abstract

Xu Z, Zhang G, Jin F, Chen M, Furey TS, Sullivan PF, Qin Z, Hu M, Li Y (2015)
A hidden Markov random field-based Bayesian method for the detection of long-range chromosomal interactions in Hi-C data.
See PubMed abstract

Hon GC, Song CX, Du T, Jin F, Selvaraj S, Lee AY, Yen CA, Ye Z, Mao SQ, Wang BA, Kuan S, Edsall LE, Zhao BS, Xu GL, He C, Ren B (2014)
5mC oxidation by Tet2 modulates enhancer activity and timing of transcriptome reprogramming during differentiation.
Mol Cell;56(2):286-97
See PubMed abstract

Dai L, Peng C, Montellier E, Lu Z, Chen Y, Ishii H, Debernardi A, Buchou T, Rousseaux S, Jin F, Sabari BR, Deng Z, Allis CD, Ren B, Khochbin S, Zhao Y (2014)
Lysine 2-hydroxyisobutyrylation is a widely distributed active histone mark.
Nat Chem Biol;10(5):365-70
See PubMed abstract

Li Y, Rivera CM, Ishii H, Jin F, Selvaraj S, Lee AY, Dixon JR, Ren B (2014)
CRISPR reveals a distal super-enhancer required for Sox2 expression in mouse embryonic stem cells.
PLoS One;9(12):e114485
See PubMed abstract

Jin F, Li Y, Dixon JR, Selvaraj S, Ye Z, Lee AY, Yen CA, Schmitt AD, Espinoza CA, Ren B (2013)
A high-resolution map of the three-dimensional chromatin interactome in human cells.
See PubMed abstract

Lo MC, Peterson LF, Yan M, Cong X, Jin F, Shia WJ, Matsuura S, Ahn EY, Komeno Y, Ly M, Ommen HB, Chen IM, Hokland P, Willman CL, Ren B, Zhang DE (2012)
Combined gene expression and DNA occupancy profiling identifies potential therapeutic targets of t(8;21) AML.
See PubMed abstract

Smallwood A, Hon GC, Jin F, Henry RE, Espinosa JM, Ren B (2012)
CBX3 regulates efficient RNA processing genome-wide.
Genome Res;22(8):1426-36
See PubMed abstract

Tan M, Luo H, Lee S, Jin F, Yang JS, Montellier E, Buchou T, Cheng Z, Rousseaux S, Rajagopal N, Lu Z, Ye Z, Zhu Q, Wysocka J, Ye Y, Khochbin S, Ren B, Zhao Y (2011)
Identification of 67 histone marks and histone lysine crotonylation as a new type of histone modification.
See PubMed abstract

Jin F, Li Y, Ren B, Natarajan R (2011)
Enhancers: multi-dimensional signal integrators.
See PubMed abstract

Jin F, Li Y, Ren B, Natarajan R (2011)
PU.1 and C/EBP(alpha) synergistically program distinct response to NF-kappaB activation through establishing monocyte specific enhancers.
Proc Natl Acad Sci U S A;108(13):5290-5
See PubMed abstract

Jin F, Avramova L, Huang J, Hazbun T (2007)
A yeast two-hybrid smart-pool-array system for protein-interaction mapping.
Nat Methods;4(5):405-7
See PubMed abstract

Jin F, Hazbun T, Michaud GA, Salcius M, Predki PF, Fields S, Huang J (2006)
A pooling-deconvolution strategy for biological network elucidation.
Nat Methods;3(3):183-9
See PubMed abstract

Xie MW, Jin F, Hwang H, Hwang S, Anand V, Duncan MC, Huang J (2005)
Insights into TOR function and rapamycin response: chemical genomic profiling by using a high-density cell array method.
Proc Natl Acad Sci U S A;102(20):7215-20
See PubMed abstract

Huang J, Zhu H, Haggarty SJ, Spring DR, Hwang H, Jin F, Snyder M, Schreiber SL (2004)
Finding new components of the target of rapamycin (TOR) signaling network through chemical genetics and proteome chips.
Proc Natl Acad Sci U S A;101(47):16594-9
See PubMed abstract