Mingyi Xie,
Associate Professor
Department:
MD-BIOCHEM / MOLECULAR BIOL
Business Phone:
(352) 273-8171
Business Email:
mingyi.xie@ufl.edu
About Mingyi Xie
From 2005 to 2010, Dr. Xie’s Ph.D. work focused on investigating the structure and function of vertebrate telomerase, under the guidance of Dr. Julian Chen at Arizona State University. In 2010, he joined the laboratory of Dr. Joan Steitz at Yale University to study non-canonical microRNA (miRNA) biogenesis in Herpesviruses and their mammalian hosts. Dr. Xie joined the faculty at the University of Florida in September, 2016.
Related Links:
Accomplishments
Exemplary Teacher Award
2020
·
College of Medicine, University of Florida
Maximize Investigator's Research Award (R35)
2018
·
National Institute of General Medical Sciences
Pathway to Independence Award (K99/R00)
2014
·
National Cancer Institute
Fellow Award
2012
·
Leukemia & Lymphoma Society
Leslie H. Warner Postdoc Fellow
2010
·
Yale Medical School
Outstanding Graduate Research Assistant
2009
·
Department of Chemistry and Biochemistry, Arizona State University
Award for Advanced Individual in Extra-curricular Scientific and Technological Activity
2003
·
School of Life Sciences, Xiamen University
Teaching Profile
Courses Taught
2017-2018,2020-2025
BCH5413 Mammalian Molecular Biology and Genetics
2020-2021,2023-2024
BCH4905 Biochemistry Senior Research
2018-2024
GMS6001 Fundamentals of Biomedical Sciences I
2019
BCH7410 Advanced Gene Regulation
2017-2019,2021-2025
BCH6415 Advanced Molecular and Cell Biology
2018
GMS7979 Advanced Research
2018
PLP7979 Advanced Research
2018
GMS7980 Research for Doctoral Dissertation
2022-2025
BCH7412 Epigenetics of Human Disease and Development
2024-2025
GMS6905 Independent Studies in Medical Sciences
Research Profile
The overarching goal of our research is to understand how non-coding RNAs and RBPs contribute to gene regulation in health and disease. At present, we are interested in understanding how mis-regulation of microRNA levels and the modification of small non-coding RNAs contribute to different types of cancer and neurodegenerative diseases. We are investigating a microRNA degradation mechanism, called target RNA directed microRNA degradation, in the context of colorectal cancer and T-cell acute lymphoblastic leukemia. On the other hand, we discovered RNA modification called N6-methyladenosine in 7SK RNA. Erasing this modification on 7SK inhibit lung cancer cell growth. It’s regulation mechanism and therapeutic potential are being examined in the context of lung cancer and Alzheimer’s disease.
Open Researcher and Contributor ID (ORCID)
0000-0001-7955-197X
Areas of Interest
- Cancer
- Genetics
- RNA
Publications
Academic Articles
2024
A mitochondrial unfolded protein response-independent role of DVE-1 in longevity regulation.
Cell reports.
43(11)
[DOI] 10.1016/j.celrep.2024.114889.
[PMID] 39423131.
2024
An endogenous cluster of target-directed microRNA degradation sites induces decay of distinct microRNA families.
bioRxiv : the preprint server for biology.
[DOI] 10.1101/2024.12.11.627053.
[PMID] 39713366.
2024
An Interpretable Population Graph Network to Identify Rapid Progression of Alzheimer’s Disease Using UK Biobank.
medRxiv : the preprint server for health sciences.
[DOI] 10.1101/2024.03.27.24304966.
[PMID] 38585886.
2024
Conditional RNA interference in mammalian cells via RNA transactivation
Nature Communications.
15(1)
[DOI] 10.1038/s41467-024-50600-w.
[PMID] 39127751.
2024
Gra-CRC-miRTar: The pre-trained nucleotide-to-graph neural networks to identify potential miRNA targets in colorectal cancer.
bioRxiv : the preprint server for biology.
[DOI] 10.1101/2024.04.15.589599.
[PMID] 38659732.
2024
Gra-CRC-miRTar: The pre-trained nucleotide-to-graph neural networks to identify potential miRNA targets in colorectal cancer.
Computational and structural biotechnology journal.
23:3020-3029
[DOI] 10.1016/j.csbj.2024.07.014.
[PMID] 39171252.
2024
Target‐directed microRNA degradation: Mechanisms, significance, and functional implications
WIREs RNA.
15(2)
[DOI] 10.1002/wrna.1832.
[PMID] 38448799.
2023
Fluorescent In Situ Detection of RNA-Protein Interactions in Intact Cells by RNA-PLA.
Methods in molecular biology (Clifton, N.J.).
2666:165-175
[DOI] 10.1007/978-1-0716-3191-1_13.
[PMID] 37166665.
2023
Functional Interrogation of Ca2+ Signals in Human Cancer Cells In Vitro and Ex Vivo by Fluorescent Microscopy and Molecular Tools.
Methods in molecular biology (Clifton, N.J.).
2679:95-125
[DOI] 10.1007/978-1-0716-3271-0_7.
[PMID] 37300611.
2023
Investigating miR-9 as a mediator in laryngeal cancer health disparities.
Frontiers in oncology.
13
[DOI] 10.3389/fonc.2023.1096882.
[PMID] 37081981.
2023
N6-methyladenosine in 7SK small nuclear RNA underlies RNA polymerase II transcription regulation
Molecular Cell.
83(21):3818-3834.e7
[DOI] 10.1016/j.molcel.2023.09.020.
[PMID] 37820733.
2023
Screening of Drosophila microRNA-degradation sequences reveals Argonaute1 mRNA’s role in regulating miR-999
Nature Communications.
14(1)
[DOI] 10.1038/s41467-023-37819-9.
[PMID] 37055443.
2023
YAP at the Crossroads of Biomechanics and Drug Resistance in Human Cancer.
International journal of molecular sciences.
24(15)
[DOI] 10.3390/ijms241512491.
[PMID] 37569866.
2022
Enhancer-Mediated Formation of Nuclear Transcription Initiation Domains
International Journal of Molecular Sciences.
23(16)
[DOI] 10.3390/ijms23169290.
[PMID] 36012554.
2022
Towards an integrative understanding of cancer mechanobiology: calcium, YAP, and microRNA under biophysical forces.
Soft matter.
18(6):1112-1148
[DOI] 10.1039/d1sm01618k.
[PMID] 35089300.
2021
A noncanonical microRNA derived from the snaR-A noncoding RNA targets a metastasis inhibitor.
RNA (New York, N.Y.).
27(6):694-709
[DOI] 10.1261/rna.078694.121.
[PMID] 33795480.
2021
Biological features between miRNAs and their targets are unveiled from deep learning models.
Scientific reports.
11(1)
[DOI] 10.1038/s41598-021-03215-w.
[PMID] 34893648.
2021
Sequencing of Argonaute-bound microRNA/mRNA hybrids reveals regulation of the unfolded protein response by microRNA-320a
PLOS Genetics.
17(12)
[DOI] 10.1371/journal.pgen.1009934.
[PMID] 34914716.
2021
Super-enhancer mediated regulation of adult β-globin gene expression: the role of eRNA and Integrator
Nucleic Acids Research.
49(3):1383-1396
[DOI] 10.1093/nar/gkab002.
[PMID] 33476375.
2021
When Pol II sees red.
Blood.
138(18):1648-1649
[DOI] 10.1182/blood.2021012453.
[PMID] 34735000.
2021
Widespread microRNA degradation elements in target mRNAs can assist the encoded proteins.
Genes & development.
35(23-24):1595-1609
[DOI] 10.1101/gad.348874.121.
[PMID] 34819352.
2020
Short Hairpin RNAs for Strand-Specific Small Interfering RNA Production.
Frontiers in bioengineering and biotechnology.
8
[DOI] 10.3389/fbioe.2020.00940.
[PMID] 32850763.
2020
UTteR control through miRs: fine-tuning ATXN1 levels to prevent ataxia.
Genes & development.
34(17-18):1107-1109
[DOI] 10.1101/gad.343020.120.
[PMID] 32873576.
2019
Catalytically inactive Dnmt3b rescues mouse embryonic development by accessory and repressive functions.
Nature communications.
10(1)
[DOI] 10.1038/s41467-019-12355-7.
[PMID] 31558711.
2019
Northern Blot with IR Fluorescent Probes: Strategies for Probe Preparation.
Bio-protocol.
9(8)
[DOI] 10.21769/BioProtoc.3219.
[PMID] 31428663.
2018
Dicer cleaves 5′-extended microRNA precursors originating from RNA polymerase II transcription start sites
Nucleic Acids Research.
46(11):5737-5752
[DOI] 10.1093/nar/gky306.
[PMID] 29746670.
2018
Immunoprecipitation of Tri-methylated Capped RNA
BIO-PROTOCOL.
8(3)
[DOI] 10.21769/bioprotoc.2717.
2018
Near-infrared fluorescent northern blot.
RNA (New York, N.Y.).
24(12):1871-1877
[DOI] 10.1261/rna.068213.118.
[PMID] 30201850.
2016
A proximity-dependent assay for specific RNA–protein interactions in intact cells
RNA.
22(11):1785-1792
[DOI] 10.1261/rna.058248.116.
[PMID] 27659050.
2015
The host Integrator complex acts in transcription-independent maturation of herpesvirus microRNA 3′ ends
Genes & Development.
29(14):1552-1564
[DOI] 10.1101/gad.266973.115.
[PMID] 26220997.
2015
Viral noncoding RNAs: more surprises
Genes & Development.
29(6):567-584
[DOI] 10.1101/gad.259077.115.
[PMID] 25792595.
2014
A self-regulating template in human telomerase
Proceedings of the National Academy of Sciences.
111(31):11311-11316
[DOI] 10.1073/pnas.1402531111.
[PMID] 24982163.
2014
Versatile microRNA biogenesis in animals and their viruses
RNA Biology.
11(6):673-681
[DOI] 10.4161/rna.28985.
[PMID] 24823351.
2013
Mammalian 5′-Capped MicroRNA Precursors that Generate a Single MicroRNA
Cell.
155(7):1568-1580
[DOI] 10.1016/j.cell.2013.11.027.
[PMID] 24360278.
2012
Drosha mediates destabilization of Lin28 mRNA targets
Cell Cycle.
11(19):3590-3598
[DOI] 10.4161/cc.21871.
[PMID] 22935707.
2012
RNA/DNA hybrid binding affinity determines telomerase template-translocation efficiency
The EMBO Journal.
31(1):150-161
[DOI] 10.1038/emboj.2011.363.
[PMID] 21989387.
2011
A Primate Herpesvirus Uses the Integrator Complex to Generate Viral MicroRNAs
Molecular Cell.
43(6):982-992
[DOI] 10.1016/j.molcel.2011.07.025.
[PMID] 21925386.
2010
A novel motif in telomerase reverse transcriptase regulates telomere repeat addition rate and processivity
Nucleic Acids Research.
38(6):1982-1996
[DOI] 10.1093/nar/gkp1198.
[PMID] 20044353.
2008
Short telomeres are a risk factor for idiopathic pulmonary fibrosis
Proceedings of the National Academy of Sciences.
105(35):13051-13056
[DOI] 10.1073/pnas.0804280105.
[PMID] 18753630.
2008
Structure and Function of the Smallest Vertebrate Telomerase RNA from Teleost Fish
Journal of Biological Chemistry.
283(4):2049-2059
[DOI] 10.1074/jbc.m708032200.
2007
Telomerase Mutations in Families with Idiopathic Pulmonary Fibrosis
New England Journal of Medicine.
356(13):1317-1326
[DOI] 10.1056/nejmoa066157.
2007
Ultrasensitive Label-Free Aptamer-Based Electronic Detection
Angewandte Chemie International Edition.
46(47):9054-9056
[DOI] 10.1002/anie.200703242.
[PMID] 17957666.
2006
Rolling-Circle Amplification of a DNA Nanojunction
Angewandte Chemie International Edition.
45(45):7537-7539
[DOI] 10.1002/anie.200602113.
Grants
Oct 2024
ACTIVE
Deciphering Dysregulated RNA Interference in Colorectal Cancer via Semantic Embedded Graph Neural Networks
Role: Co-Investigator
Funding: PARDEE FOU, ELSA U
Jan 2024
ACTIVE
The molecular basis of 7SK RNA methylation in non-small cell lung cancer
Role: Principal Investigator
Funding: NATL INST OF HLTH NCI
Aug 2023
ACTIVE
Molecular mechanisms for regulating microRNA levels in metazoans
Role: Principal Investigator
Funding: NATL INST OF HLTH NIGMS
Jul 2023
ACTIVE
Exploring microRNA degradation in T-cell acute lymphoblastic leukemia
Role: Principal Investigator
Funding: NATL INST OF HLTH NCI
Jan 2022
ACTIVE
MicroRNA turnover induced by target RNAs in Colorectal Cancer
Role: Principal Investigator
Funding: AMERICAN CANCER SOCIETY
Sep 2021
– Aug 2022
Examine the contribution of miRNA degradation in oxaliplatin-induced colorectal cancer cell death
Role: Principal Investigator
Funding: PARDEE FOU, ELSA U
Jun 2021
– Apr 2024
Target RNAs induce microRNA degradation in apoptotic T cell acute lymphoblastic leukemia cells
Role: Principal Investigator
Funding: FL DEPT OF HLTH LIVE LIKE BELLA
Sep 2018
– Aug 2021
OR-DRPD-ROF2018: Processing of transcription start site (TSS-)microRNAs by Dicer proteins
Role: Principal Investigator
Funding: UF RESEARCH
Aug 2018
– Aug 2023
RNA metabolism mediated by the Integrator complex
Role: Principal Investigator
Funding: NATL INST OF HLTH NIGMS
Apr 2018
– Mar 2020
RNA metabolism mediated by the Integrator complex
Role: Principal Investigator
Funding: UF FOUNDATION
Sep 2016
– Feb 2021
Noncanonical microRNA biogenesis and function in a gamma herpesvirus and mammals
Role: Principal Investigator
Funding: NATL INST OF HLTH NCI
Feb 2015
– Oct 2023
UF Health Cancer Center Pilot Project Grants funded through the Florida Consortium of National Cancer Institute Centers Program
Role: Project Manager
Funding: UF HEALTH SHANDS HOSPITAL
Contact Details
Phones:
- Business:
- (352) 273-8171
Emails:
- Business:
- mingyi.xie@ufl.edu
Addresses:
- Business Mailing:
-
PO Box 100245
GAINESVILLE FL 32610 - Business Street:
-
PO Box 100245
GAINESVILLE FL 32610