Publications

• Brain 5-hydroxymethylcytosine alterations are associated with Alzheimer's disease neuropathology.
  Nat Commun Volume: 16 Page(s): 2842
  03/22/2025 Authors: Zhao J; Gu T; Gao C; Miao G; Palma-Gudiel H; Yu L; Yang J; Wang Y; Li Y; Lim J
• Lowering Hippocampal miR-29a Expression Slows Cognitive Decline and Reduces Beta-Amyloid Deposition in 5FAD Mice.
  Mol Neurobiol Volume: 61 Page(s): 3343 - 3356
  06/01/2024 Authors: Mei Z; Liu J; Schroeder JP; Weinshenker D; Duong DM; Seyfried NT; Li Y; Jin P; Wingo AP; Wingo TS
• Editorial: Noncoding RNAs in neurodegenerative disorders: from current insights and future directions to translational modeling and therapeutic approaches.
  Front Neurosci Volume: 18 Page(s): 1497673
  01/01/2024 Authors: Li Y; Bhinge A; Inoue S; Garcia G
• Editorial: Non-coding RNAs and human diseases volume 2 -long non-coding RNAs and pathogenesis of human disease.
  Front Genet Volume: 15 Page(s): 1513211
  01/01/2024 Authors: Xu S; Shu L; Meng C; Teng Z-Q; Li Y
• Stem Cell-Derived Organoids.
  Stem Cells Int Volume: 2024 Page(s): 9798375
  01/01/2024 Authors: Li Y; Li X; Kang Y; Jiang S
• Lowering hippocampal miR-29a expression slows cognitive decline and reduces beta-amyloid deposition in 5xFAD mice.
  Res Sq
  08/16/2023 Authors: Mei Z; Liu J; Schroeder JP; Weinshenker D; Duong DM; Seyfried NT; Li Y; Jin P; Wingo AP; Wingo TS
• MicroRNA-650 Regulates the Pathogenesis of Alzheimer's Disease Through Targeting Cyclin-Dependent Kinase 5.
  Mol Neurobiol Volume: 60 Page(s): 2426 - 2441
  05/01/2023 Authors: Lin L; Liu X; Cheng X; Li Y; Gearing M; Levey A; Huang X; Li Y; Jin P; Li X
• Cell type-specific DNA methylome signatures reveal epigenetic mechanisms for neuronal diversity and neurodevelopmental disorder.
  Hum Mol Genet Volume: 32 Page(s): 218 - 230
  01/06/2023 Authors: Jin Y; Su K; Kong HE; Ma W; Wang Z; Li Y; Li R; Allen EG; Wu H; Jin P
• Editorial: Application of gene editing in neurodegenerative diseases, volume II.
  Front Neurosci Volume: 17 Page(s): 1305302
  01/01/2023 Authors: Qi F; Xu X; Guo X; Luo J; Li Y; Yan S
• Editorial: Epigenomic and epitranscriptomic basis of development and human disease.
  Front Cell Dev Biol Volume: 11 Page(s): 1128745
  01/01/2023 Authors: Xu S; Teng Z-Q; Li X; Li Y
• Expression of expanded GGC repeats within NOTCH2NLC causes behavioral deficits and neurodegeneration in a mouse model of neuronal intranuclear inclusion disease.
  Sci Adv Volume: 8 Page(s): eadd6391
  11/25/2022 Authors: Liu Q; Zhang K; Kang Y; Li Y; Deng P; Li Y; Tian Y; Sun Q; Tang Y; Xu K
• Altered hydroxymethylome in the substantia nigra of Parkinson's disease.
  Hum Mol Genet Volume: 31 Page(s): 3494 - 3503
  10/10/2022 Authors: Min S; Xu Q; Qin L; Li Y; Li Z; Chen C; Wu H; Han J; Zhu X; Jin P
• A homozygous exonic variant leading to exon skipping in ABCC8 as the cause of severe congenital hyperinsulinism.
  Am J Med Genet A Volume: 188 Page(s): 2429 - 2433
  08/01/2022 Authors: Reyes Diaz JV; Jin Y; Garber K; Cossen KM; Li Y; Jin P; Li H; Ham J-YN
• Editorial: Application of gene editing in pathology dissection of neurodegenerative diseases.
  Front Neurosci Volume: 16 Page(s): 1092176
  01/01/2022 Authors: Yan S; Xu X; Qi F; Guo X; Luo J; Li Y
• Human Brain Organoid: A Versatile Tool for Modeling Neurodegeneration Diseases and for Drug Screening.
  Stem Cells Int Volume: 2022 Page(s): 2150680
  01/01/2022 Authors: Ma C; Seong H; Li X; Yu X; Xu S; Li Y
• Ten-eleven translocation proteins (TETs): tumor suppressors or tumor enhancers?
  Front Biosci (Landmark Ed) Volume: 26 Page(s): 895 - 915
  10/30/2021 Authors: Ma C; Seong H; Liu Y; Yu X; Xu S; Li Y
• Ten-eleven translocation 2 modulates allergic inflammation by 5-hydroxymethylcytosine remodeling of immunologic pathways.
  Hum Mol Genet Volume: 30 Page(s): 1985 - 1995
  10/13/2021 Authors: Meng C; Gu L; Li Y; Li R; Cao Y; Li Z; Allen EG; Zhu D; Jin P
• A human forebrain organoid model of fragile X syndrome exhibits altered neurogenesis and highlights new treatment strategies.
  Nat Neurosci Volume: 24 Page(s): 1377 - 1391
  10/01/2021 Authors: Kang Y; Zhou Y; Li Y; Han Y; Xu J; Niu W; Li Z; Liu S; Feng H; Huang W
• Ten-eleven translocation protein 1 modulates medulloblastoma progression.
  Genome Biol Volume: 22 Page(s): 125
  04/29/2021 Authors: Kim H; Kang Y; Li Y; Chen L; Lin L; Johnson ND; Zhu D; Robinson MH; McSwain L; Barwick BG
• Therapeutic Development for CGG Repeat Expansion-Associated Neurodegeneration.
  Front Cell Neurosci Volume: 15 Page(s): 655568
  01/01/2021 Authors: Xu K; Li Y; Allen EG; Jin P
• Editorial: Non-Coding RNAs and Human Diseases.
  Front Genet Volume: 11 Page(s): 523
  01/01/2020 Authors: Li Y; Shan G; Teng Z-Q; Wingo TS
• Ethnicity-specific and overlapping alterations of brain hydroxymethylome in Alzheimer's disease.
  Hum Mol Genet Volume: 29 Page(s): 149 - 158
  01/01/2020 Authors: Qin L; Xu Q; Li Z; Chen L; Li Y; Yang N; Liu Z; Guo J; Shen L; Allen EG
• Expansion of Human-Specific GGC Repeat in Neuronal Intranuclear Inclusion Disease-Related Disorders.
  Am J Hum Genet Volume: 105 Page(s): 166 - 176
  07/03/2019 Authors: Tian Y; Wang J-L; Huang W; Zeng S; Jiao B; Liu Z; Chen Z; Li Y; Wang Y; Min H-X
• Mitochondrial regulation of cardiac aging.
  Biochim Biophys Acta Mol Basis Dis Volume: 1865 Page(s): 1853 - 1864
  07/01/2019 Authors: Wang Y; Li Y; He C; Gou B; Song M
• Ten-Eleven Translocation Proteins Modulate the Response to Environmental Stress in Mice.
  Cell Rep Volume: 25 Page(s): 3194 - 3203.e4
  12/11/2018 Authors: Cheng Y; Sun M; Chen L; Li Y; Lin L; Yao B; Li Z; Wang Z; Chen J; Miao Z
• Partial loss of psychiatric risk gene Mir137 in mice causes repetitive behavior and impairs sociability and learning via increased Pde10a.
  Nat Neurosci Volume: 21 Page(s): 1689 - 1703
  12/01/2018 Authors: Cheng Y; Wang Z-M; Tan W; Wang X; Li Y; Bai B; Li Y; Zhang S-F; Yan H-L; Chen Z-L
• Fragile X mental retardation protein modulates the stability of its m6A-marked messenger RNA targets.
  Hum Mol Genet Volume: 27 Page(s): 3936 - 3950
  11/15/2018 Authors: Zhang F; Kang Y; Wang M; Li Y; Xu T; Yang W; Song H; Wu H; Shu Q; Jin P
• Active N6-Methyladenine Demethylation by DMAD Regulates Gene Expression by Coordinating with Polycomb Protein in Neurons.
  Mol Cell Volume: 71 Page(s): 848 - 857.e6
  09/06/2018 Authors: Yao B; Li Y; Wang Z; Chen L; Poidevin M; Zhang C; Lin L; Wang F; Bao H; Jiao B
• Piperine ameliorates SCA17 neuropathology by reducing ER stress.
  Mol Neurodegener Volume: 13 Page(s): 4
  01/30/2018 Authors: Guo J; Cui Y; Liu Q; Yang Y; Li Y; Weng L; Tang B; Jin P; Li X-J; Yang S
• Base Modifications: Regulation of Stem Cell Functions and Diseases.
  Stem Cells Int Volume: 2018 Page(s): 5402384
  01/01/2018 Authors: Li Y; Park C; Li X
• N6-Methyladenosine in RNA and DNA: An Epitranscriptomic and Epigenetic Player Implicated in Determination of Stem Cell Fate.
  Stem Cells Int Volume: 2018 Page(s): 3256524
  01/01/2018 Authors: Ji P; Wang X; Xie N; Li Y
• Noncoding RNAs and Base Modifications: Epigenomic Players Implicated in Neurological Disorders and Tumorigenesis.
  Int J Genomics Volume: 2018 Page(s): 9016018
  01/01/2018 Authors: Li Y; Park C; Jiang H; Li X; Velln L
• DNA N6-methyladenine is dynamically regulated in the mouse brain following environmental stress.
  Nat Commun Volume: 8 Page(s): 1122
  10/24/2017 Authors: Yao B; Cheng Y; Wang Z; Li Y; Chen L; Huang L; Zhang W; Chen D; Wu H; Tang B
• Ten-eleven translocation 2 interacts with forkhead box O3 and regulates adult neurogenesis.
  Nat Commun Volume: 8 Page(s): 15903
  06/29/2017 Authors: Li X; Yao B; Chen L; Kang Y; Li Y; Cheng Y; Li L; Lin L; Wang Z; Wang M
• Genome-wide association study of positive emotion identifies a genetic variant and a role for microRNAs.
  Mol Psychiatry Volume: 22 Page(s): 774 - 783
  05/01/2017 Authors: Wingo AP; Almli LM; Stevens JS; Jovanovic T; Wingo TS; Tharp G; Li Y; Lori A; Briscione M; Jin P
• Genetic association analysis of polymorphisms in PSD3 gene with obesity, type 2 diabetes, and HDL cholesterol.
  Diabetes Res Clin Pract Volume: 126 Page(s): 105 - 114
  04/01/2017 Authors: Gong S; Xu C; Wang L; Liu Y; Owusu D; Bailey BA; Li Y; Wang K
• Molecular signatures associated with ZIKV exposure in human cortical neural progenitors.
  Nucleic Acids Res Volume: 44 Page(s): 8610 - 8620
  10/14/2016 Authors: Zhang F; Hammack C; Ogden SC; Cheng Y; Lee EM; Wen Z; Qian X; Nguyen HN; Li Y; Yao B
• Brain-Region-Specific Organoids Using Mini-bioreactors for Modeling ZIKV Exposure.
  Cell Volume: 165 Page(s): 1238 - 1254
  05/19/2016 Authors: Qian X; Nguyen HN; Song MM; Hadiono C; Ogden SC; Hammack C; Yao B; Hamersky GR; Jacob F; Zhong C
• Zika Virus Infects Human Cortical Neural Progenitors and Attenuates Their Growth.
  Cell Stem Cell Volume: 18 Page(s): 587 - 590
  05/05/2016 Authors: Tang H; Hammack C; Ogden SC; Wen Z; Qian X; Li Y; Yao B; Shin J; Zhang F; Lee EM
• Corrigendum: DICER1 and microRNA regulation in post-traumatic stress disorder with comorbid depression.
  Nat Commun Volume: 7 Page(s): 10958
  03/03/2016 Authors: Wingo AP; Almli LM; Stevens JS; Klengel T; Uddin M; Li Y; Bustamante AC; Lori A; Koen N; Stein DJ
• iPSCs: From Bench to Clinical Bed.
  Stem Cells Int Volume: 2016 Page(s): 8367587
  01/01/2016 Authors: Li Y; Park C; Velln L; Li X
• Induced Pluripotent Stem Cells: Generation Strategy and Epigenetic Mystery behind Reprogramming.
  Stem Cells Int Volume: 2016 Page(s): 8415010
  01/01/2016 Authors: Ji P; Manupipatpong S; Xie N; Li Y
• The Drosophila Helicase MLE Targets Hairpin Structures in Genomic Transcripts.
  PLoS Genet Volume: 12 Page(s): e1005761
  01/01/2016 Authors: Cugusi S; Li Y; Jin P; Lucchesi JC
• DICER1 and microRNA regulation in post-traumatic stress disorder with comorbid depression.
  Nat Commun Volume: 6 Page(s): 10106
  12/03/2015 Authors: Wingo AP; Almli LM; Stevens JS; Klengel T; Uddin M; Li Y; Bustamante AC; Lori A; Koen N; Stein DJ
• DICER1 and MicroRNA Regulation in Post-Traumatic Stress Disorder
  Volume: 40 Page(s): S277 - S278
  12/01/2015 Authors: Wingo A; Almli L; Stevens J; Klengel T; Uddin M; Li Y; Bustamante A; Lori A; Koen N; Stein D
• Promoters of Human Cosmc and T-synthase Genes Are Similar in Structure, Yet Different in Epigenetic Regulation.
  J Biol Chem Volume: 290 Page(s): 19018 - 19033
  07/31/2015 Authors: Zeng J; Mi R; Wang Y; Li Y; Lin L; Yao B; Song L; van Die I; Chapman AB; Cummings RD
• Role of Tet1 and 5-hydroxymethylcytosine in cocaine action.
  Nat Neurosci Volume: 18 Page(s): 536 - 544
  04/01/2015 Authors: Feng J; Shao N; Szulwach KE; Vialou V; Huynh J; Zhong C; Le T; Ferguson D; Cahill ME; Li Y
• A feed-forward mechanism involving Drosophila fragile X mental retardation protein triggers a replication stress-induced DNA damage response.
  Hum Mol Genet Volume: 23 Page(s): 5188 - 5196
  10/01/2014 Authors: Zhang W; Cheng Y; Li Y; Chen Z; Jin P; Chen D
• AGO3 Slicer activity regulates mitochondria-nuage localization of Armitage and piRNA amplification.
  J Cell Biol Volume: 206 Page(s): 217 - 230
  07/21/2014 Authors: Huang H; Li Y; Szulwach KE; Zhang G; Jin P; Chen D
• Regulation of DNA methylation turnover at LTR retrotransposons and imprinted loci by the histone methyltransferase Setdb1.
  Proc Natl Acad Sci U S A Volume: 111 Page(s): 6690 - 6695
  05/06/2014 Authors: Leung D; Du T; Wagner U; Xie W; Lee AY; Goyal P; Li Y; Szulwach KE; Jin P; Lorincz MC
• Coordination of engineered factors with TET1/2 promotes early-stage epigenetic modification during somatic cell reprogramming.
  Stem Cell Reports Volume: 2 Page(s): 253 - 261
  03/11/2014 Authors: Zhu G; Li Y; Zhu F; Wang T; Jin W; Mu W; Lin W; Tan W; Li W; Street RC
• Genome-wide antagonism between 5-hydroxymethylcytosine and DNA methylation in the adult mouse brain.
  Front Biol (Beijing) Volume: 9 Page(s): 66 - 74
  02/01/2014 Authors: Guo JU; Szulwach KE; Su Y; Li Y; Yao B; Xu Z; Shin JH; Xie B; Gao Y; Ming G-L
• Probing the microRNA pathway with small molecules.
  Bioorg Med Chem Volume: 21 Page(s): 6119 - 6123
  10/15/2013 Authors: Li Y; Ji P; Jin P
• Subtelomeric hotspots of aberrant 5-hydroxymethylcytosine-mediated epigenetic modifications during reprogramming to pluripotency.
  Nat Cell Biol Volume: 15 Page(s): 700 - 711
  06/01/2013 Authors: Wang T; Wu H; Li Y; Szulwach KE; Lin L; Li X; Chen I-P; Goldlust IS; Chamberlain SJ; Dodd A
• Expanded GGGGCC repeat RNA associated with amyotrophic lateral sclerosis and frontotemporal dementia causes neurodegeneration.
  Proc Natl Acad Sci U S A Volume: 110 Page(s): 7778 - 7783
  05/07/2013 Authors: Xu Z; Poidevin M; Li X; Li Y; Shu L; Nelson DL; Li H; Hales CM; Gearing M; Wingo TS
• Genome-wide profiling of 5-formylcytosine reveals its roles in epigenetic priming.
  Cell Volume: 153 Page(s): 678 - 691
  04/25/2013 Authors: Song C-X; Szulwach KE; Dai Q; Fu Y; Mao S-Q; Lin L; Street C; Li Y; Poidevin M; Wu H
• Selective capture of 5-hydroxymethylcytosine from genomic DNA.
  J Vis Exp
  10/05/2012 Authors: Li Y; Song C-X; He C; Jin P
• RNA-mediated neurodegeneration in fragile X-associated tremor/ataxia syndrome.
  Brain Res Volume: 1462 Page(s): 112 - 117
  06/26/2012 Authors: Li Y; Jin P
• Iron homeostasis regulates the activity of the microRNA pathway through poly(C)-binding protein 2.
  Cell Metab Volume: 15 Page(s): 895 - 904
  06/06/2012 Authors: Li Y; Lin L; Li Z; Ye X; Xiong K; Aryal B; Xu Z; Paroo Z; Liu Q; He C
• 5-hmC-mediated epigenetic dynamics during postnatal neurodevelopment and aging.
  Nat Neurosci Volume: 14 Page(s): 1607 - 1616
  10/30/2011 Authors: Szulwach KE; Li X; Li Y; Song C-X; Wu H; Dai Q; Irier H; Upadhyay AK; Gearing M; Levey AI
• Integrating 5-hydroxymethylcytosine into the epigenomic landscape of human embryonic stem cells.
  PLoS Genet Volume: 7 Page(s): e1002154
  06/01/2011 Authors: Szulwach KE; Li X; Li Y; Song C-X; Han JW; Kim S; Namburi S; Hermetz K; Kim JJ; Rudd MK
• Selective chemical labeling reveals the genome-wide distribution of 5-hydroxymethylcytosine.
  Nat Biotechnol Volume: 29 Page(s): 68 - 72
  01/01/2011 Authors: Song C-X; Szulwach KE; Fu Y; Dai Q; Yi C; Li X; Li Y; Chen C-H; Zhang W; Jian X
• Emergence of chemical biology approaches to the RNAi/miRNA pathway.
  Chem Biol Volume: 17 Page(s): 584 - 589
  06/25/2010 Authors: Li Y; He C; Jin P
• Cross talk between microRNA and epigenetic regulation in adult neurogenesis.
  J Cell Biol Volume: 189 Page(s): 127 - 141
  04/05/2010 Authors: Szulwach KE; Li X; Smrt RD; Li Y; Luo Y; Lin L; Santistevan NJ; Li W; Zhao X; Jin P
• The microRNA pathway and fragile X mental retardation protein.
  Biochim Biophys Acta Volume: 1779 Page(s): 702 - 705
  11/01/2008 Authors: Li Y; Lin L; Jin P
• A small molecule enhances RNA interference and promotes microRNA processing.
  Nat Biotechnol Volume: 26 Page(s): 933 - 940
  08/01/2008 Authors: Shan G; Li Y; Zhang J; Li W; Szulwach KE; Duan R; Faghihi MA; Khalil AM; Lu L; Paroo Z
• The shoot-specific expression of gamma-glutamylcysteine synthetase directs the long-distance transport of thiol-peptides to roots conferring tolerance to mercury and arsenic.
  Plant Physiol Volume: 141 Page(s): 288 - 298
  05/01/2006 Authors: Li Y; Dankher OP; Carreira L; Smith AP; Meagher RB
• Arsenic and mercury tolerance and cadmium sensitivity in Arabidopsis plants expressing bacterial gamma-glutamylcysteine synthetase.
  Environ Toxicol Chem Volume: 24 Page(s): 1376 - 1386
  06/01/2005 Authors: Li Y; Dhankher OP; Carreira L; Balish RS; Meagher RB
• Overexpression of phytochelatin synthase in Arabidopsis leads to enhanced arsenic tolerance and cadmium hypersensitivity.
  Plant Cell Physiol Volume: 45 Page(s): 1787 - 1797
  12/01/2004 Authors: Li Y; Dhankher OP; Carreira L; Lee D; Chen A; Schroeder JI; Balish RS; Meagher RB
• Engineering tolerance and hyperaccumulation of arsenic in plants by combining arsenate reductase and gamma-glutamylcysteine synthetase expression.
  Nat Biotechnol Volume: 20 Page(s): 1140 - 1145
  11/01/2002 Authors: Dhankher OP; Li Y; Rosen BP; Shi J; Salt D; Senecoff JF; Sashti NA; Meagher RB
• Rapid isolation of monoclonal antibodies. Monitoring enzymes in the phytochelatin synthesis pathway.
  Plant Physiol Volume: 127 Page(s): 711 - 719
  11/01/2001 Authors: Li Y; Kandasamy MK; Meagher RB
• [Genetical effect of different rye chromosomes on the acid phosphatase (Acph) secretion of common wheat roots under phosphorus starvation conditions].
  Yi Chuan Xue Bao Volume: 27 Page(s): 39 - 43
  01/01/2000 Authors: Liu JZ; Li YJ; Li B; Yao SJ; Li JY; Li ZS