Publications
119. Guo L, Hong T, Lee YT, Hu X, Pan G, Zhao R, Yang Y, Yang J, Cai X, Rivera L, Liang J, Wang R, Dou Y, Kodali S, Li W, Han L, Stefano BD, Zhou Y, Li J, Huang Y. Perturbation of TET2 condensation promotes genome-wide promiscuous DNA hypomethylation to curtail leukemia cell growth. Nature Cell Biology. 2024. doi: 10.1038/s41556-024-01496-7. (PMID: 39251719)
118. Yang Y, Rivera L, Fang S, Cavalier M, Suris A, Zhou Y, Huang Y. Maternal high-fat diet alters Tet-mediated epigenetic regulation during heart development. iScience. 2024 Volume 27, Issue 9110631 (PMID: 39262804)
117. Dou Y, Zhang Y, Rivera L, Hong T, Fang S, Tran T, Zhou Y, Martin J, Huang Y. Inhibiting the cGAS-STING pathway in myeloid cells effectively improves myocardial healing related to TET2 deficiency-induced DNA damage response. Clinical and Translational Medicine. 2024, June 22, Volume 14, Issue 6. (PMC11193135)
116. Yang Y, Cavalier M, Suris A, Chen K, An C, Fan J, Rivera L, Fang S, Guo L, Zhou Y, Huang Y. Enhanced glucose metabolism in Tet-deficient mouse embryonic stem cells. Frontiers in Epigenetics and Epigenomics. Volume 2, 2024, doi.org/10.3389/freae.2024.1245823
2023
115. Hong T, Li J, Guo L, Cavalier M, Wang T, Dou Y, DeLaFuente A, Fang S, Guzman A, Wohlan K, Kapadia C, Rosas C, Yang Y, Yin C, Li S, You M, Cheng X, Goodell M, Zhou Y, Huang Y. TET2 modulates spatial relocalization of heterochromatin in aged hematopoietic stem and progenitor cells. Nature Aging 2023 Oct 26. doi: 10.1038/s43587-023-00505-y. (PMID: 37884767) (Highlighted by Nature Aging News&Views)
114. Dou Y, Liu S, Chen R, Li, YT, Jing J, Liu S, Zhou Y, and Huang Y. Optogenetic engineering of STING signaling to photo-tune anti-tumor immunity. Nature Communications 2023 Sep 6;14(1):5461. doi: 10.1038/s41467-023-41164-2. (PMID: 37673917)
113. Wang W, Xie X, Zhuang X, Huang Y, Tan T, Gangal H, Huang Z, Purvines W, Wang X, Stefanov A, Chen R, Rodriggs L, Chaiprasert A, Yu E, Vierkant V, Hook M, Huang Y, Darcq E, Wang J. Striatal μ-opioid receptor activation triggers direct-pathway GABAergic plasticity and induces negative affect. Cell Reports. 2023 Feb 7;112089. doi: 10.1016/j.celrep.2023.112089. (PMID: 36796365)
112. Ren R, Horton JR, Chen Q, Yang J, Liu B, Huang Y, Blumenthal RM, Zhang X, Cheng X. Structural basis for transcription factor ZBTB7A recognition of DNA and effects of ZBTB7A somatic mutations that occur in human acute myeloid leukemia. J Biol Chem. 2023 Jan 7:102885. doi: 10.1016/j.jbc.2023.102885. (PMID: 36626981)
111. Huang K, Liu L, Huang Y, Wang Y, Zhou Y, and Han G. Remote control of cellular immunotherapy. Nature Reviews Bioengineering. 2023,1:440–55.
114. Dou Y, Liu S, Chen R, Li, YT, Jing J, Liu S, Zhou Y, and Huang Y. Optogenetic engineering of STING signaling to photo-tune anti-tumor immunity. Nature Communications 2023 Sep 6;14(1):5461. doi: 10.1038/s41467-023-41164-2. (PMID: 37673917)
113. Wang W, Xie X, Zhuang X, Huang Y, Tan T, Gangal H, Huang Z, Purvines W, Wang X, Stefanov A, Chen R, Rodriggs L, Chaiprasert A, Yu E, Vierkant V, Hook M, Huang Y, Darcq E, Wang J. Striatal μ-opioid receptor activation triggers direct-pathway GABAergic plasticity and induces negative affect. Cell Reports. 2023 Feb 7;112089. doi: 10.1016/j.celrep.2023.112089. (PMID: 36796365)
112. Ren R, Horton JR, Chen Q, Yang J, Liu B, Huang Y, Blumenthal RM, Zhang X, Cheng X. Structural basis for transcription factor ZBTB7A recognition of DNA and effects of ZBTB7A somatic mutations that occur in human acute myeloid leukemia. J Biol Chem. 2023 Jan 7:102885. doi: 10.1016/j.jbc.2023.102885. (PMID: 36626981)
111. Huang K, Liu L, Huang Y, Wang Y, Zhou Y, and Han G. Remote control of cellular immunotherapy. Nature Reviews Bioengineering. 2023,1:440–55.
2022
110. Zhao S, Li J, Zhang H, Qi L, Du Y, Kogiso M, Braun F, Xiao S, Huang Y, Li J, Teo W, Lindsay H, Baxter P, Su J, Adesina A, Laczik M, Genevini P, Veillard A, Schvartzman S, Berguet G, Ding S, Du L, Stephan C, Yang J, Davies P, Lu X, Chintagumpala M, Parsons D, Perlaky L, Xia Y, Man T, Huang Y, Sun D, Li X. Epigenetic Alterations of Repeated Relapses in Patient-matched Childhood Ependymomas. Nature Communications. 2022 Nov 5;13(1):6689.
109. Lan TH, He L, Huang Y#, Zhou Y#. Optogenetics for transcriptional programming and genetic engineering. Trends in Genetics. 2022,38(12);1253-70. (Cover story)
108. Li J, Wu X, Ke J, Lee M, Lan Q, Li J, Yu J, Huang Y, Sun DQ, Xie R. TET1 dioxygenase is required for FOXA2-associated chromatin remodeling in pancreatic beta-cell differentiation. Nature Communications. 2022 Jul 7;13(1):3907.
107. Tan P, Hong T, Cai X, Li W, Huang Y, He L, Zhou Y. Optical control of protein delivery and partitioning in the nucleolus. Nucleic Acids Research. 2022,50(12):e69.
106. Li J, Hong T, Wei Y, Guo L, Lee M, Yang H, Class C, Yang Y, Wang X, He H, Siwko S, You JM, Zhou Y, Garcia-Manero G, Huang Y#. Aberrant DNA hydroxymethylation reshapes transcription factor binding in myeloid neoplasms. Clinical Epigenetics, 2022 Jun 28;14(1):81.
105. Gu T, Hao D, Woo J, Huang TW, Guo L, Lin X, Guzman AG, Tovy A, Rosas C, Jeong M, Zhou Y, Deneen B, Huang Y, Li W, Goodell MA. The disordered N-terminal domain of DNMT3A recognizes H2AK119ub and is required for postnatal development. Nature Genetics. 2022 May;54(5):625-636.
104. Wang T, Liu S, Huang Y, Zhou Y. Red-shifted optogenetics comes to the spotlight. Clinical and Translational Medicine. 2022 Apr;12(4):e807.
103. Xie J, Ma G, Zhou L, He L, Zhang Z, Tan P, Huang Z, Fang S, Wang T, Lee YT, Wen S, Siwko S, Wang L, Liu J, Du Y, Zhang N, Liu X, Han L, Huang Y, Wang R, Wang Y, Zhou Y, Han W. Identification of a STIM1 Splicing Variant that Promotes Glioblastoma Growth. Advanced Science, 2022,e2103940. (Cover story)
102.Tan P, He L, Huang Y#, Zhou Y#. Optophysiology: Illuminating cell physiology with optogenetics. Physiological Reviews. 2022,102(3):1263-1325. (Cover story)
109. Lan TH, He L, Huang Y#, Zhou Y#. Optogenetics for transcriptional programming and genetic engineering. Trends in Genetics. 2022,38(12);1253-70. (Cover story)
108. Li J, Wu X, Ke J, Lee M, Lan Q, Li J, Yu J, Huang Y, Sun DQ, Xie R. TET1 dioxygenase is required for FOXA2-associated chromatin remodeling in pancreatic beta-cell differentiation. Nature Communications. 2022 Jul 7;13(1):3907.
107. Tan P, Hong T, Cai X, Li W, Huang Y, He L, Zhou Y. Optical control of protein delivery and partitioning in the nucleolus. Nucleic Acids Research. 2022,50(12):e69.
106. Li J, Hong T, Wei Y, Guo L, Lee M, Yang H, Class C, Yang Y, Wang X, He H, Siwko S, You JM, Zhou Y, Garcia-Manero G, Huang Y#. Aberrant DNA hydroxymethylation reshapes transcription factor binding in myeloid neoplasms. Clinical Epigenetics, 2022 Jun 28;14(1):81.
105. Gu T, Hao D, Woo J, Huang TW, Guo L, Lin X, Guzman AG, Tovy A, Rosas C, Jeong M, Zhou Y, Deneen B, Huang Y, Li W, Goodell MA. The disordered N-terminal domain of DNMT3A recognizes H2AK119ub and is required for postnatal development. Nature Genetics. 2022 May;54(5):625-636.
104. Wang T, Liu S, Huang Y, Zhou Y. Red-shifted optogenetics comes to the spotlight. Clinical and Translational Medicine. 2022 Apr;12(4):e807.
103. Xie J, Ma G, Zhou L, He L, Zhang Z, Tan P, Huang Z, Fang S, Wang T, Lee YT, Wen S, Siwko S, Wang L, Liu J, Du Y, Zhang N, Liu X, Han L, Huang Y, Wang R, Wang Y, Zhou Y, Han W. Identification of a STIM1 Splicing Variant that Promotes Glioblastoma Growth. Advanced Science, 2022,e2103940. (Cover story)
102.Tan P, He L, Huang Y#, Zhou Y#. Optophysiology: Illuminating cell physiology with optogenetics. Physiological Reviews. 2022,102(3):1263-1325. (Cover story)
2021
101. Jing Y, Liu Y, Li Q, Ye Y, Diao L, Huang Y, Zhou Y, Green M, Mills G, Han L. Expression of chimeric antigen receptor therapy targets detected by single-cell sequencing of normal cells may contribute to off-tumor toxicity. Cancer Cell, 2021,39(12):1558-1559.
100. Nguyen NT, Huang K, Zeng H, Jing J, Wang R, Fang S, Chen J, Liu X, Huang Z, You J, Rao A, Huang Y#, Han G#, Zhou Y#. Nano-optogenetic engineering of CAR T cells for precision immunotherapy with enhanced safety. Nature Nanotechnology, 2021,16(12):1424-1434.
99. Fang S, Cui D, Hong T, Guo L, Lee Y, Lee M, Isgandarova S, Martinez-Moczygemba M, Zhou Y, Li J, Huang Y#. TET ablation impairs cardiac differentiation of mouse embryonic stem cells. Stem Cells. 2022 Mar 31;40(3):260-272.
98. He L, Tan P, Huang Y, Zhou Y. Design of Smart Antibody Mimetics with Photosensitive Switches. Advanced Biology. 2021,5(5): e2000541.
97. Chen YS, Li J, Menon R, Jayarmaman A, Lee K, Huang Y, Dashwood WM, Zhang K, Sun D, Dashwood RH. Dietary spinach reshapes the gut microbiome in an Apc-mutant genetic background: mechanistic insights from integrated multi-omics. Gut Microbes. 2021;13(1):1972756.
96. Yang J, Horton JR, Akdemir KC, Li J, Huang Y, Kumar J, Blumenthal RM, Zhang X, Cheng X. Preferential CEBP binding to T:G mismatches and increased C-to-T human somatic mutations. Nucleic Acids Research. 2021,49(9):5084-5094.
95. Huang Y, Chen C, Sundaramurthy V, Słabicki M, Hao D, Watson C, Tovy A, Reyes J, Dakhova O, Crovetti B, Galonska C, Lee M, Brunettil, Zhou Y, Tatton-Brown K, Huang Y, Cheng X, Meissner A, Valk P, Maldergem LV, Sanders M, Blundell J, Li W, Ebert BL, Goodell MA. Systematic profiling of DNMT3A variants reveals protein instability mediated by the DCAF8 E3 ubiquitin ligase adaptor. Cancer Discovery. 2021, 12(1):220-235.
94. McCauley BS, Sun L, Yu R, Lee M, Liu H, Leeman D, Huang Y, Webb AE, Dang W. Altered Chromatin States Drive Cryptic Transcription in Aging Mammalian Stem Cells. Nature Aging. 2021, 1(8):684-697.
93. He L, Tan P, Zhu L, Huang K, Nguyen N, Wang R, Guo L, Li J, Yang Y, Huang Z, Huang Y#, Han G#, Wang J#, Zhou Y#. Circularly permutated LOV2 as a modular photoswitch for optogenetic engineering. Nature Chemical Biology. 2021,17(8):915-923.
92. Lee M, Li J, Fang S, Zhang J, Vo A, Han W, Zeng H, Isgandarova S, Martinez-Moczygemba M, Sun D, Li J, Zhou Y, Huang Y#. Tet2 inactivation enhances the anti-tumor activity of tumor-infiltrating lymphocytes. Cancer Research. 2021, 81(8):1965-1976.
91. He L, Wang L, Zeng H, Tan P, Ma G, Zheng S, Li Y, Sun L, Dou F, Siwko S, Huang Y#, Wang Y#, Zhou Y#. Engineering of a bona fide light-operated calcium channel. Nature Communications. 2021,12(1):164.
90. Guo L, Lee Y, Zhou Y, Huang Y#. Targeting epigenetic regulatory machinery to overcome cancer therapy resistance. Seminars in Cancer Biology 2022,83:487-502. (Cover story)
100. Nguyen NT, Huang K, Zeng H, Jing J, Wang R, Fang S, Chen J, Liu X, Huang Z, You J, Rao A, Huang Y#, Han G#, Zhou Y#. Nano-optogenetic engineering of CAR T cells for precision immunotherapy with enhanced safety. Nature Nanotechnology, 2021,16(12):1424-1434.
99. Fang S, Cui D, Hong T, Guo L, Lee Y, Lee M, Isgandarova S, Martinez-Moczygemba M, Zhou Y, Li J, Huang Y#. TET ablation impairs cardiac differentiation of mouse embryonic stem cells. Stem Cells. 2022 Mar 31;40(3):260-272.
98. He L, Tan P, Huang Y, Zhou Y. Design of Smart Antibody Mimetics with Photosensitive Switches. Advanced Biology. 2021,5(5): e2000541.
97. Chen YS, Li J, Menon R, Jayarmaman A, Lee K, Huang Y, Dashwood WM, Zhang K, Sun D, Dashwood RH. Dietary spinach reshapes the gut microbiome in an Apc-mutant genetic background: mechanistic insights from integrated multi-omics. Gut Microbes. 2021;13(1):1972756.
96. Yang J, Horton JR, Akdemir KC, Li J, Huang Y, Kumar J, Blumenthal RM, Zhang X, Cheng X. Preferential CEBP binding to T:G mismatches and increased C-to-T human somatic mutations. Nucleic Acids Research. 2021,49(9):5084-5094.
95. Huang Y, Chen C, Sundaramurthy V, Słabicki M, Hao D, Watson C, Tovy A, Reyes J, Dakhova O, Crovetti B, Galonska C, Lee M, Brunettil, Zhou Y, Tatton-Brown K, Huang Y, Cheng X, Meissner A, Valk P, Maldergem LV, Sanders M, Blundell J, Li W, Ebert BL, Goodell MA. Systematic profiling of DNMT3A variants reveals protein instability mediated by the DCAF8 E3 ubiquitin ligase adaptor. Cancer Discovery. 2021, 12(1):220-235.
94. McCauley BS, Sun L, Yu R, Lee M, Liu H, Leeman D, Huang Y, Webb AE, Dang W. Altered Chromatin States Drive Cryptic Transcription in Aging Mammalian Stem Cells. Nature Aging. 2021, 1(8):684-697.
93. He L, Tan P, Zhu L, Huang K, Nguyen N, Wang R, Guo L, Li J, Yang Y, Huang Z, Huang Y#, Han G#, Wang J#, Zhou Y#. Circularly permutated LOV2 as a modular photoswitch for optogenetic engineering. Nature Chemical Biology. 2021,17(8):915-923.
92. Lee M, Li J, Fang S, Zhang J, Vo A, Han W, Zeng H, Isgandarova S, Martinez-Moczygemba M, Sun D, Li J, Zhou Y, Huang Y#. Tet2 inactivation enhances the anti-tumor activity of tumor-infiltrating lymphocytes. Cancer Research. 2021, 81(8):1965-1976.
91. He L, Wang L, Zeng H, Tan P, Ma G, Zheng S, Li Y, Sun L, Dou F, Siwko S, Huang Y#, Wang Y#, Zhou Y#. Engineering of a bona fide light-operated calcium channel. Nature Communications. 2021,12(1):164.
90. Guo L, Lee Y, Zhou Y, Huang Y#. Targeting epigenetic regulatory machinery to overcome cancer therapy resistance. Seminars in Cancer Biology 2022,83:487-502. (Cover story)
2020
89. Yin Y, Li J, Li J, Lee M, Zhao S, Guo L, Li J, Zhang M, Huang Y, Li X, Deng Z, Sun D. LiBis: an ultrasensitive alignment augmentation for low-input bisulfite sequencing. Briefings in Bioinformatics 2020,bbaa332.
88. Wang T, He L, Lan T, Hong T, Wang F, Huang Y#, Ma G#, Zhou Y#. Caffeine‐Operated Synthetic Modules for Chemogenetic Control of Protein Activities by Lifestyle. Advanced Science 2020,8(3):2002148. (Cover story)
87. Reilly BM, Luger T, Park S, Liu C, Gonzalez-Avalos E, Wheeler EC, Lee M, Williamson L, Tanaka T, Diep D, Zhang K, Huang Y, Rao A, Bejar R. 5-Azacytidine Transiently Restores Dysregulated Erythroid Differentiation Gene Expression in TET2-Deficient Erythroleukemia Cells. Molecular Cancer Ressearch 2020,19(3):451-464.
86. Li J, Zhao S, Lee M, Yin Y, Li J, Zhou Y, Ballester L, Esquenazi Y, Dashwood R, Davis P, Parson W, Li X#, Huang Y#, Sun D#. Reliable tumor detection by whole-genome methylation sequencing of cell-free DNA in cerebrospinal fluid of pediatric medulloblastoma. Science Advances. 2020,6(42):eabb5427.
85. Chen R, Jing J, Swwko S, Huang Y#, Zhou Y#. Intelligent cell-based therapies for cancer and autoimmune disorders. Current Opinions in Biotechnology. 2020,66:207-216.
84. Kumar J, Kaur G, Ren R, Lu Y, Lin K, Li J, Huang Y, Patel A, Barton MC, Macfarlan T, Zhang X, Cheng X. KRAB domain of ZFP568 disrupts TRIM28-mediated abnormal interactions in cancer cells. NAR Cancer. 2020,2(2):zcaa007.
83. Ma G, He L, Liu S, Xie J, Huang Z, Jing J, Lee Y, Wang R, Luo H, Han W, Huang Y#, Zhou Y#. Optogenetic engineering to probe the molecular choreography of STIM1-mediated cell signaling. Nature Communications. 2020, 11(1):1039.
82. Guo L, Li J, Zeng H, Guzman A, Li T, Lee M, Zhou Y, Goodell M, Stephan C, Davies P, Dawson M, Sun D, Huang Y#. A combination strategy targeting enhancer plasticity exerts synergistic lethality against BETi-resistant leukemia cells. Nature Communications. 2020,11(1):740.
81. Haruehanroengra P, Zheng YY, Zhou Y, Huang Y#, Sheng J#. RNA Modifications and Cancer. RNA Biology. 2020,17(11):1560-1575.
80. Zhang X, Wang X, Wang XQD, Su J, Putluri N, Zhou T, Qu Y, Jeong M, Guzman A, Rosas C, Huang Y, Sreekumar A, Li W, Goodell M. Dnmt3a loss and Idh2 neomorphic mutations mutually potentiate malignant hematopoiesis. Blood, 2020,135(11):845-856.
79. Nakayama N, Pothiawala A, Lee JY, Matthias N, Umeda K, Ang BK, Huard J, Huang Y, Sun D. Human pluripotent stem cell-derived chondroprogenitors for cartilage tissue engineering. Cellular and Molecular Life Science. 2020,77(13):2543-2563.
78. Chen Y, Chen Y, Zhang J, Cao P, Su W, Deng Y, Zhan N, Fu X, Huang Y, Dong W. Fusobacterium nucleatum Promotes Metastasis in Colorectal Cancer by Activating Autophagy Signaling via the Upregulation of CARD3 Expression. Theranostics. 2020,10(1):323-339.
77. King K, Huang Y, Nakada D, Goodell M. Environmental Influences on Clonal Hematopoiesis. Experimental Hematology, 2020,83:66-73.
88. Wang T, He L, Lan T, Hong T, Wang F, Huang Y#, Ma G#, Zhou Y#. Caffeine‐Operated Synthetic Modules for Chemogenetic Control of Protein Activities by Lifestyle. Advanced Science 2020,8(3):2002148. (Cover story)
87. Reilly BM, Luger T, Park S, Liu C, Gonzalez-Avalos E, Wheeler EC, Lee M, Williamson L, Tanaka T, Diep D, Zhang K, Huang Y, Rao A, Bejar R. 5-Azacytidine Transiently Restores Dysregulated Erythroid Differentiation Gene Expression in TET2-Deficient Erythroleukemia Cells. Molecular Cancer Ressearch 2020,19(3):451-464.
86. Li J, Zhao S, Lee M, Yin Y, Li J, Zhou Y, Ballester L, Esquenazi Y, Dashwood R, Davis P, Parson W, Li X#, Huang Y#, Sun D#. Reliable tumor detection by whole-genome methylation sequencing of cell-free DNA in cerebrospinal fluid of pediatric medulloblastoma. Science Advances. 2020,6(42):eabb5427.
85. Chen R, Jing J, Swwko S, Huang Y#, Zhou Y#. Intelligent cell-based therapies for cancer and autoimmune disorders. Current Opinions in Biotechnology. 2020,66:207-216.
84. Kumar J, Kaur G, Ren R, Lu Y, Lin K, Li J, Huang Y, Patel A, Barton MC, Macfarlan T, Zhang X, Cheng X. KRAB domain of ZFP568 disrupts TRIM28-mediated abnormal interactions in cancer cells. NAR Cancer. 2020,2(2):zcaa007.
83. Ma G, He L, Liu S, Xie J, Huang Z, Jing J, Lee Y, Wang R, Luo H, Han W, Huang Y#, Zhou Y#. Optogenetic engineering to probe the molecular choreography of STIM1-mediated cell signaling. Nature Communications. 2020, 11(1):1039.
82. Guo L, Li J, Zeng H, Guzman A, Li T, Lee M, Zhou Y, Goodell M, Stephan C, Davies P, Dawson M, Sun D, Huang Y#. A combination strategy targeting enhancer plasticity exerts synergistic lethality against BETi-resistant leukemia cells. Nature Communications. 2020,11(1):740.
81. Haruehanroengra P, Zheng YY, Zhou Y, Huang Y#, Sheng J#. RNA Modifications and Cancer. RNA Biology. 2020,17(11):1560-1575.
80. Zhang X, Wang X, Wang XQD, Su J, Putluri N, Zhou T, Qu Y, Jeong M, Guzman A, Rosas C, Huang Y, Sreekumar A, Li W, Goodell M. Dnmt3a loss and Idh2 neomorphic mutations mutually potentiate malignant hematopoiesis. Blood, 2020,135(11):845-856.
79. Nakayama N, Pothiawala A, Lee JY, Matthias N, Umeda K, Ang BK, Huard J, Huang Y, Sun D. Human pluripotent stem cell-derived chondroprogenitors for cartilage tissue engineering. Cellular and Molecular Life Science. 2020,77(13):2543-2563.
78. Chen Y, Chen Y, Zhang J, Cao P, Su W, Deng Y, Zhan N, Fu X, Huang Y, Dong W. Fusobacterium nucleatum Promotes Metastasis in Colorectal Cancer by Activating Autophagy Signaling via the Upregulation of CARD3 Expression. Theranostics. 2020,10(1):323-339.
77. King K, Huang Y, Nakada D, Goodell M. Environmental Influences on Clonal Hematopoiesis. Experimental Hematology, 2020,83:66-73.
2019
76. Woodcock C, Yu D, Hajian T, Li J, Huang Y, Wu T, Vedadi M, Zhang X, Dai N, Correa I, Cheng X., Human MettL3-MettL14 complex is a sequence specific DNA adenine methyltransferase active on single-strand and unpaired DNA in vitro. Cell Discovery, 2019,5:63.
75. Zeng H, He H, Guo L, Li J, Lee M, Han W, Guzman A, Zang S, Zhou Y, Zhang X, Goodell M, King K, Sun D, Huang Y#. Antibiotic treatment ameliorates Ten-eleven Translocation 2 (TET2) loss-of-function associated hematological malignancies. Cancer Letters, 2019,467:1-8.
74. Fang S, Li J, Xiao Y, Lee M, Guo L, Han W, Li T, Hill M, Hong T, Mo W, Xu R, Zhang P, Wang F, Chang J, Zhou Y, Sun D, Martin J, Huang Y. Tet inactivation disrupts YY1 binding and long-range chromatin interactions during embryonic heart development. Nature Communications, 2019,10(1):4297.
73. Jing J, Liu G, Huang Y, Zhou Y., A molecular toolbox for interrogation of membrane contact sites. Journal of Physiology. 2019,598(9):1725-1739.
72. Yang J, Horton JR, Li J, Huang Y, Zhang X, Blumenthal RM, Cheng X., Structural basis for preferential binding of human TCF4 to DNA containing 5-carboxylcytosine. Nucleic Acids Research, 2019,47(16):8375-8387.
71. Liu T, Dong G, Xu F, Han B, Fang H, Huang Y, Zhou Y, Du L, Li M. Discovery of Turn-On Fluorescent Probes for Detecting Bcl-2 Protein. Analytical Chemistry. 2019,91(9):5722-5728.
70. Rajendran P, Johnson G, Li L, Chen YS, Dashwood M, Nguyen N, Ulusan A, Ertem F, Zhang M, Li J, Sun D, Huang Y, Wang S, Leung HC, Lieberman D, Beaver L, Ho E, Bedford M, Chang K, Vilar E, Dashwood R. Acetylation of CCAR2 Establishes a BET/BRD9 Acetyl Switch in Response to Combined Deacetylase and Bromodomain Inhibition. Cancer Research. 2019,79(5):918-927.
69. Liu Z, Li H, He L, Xiang Y, Tian C, Li C, Tan P, Jing J, Tian Y, Du L, Huang Y, Han L, Li M, Zhou Y. Discovery of Small-Molecule Inhibitors of the HSP90-Calcineurin-NFAT Pathway against Glioblastoma. Cell Chemical Biology. 2019,26(3):352-365.e7.
68. Zhang J, Tan P, Guo L, Gong J, Ma J, Li J, Lee M, Fang S, Johnson G, Sun D, Cao W, Dashwood R, Han L, Zhou Y, Dong W, Huang Y#. p53-dependent autophagic degradation of TET2 modulates cancer therapeutic resistance. Oncogene, 2019,38(11):1905-1919.
75. Zeng H, He H, Guo L, Li J, Lee M, Han W, Guzman A, Zang S, Zhou Y, Zhang X, Goodell M, King K, Sun D, Huang Y#. Antibiotic treatment ameliorates Ten-eleven Translocation 2 (TET2) loss-of-function associated hematological malignancies. Cancer Letters, 2019,467:1-8.
74. Fang S, Li J, Xiao Y, Lee M, Guo L, Han W, Li T, Hill M, Hong T, Mo W, Xu R, Zhang P, Wang F, Chang J, Zhou Y, Sun D, Martin J, Huang Y. Tet inactivation disrupts YY1 binding and long-range chromatin interactions during embryonic heart development. Nature Communications, 2019,10(1):4297.
73. Jing J, Liu G, Huang Y, Zhou Y., A molecular toolbox for interrogation of membrane contact sites. Journal of Physiology. 2019,598(9):1725-1739.
72. Yang J, Horton JR, Li J, Huang Y, Zhang X, Blumenthal RM, Cheng X., Structural basis for preferential binding of human TCF4 to DNA containing 5-carboxylcytosine. Nucleic Acids Research, 2019,47(16):8375-8387.
71. Liu T, Dong G, Xu F, Han B, Fang H, Huang Y, Zhou Y, Du L, Li M. Discovery of Turn-On Fluorescent Probes for Detecting Bcl-2 Protein. Analytical Chemistry. 2019,91(9):5722-5728.
70. Rajendran P, Johnson G, Li L, Chen YS, Dashwood M, Nguyen N, Ulusan A, Ertem F, Zhang M, Li J, Sun D, Huang Y, Wang S, Leung HC, Lieberman D, Beaver L, Ho E, Bedford M, Chang K, Vilar E, Dashwood R. Acetylation of CCAR2 Establishes a BET/BRD9 Acetyl Switch in Response to Combined Deacetylase and Bromodomain Inhibition. Cancer Research. 2019,79(5):918-927.
69. Liu Z, Li H, He L, Xiang Y, Tian C, Li C, Tan P, Jing J, Tian Y, Du L, Huang Y, Han L, Li M, Zhou Y. Discovery of Small-Molecule Inhibitors of the HSP90-Calcineurin-NFAT Pathway against Glioblastoma. Cell Chemical Biology. 2019,26(3):352-365.e7.
68. Zhang J, Tan P, Guo L, Gong J, Ma J, Li J, Lee M, Fang S, Johnson G, Sun D, Cao W, Dashwood R, Han L, Zhou Y, Dong W, Huang Y#. p53-dependent autophagic degradation of TET2 modulates cancer therapeutic resistance. Oncogene, 2019,38(11):1905-1919.
2018
67. Yang J, Horton JR, Wang D, Ren R, Li J, Sun D, Huang Y, Zhang X, Blumenthal RM, Cheng X. Structural basis for effects of CpA modifications on C/EBPβ binding of DNA. Nucleic Acids Research, 2018 Dec 19. doi: 10.1093/nar/gky1264.
66. Zheng S, Ma G, He L, Zhang T, Li J, Yuan X, Nguyen NT, Huang Y, Zhang X, Gao P, Nwokonko R, Gill DL, Dong H, Zhou Y, Wang Y. Identification of molecular determinants that govern distinct STIM2 activation dynamics. PLOS Biology, 2018,16(11):e2006898.
65. Nguyen NT, Han W, Cao W, Wang Y, Wen S, Huang Y, Li M, Du L and Zhou Y. Store-operated calcium entry mediated by ORAI and STIM. Comprehensive Physiology. 2018,8(3):981-1002.
64. Nguyen NT, He L, Moczygemba M, Huang Y#, Zhou Y#. Rewiring calcium signaling for precise transcriptional programming. ACS Synthetic Biology. 2018,7(3):814-21.
63. Ma G, Zhang Q, He L, Liu S, Huang Y#, Zhou Y#. Genetically encoded tags for real time dissection of protein assembly in living cells. Chemical Science. 2018,9:5551-5.
62. Nguyen NT, Ma G, Lin E, D’Souza B, Jing J, He L, Huang Y, Zhou Y. CRAC channel-based optogenetics. Cell Calcium. 2018,75:79-88.
61. Gu T, Lin X, Cullen S, Luo M, Jeong M, Estecio M, Shen J, Hardikar S, Sun D, Su J, Rux D, Guzman A, Lee M, Qi L, Chen J, Kyba M, Huang Y, Chen T, Li W, Goodell M. DNMT3A and TET1 cooperate to regulate promoter epigenetic landscapes in mouse embryonic stem cells. Genome Biology, 2018,19(1):88.
60. Lee J, Matthias N, Pothiawala A, Ang B, Lee M, Li J, Sun D, Yan Q, Pigeot S, Martin I, Huard J, Huang Y, Nakayama N. Pre-transplantational control of the post-transplantational fate of human pluripotent stem cell-derived cartilage. Stem Cell Reports. 2018,11(2):440-453.
59. Liu J, Chen G, Liu Z, Liu S, Cai Z, You P, Ke Y, Lai L, Huang Y, Cao H, Zhao L, Pelicano H, Huang P, McKeehan W, Wu C, Wang C, Zhong W, Wang F. Aberrant FGFR tyrosine kinase signaling enhances the Warburg effect by reprogramming LDH isoform expression and activity in prostate cancer. Cancer Research. 2018,78(16):4459-4470.
58. Zheng S, Zhou L, Ma G, Zhang T, Liu J, Li J, Nguyen NT, Zhang X, Li W, Nwokonko R, Zhou Y, Zhao F, Liu J, Huang Y, Gill DL, Wang Y. Calcium store refilling and STIM activation in STIM- and Orai-deficient cell lines. Pflugers Arch. 2018,470(10):1555-1567.
57. Zhou Y, Ma G, Liu J, Ke Y, Liu X, Li M, Wang F, Han G, Huang Y, Wang Y. Optogenetic Control of Voltage Gated Calcium Channels. Angewandte Chemie International Edition. 2018,57(24):7019-7022. (Cover story)
56. Zhang P, Xiao Z, Wang S, Zhang M, Wei Y, Hang Q, Kim J, Yao F, Rodriguez-Aguayo C, Ton BN, Lee M, Wang Y, Zhou Z, Zeng L, Hu X, Lawhon SE, Siverly AN, Su X, Li J, Xie X, Cheng X, Liu L, Chang HW, Chiang SF, Lopez-Berestein G, Sood AK, Chen J, You JM, Sun SC, Liang H, Huang Y, Yang X, Sun D, Sun Y, Hung MC, and Ma L. ZRANB1 Is an EZH2 Deubiquitinase and a Potential Therapeutic Target in Breast Cancer. Cell Reports. 2018,23(3):823-837.
55. Li J, Wu X, Zhou Y, Lee M, Guo L, Han W, Mo W, Cao WM, Sun D, Xie R, Huang Y. Decoding the dynamic DNA methylation and hydroxymethylation landscapes in endodermal lineage intermediates during pancreatic differentiation of hESC. Nucleic Acids Research. 2018, 46(6):2883-2900.
54. Lin Y, Gao Y, Ma Z, Jiang T, Zhou X, Li Z, Qin X, Huang Y, Du L, Li M. Bioluminescence probe for γ-glutamyl transpeptidase detection in vivo. Bioorganic & Medicinal Chemistry. 2018,26(1):134-140.
66. Zheng S, Ma G, He L, Zhang T, Li J, Yuan X, Nguyen NT, Huang Y, Zhang X, Gao P, Nwokonko R, Gill DL, Dong H, Zhou Y, Wang Y. Identification of molecular determinants that govern distinct STIM2 activation dynamics. PLOS Biology, 2018,16(11):e2006898.
65. Nguyen NT, Han W, Cao W, Wang Y, Wen S, Huang Y, Li M, Du L and Zhou Y. Store-operated calcium entry mediated by ORAI and STIM. Comprehensive Physiology. 2018,8(3):981-1002.
64. Nguyen NT, He L, Moczygemba M, Huang Y#, Zhou Y#. Rewiring calcium signaling for precise transcriptional programming. ACS Synthetic Biology. 2018,7(3):814-21.
63. Ma G, Zhang Q, He L, Liu S, Huang Y#, Zhou Y#. Genetically encoded tags for real time dissection of protein assembly in living cells. Chemical Science. 2018,9:5551-5.
62. Nguyen NT, Ma G, Lin E, D’Souza B, Jing J, He L, Huang Y, Zhou Y. CRAC channel-based optogenetics. Cell Calcium. 2018,75:79-88.
61. Gu T, Lin X, Cullen S, Luo M, Jeong M, Estecio M, Shen J, Hardikar S, Sun D, Su J, Rux D, Guzman A, Lee M, Qi L, Chen J, Kyba M, Huang Y, Chen T, Li W, Goodell M. DNMT3A and TET1 cooperate to regulate promoter epigenetic landscapes in mouse embryonic stem cells. Genome Biology, 2018,19(1):88.
60. Lee J, Matthias N, Pothiawala A, Ang B, Lee M, Li J, Sun D, Yan Q, Pigeot S, Martin I, Huard J, Huang Y, Nakayama N. Pre-transplantational control of the post-transplantational fate of human pluripotent stem cell-derived cartilage. Stem Cell Reports. 2018,11(2):440-453.
59. Liu J, Chen G, Liu Z, Liu S, Cai Z, You P, Ke Y, Lai L, Huang Y, Cao H, Zhao L, Pelicano H, Huang P, McKeehan W, Wu C, Wang C, Zhong W, Wang F. Aberrant FGFR tyrosine kinase signaling enhances the Warburg effect by reprogramming LDH isoform expression and activity in prostate cancer. Cancer Research. 2018,78(16):4459-4470.
58. Zheng S, Zhou L, Ma G, Zhang T, Liu J, Li J, Nguyen NT, Zhang X, Li W, Nwokonko R, Zhou Y, Zhao F, Liu J, Huang Y, Gill DL, Wang Y. Calcium store refilling and STIM activation in STIM- and Orai-deficient cell lines. Pflugers Arch. 2018,470(10):1555-1567.
57. Zhou Y, Ma G, Liu J, Ke Y, Liu X, Li M, Wang F, Han G, Huang Y, Wang Y. Optogenetic Control of Voltage Gated Calcium Channels. Angewandte Chemie International Edition. 2018,57(24):7019-7022. (Cover story)
56. Zhang P, Xiao Z, Wang S, Zhang M, Wei Y, Hang Q, Kim J, Yao F, Rodriguez-Aguayo C, Ton BN, Lee M, Wang Y, Zhou Z, Zeng L, Hu X, Lawhon SE, Siverly AN, Su X, Li J, Xie X, Cheng X, Liu L, Chang HW, Chiang SF, Lopez-Berestein G, Sood AK, Chen J, You JM, Sun SC, Liang H, Huang Y, Yang X, Sun D, Sun Y, Hung MC, and Ma L. ZRANB1 Is an EZH2 Deubiquitinase and a Potential Therapeutic Target in Breast Cancer. Cell Reports. 2018,23(3):823-837.
55. Li J, Wu X, Zhou Y, Lee M, Guo L, Han W, Mo W, Cao WM, Sun D, Xie R, Huang Y. Decoding the dynamic DNA methylation and hydroxymethylation landscapes in endodermal lineage intermediates during pancreatic differentiation of hESC. Nucleic Acids Research. 2018, 46(6):2883-2900.
54. Lin Y, Gao Y, Ma Z, Jiang T, Zhou X, Li Z, Qin X, Huang Y, Du L, Li M. Bioluminescence probe for γ-glutamyl transpeptidase detection in vivo. Bioorganic & Medicinal Chemistry. 2018,26(1):134-140.
2017
53. Lee M, Zhou Y, Huang Y. An Engineered Split-TET2 Enzyme for Chemical-inducible DNA Hydroxymethylation and Epigenetic Remodeling. Journal of Visualized Experiments. 2017,130:56858.
52. Yuan M, Ma X, Jiang T, Gao Y, Cui Y, Zhang C, Yang X, Huang Y, Du L, Yampolsky I, Li M. Prolonged bioluminescence imaging in living cells and mice using novel pro-substrates for Renilla luciferase. Organic and Biomolecular Chemistry. 2017,15(48):10238-10244. 51. Zang S, Li J, Yang H, Zeng H, Han W, Zhang J, Lee M, Moczygemba M, Isgandarova S, Yang Y, Zhou Y, Rao A, You MJ, Sun D, Huang Y. Mutations in 5-methylcytosine oxidase TET2 and RhoA cooperatively disrupt T cell homeostasis. Journal of Clinical Investigation. 2017,127(8):2998-3012.
50. He L, Jing J, Zhu L, Tan P, Ma G, Zhang Q, Nguyen NT, Wang J, Zhou Y, Huang Y#. Optical control of membrane tethering and interorganellar communication at nanoscales. Chemical Science. 2017,8(8):5275-5281.
49. Lee M, Li J, Liang Y, Ma G, Zhang J, He L, Liu Y, Li Q, Li M, Sun D, Zhou Y, Huang Y#. Engineered Split-TET2 Enzyme for Inducible Epigenetic Remodeling. Journal of the American Chemical Society. 2017, 139(13):4659-4662.
48. Huang A, Wu H, Iriyama T, Zhang Y, Sun K, Peng Z, Tang L, Lee M, Huang Y, Ni X, Kellems R, and Xia Y. Elevated Adenosine Induces Placental DNA Hypomethylation Independent of A2B Receptor Signaling in Preeclampsia. Hypertension. 2017,70(1):209-218.
47. Ma G, Wen S, He L, Huang Y, Wang Y, Zhou Y. Optogenetic toolkit for precise control of calcium signaling. Cell Calcium. 2017,64:36-46.
46. Basanta-Sanchez M, Wang R, Liu Z, Ye X, Agris P, Li M, Shi X, Agris P, Zhou Y, Huang Y# and Sheng J#. TET1-mediated oxidation of 5-formylcytosine (5fC) to 5-carboxycytosine (5caC) in RNA. ChemBioChem, 2017,18(1):72-76.
52. Yuan M, Ma X, Jiang T, Gao Y, Cui Y, Zhang C, Yang X, Huang Y, Du L, Yampolsky I, Li M. Prolonged bioluminescence imaging in living cells and mice using novel pro-substrates for Renilla luciferase. Organic and Biomolecular Chemistry. 2017,15(48):10238-10244. 51. Zang S, Li J, Yang H, Zeng H, Han W, Zhang J, Lee M, Moczygemba M, Isgandarova S, Yang Y, Zhou Y, Rao A, You MJ, Sun D, Huang Y. Mutations in 5-methylcytosine oxidase TET2 and RhoA cooperatively disrupt T cell homeostasis. Journal of Clinical Investigation. 2017,127(8):2998-3012.
50. He L, Jing J, Zhu L, Tan P, Ma G, Zhang Q, Nguyen NT, Wang J, Zhou Y, Huang Y#. Optical control of membrane tethering and interorganellar communication at nanoscales. Chemical Science. 2017,8(8):5275-5281.
49. Lee M, Li J, Liang Y, Ma G, Zhang J, He L, Liu Y, Li Q, Li M, Sun D, Zhou Y, Huang Y#. Engineered Split-TET2 Enzyme for Inducible Epigenetic Remodeling. Journal of the American Chemical Society. 2017, 139(13):4659-4662.
48. Huang A, Wu H, Iriyama T, Zhang Y, Sun K, Peng Z, Tang L, Lee M, Huang Y, Ni X, Kellems R, and Xia Y. Elevated Adenosine Induces Placental DNA Hypomethylation Independent of A2B Receptor Signaling in Preeclampsia. Hypertension. 2017,70(1):209-218.
47. Ma G, Wen S, He L, Huang Y, Wang Y, Zhou Y. Optogenetic toolkit for precise control of calcium signaling. Cell Calcium. 2017,64:36-46.
46. Basanta-Sanchez M, Wang R, Liu Z, Ye X, Agris P, Li M, Shi X, Agris P, Zhou Y, Huang Y# and Sheng J#. TET1-mediated oxidation of 5-formylcytosine (5fC) to 5-carboxycytosine (5caC) in RNA. ChemBioChem, 2017,18(1):72-76.
2016
45. Zhang X, Su J, Jeong M, Ko M, Huang Y, Park H, Guzman A, Lei Y, Huang Y, Rao A, Li W, Goodell M. DNMT3A and TET2 compete and cooperate to repress lineage-specific factors in hematopoietic stem cells. Nature Genetics, 2016,48(9):1014-23.
44. Aijo T, Huang Y, Mannerström H, Chavez L, Tsagaratou A, Rao A, Lähdesmäki H. A probabilistic generative model for quantification of DNA modifications enables analysis of demethylation pathways. Genome Biology. 2016,17(1):49.
43. Yue X, Trifari S, Aijo T, Tsagaratou A, Pastor WA, Zepeda-Martinez JA, Lio CJ, Li X, Huang Y, Vijayanand P, Lahdesmaki H, Rao A. Control of Foxp3 stability through modulation of TET activity. Journal of Experimental Medicine. 2016, 213(3):377-97.
44. Aijo T, Huang Y, Mannerström H, Chavez L, Tsagaratou A, Rao A, Lähdesmäki H. A probabilistic generative model for quantification of DNA modifications enables analysis of demethylation pathways. Genome Biology. 2016,17(1):49.
43. Yue X, Trifari S, Aijo T, Tsagaratou A, Pastor WA, Zepeda-Martinez JA, Lio CJ, Li X, Huang Y, Vijayanand P, Lahdesmaki H, Rao A. Control of Foxp3 stability through modulation of TET activity. Journal of Experimental Medicine. 2016, 213(3):377-97.
2015
42. He L, Zhang Y, Ma G, Tan P, Li Z, Zang S, Wu X, Jing J, Fang S, Zhou L, Wang Y, Huang Y, Hogan PG, Han G, Zhou Y. Near-infrared photoactivatable control of Ca(2+) signaling and optogenetic immunomodulation. eLife, 2015, 4:e10024.
41. Jing J, He L, Sun A, Quintana A, Ding Y, Ma G, Tan P, Liang X, Zheng X, Chen L, Shi X, Zhang SL, Zhong L, Huang Y, Dong MQ, Walker CL, Hogan PG, Wang Y, Zhou Y. Proteomic mapping of ER-PM junctions identifies STIMATE as a regulator of Ca2+ influx. Nature Cell Biology, 2015,17(10):1339-47.
41. Jing J, He L, Sun A, Quintana A, Ding Y, Ma G, Tan P, Liang X, Zheng X, Chen L, Shi X, Zhang SL, Zhong L, Huang Y, Dong MQ, Walker CL, Hogan PG, Wang Y, Zhou Y. Proteomic mapping of ER-PM junctions identifies STIMATE as a regulator of Ca2+ influx. Nature Cell Biology, 2015,17(10):1339-47.
2014 and earlier
40. Etchegaray JP, Chavez L*, Huang Y*, Ross KN, Choi J, Martinez-Pastor B, Walsh RM, Sommer CA, Lienhard M, Gladden A, Kugel S, Silberman DM, Ramaswamy S, Mostoslavsky G, Hochedlinger K, Goren A, Rao A, Mostoslavsky R. The histone deacetylase Sirt6 controls embryonic stem cell fate via Tet-mediated production of 5-hydroxymethylcytosine. Nature Cell Biology, 2015,17(5):545-57. (* equal contribution, PMID: 25915124).
39. Huang Y, Chavez L, Xing C, Wang X, Pastor WA, Kang J, Zepeda-Martínez JA, Pape UJ, Jacobsen SE, Peters B, Rao A. Distinct roles of the methylcytosine oxidases Tet1 and Tet2 in mouse embryonic stem cells. PNAS, 2014, 111(4):1361-6. (PMID: 24474761)
38．Chavez L*, Huang Y*, Luong K, Agarwal S, Iyer LM, Pastor WA, Hench VK, Frazier-Bowers SA, Korol E, Liu S, Tahiliani M, Wang Y, Clark TA, Korlach J, Pukkila PJ, Aravind L, Rao A. Simultaneous sequencing of oxidized methylcytosines produced by TET/JBP proteins in Coprinopsis cinerea. PNAS, 2014,111(48):E5149-58. (*equal contribution, PMID: 25406324)
37. Huang Y, Rao A. Connections between TET proteins and aberrant DNA modification in cancer. Trends in Genetics. 2014,30(10):464-74. (PMID: 25132561)
36. Tsagaratou A, Aijö T, Lio CW, Yue X, Huang Y, Jacobsen SE, Lähdesmäki H, Rao A.Dissecting the dynamic change of 5-hydroxy-methylcytosine in T-cell development and differentiation. PNAS. 2014,111(32):E3306-15. (PMID: 25071199)
35. Jeong M*, Sun D*, Luo M*, Huang Y, Challen GA, Rodriguez B, Zhang X, Chavez L, Wang H, Hannah R, Kim SB, Yang L, Ko M, Chen R, Göttgens B, Lee JS, Gunaratne P, Godley LA, Darlington GJ, Rao A, Li W, Goodell MA. Large conserved domains of low DNA methylation maintained by 5-hydroxymethyl-cytosine and Dnmt3a. Nature Genetics. 2014,46(1):17-23. (* equal contribution, PMID: 24270360)
34. Zhang C, Huang Y, Jiang Y, Mulpuri N, Wei L, Hamelberg D, Brown EM, Yang JJ. Identification of an L-phenylalanine binding site enhancing the cooperative responses of the calcium-sensing receptor to calcium. Journal of Biological Chemistry. 2014, 289(8):5296-309. (PMID: 24394414)
33. Cingolani P, Cao X, Khetani RS, Chen C, Coon M, Sammak A, Bollig-Fischer A, Land S, Huang Y, Hudson ME, Garfinkel MD, Zhong S, Robinson GE, Ruden DM. Intronic Non-CG DNA Hydroxymethylation and alternative mRNA splicing in honey bees. BMC Genomics. 2013,14:666. (PMID: 24079845) 32. Lister R, Mukamel EA, Nery JR, Urich M, Puddifoot CA, Johnson N, Lucero J, Huang Y, Dwork AJ, Schultz MD, Yu M, Tonti-Filippini J, Heyn H, Hu S, Wu JC, Rao A, Esteller M, He C, Haghighi FG, Sejnowski TJ, Behrens MM, Ecker JR. Global epigenomic reconfiguration during mammalian brain development. Science. 2013,341(6146):1237905. (PMID: 23828890) 30. Huang Y, Rao A. New functions for DNA modifications by TET-JBP. Nature Structural & Molecular Biology. 2012,19(11):1061-4. (PMID: 23132381) 31. Vincent JJ, Huang Y, Chen PY, Feng S, Calvopiña JH, Nee K, Lee SA, Le T, Yoon AJ, Faull K, Fan G, Rao A, Jacobsen SE, Pellegrini M, Clark AT. Stage-Specific Roles for Tet1 and Tet2 in DNA Demethylation in Primordial Germ Cells. Cell Stem Cell. 2013,12(4):470-8. (PMID: 23415914) 29. Huang Y, Pastor WA, Zepeda-Martinez A. J, Anjana Rao. The anti-CMS method for genome-wide mapping of 5-hydroxy methylcytosine. Nature Protocols. 2012,7(10):1909-17. (PMID: 23018194) 28. Pastor WA, Huang Y, Henderson, HR, Agarwal S, Anjana Rao. The GLIB method for mapping 5-hydroxymethylcytosine genome-wide. Nature Protocols. 2012,7(10):1897-908. (PMID: 23018193) 27. Jankowska AM, Makishima H, Tiu RV, Szpurka H, Huang Y, Traina F, Visconte V, Sugimoto Y, Prince C, O'Keefe C, Hsi ED, List A, Sekeres MA, Rao A, McDevitt MA, Maciejewski JP. Mutational spectrum analysis of chronic myelomonocytic leukemia includes genes associated with epigenetic regulation: UTX, EZH2, and DNMT3A. Blood. 2011,118(14):3932-41. (PMID: 21828135) 26. Tang S, Wong HC, Wang ZM, Huang Y, Zou J, Zhuo Y, Pennati A, Gadda G, Delbono O, Yang JJ. Design and application of a class of sensors to monitor Ca2+ dynamics in high Ca2+ concentration cellular compartments. PNAS 2011,108(39):16265-70. (PMID: 21914846) 25. Pastor WA*, Pape UJ*, Huang Y*, Henderson HR, Lister R, Ko M, McLoughlin EM, Brudno Y, Mahapatra S, Kapranov P, Tahiliani M, Daley GQ, Liu XS, Ecker JR, Milos PM, Agarwal S, Rao A. Genome-wide mapping of 5-hydroxymethylcytosine in embryonic stem cells. Nature. 2011,473(7347):394-7. (*equal contribution; PMID: 21552279) [cited over 800 times]
24. Koh KP, Yabuuchi A, Rao S, Huang Y, Cunniff K, Nardone J, Laiho A, Tahiliani M, Sommer CA, Mostoslavsky G, Lahesmaa R, Orkin SH, Rodig SJ, Daley GQ, Rao A. Tet1 and Tet2 regulate 5-hydroxymethylcytosine production and cell lineage specification in mouse embryonic stem cells. Cell Stem Cell. 2011, 8(2):200-13. (PMID: 21295276)
23. Ko M*, Huang Y*, Jankowska AM, Pape UJ, Tahiliani M, Bandukwala HS, An J, Lamperti ED, Koh KP, Ganetzky R, Liu XS, Aravind L, Agarwal S, Maciejewski JP, Rao A. Impaired hydroxylation of 5-methylcytosine in myeloid cancers with mutant TET2. Nature. 2010,468(7325):839-43. (*equal contribution) (PMID: 21057493) [cited over 1300 times] 22. Huang Y, Zhou Y, Wong HC, Castiblanco A, Chen Y, Brown EM, Yang JJ. Identification of Calmodulin binding domain within the C-terminal region of Ca2+-sensing receptor. Journal of Biological Chemistry. 2010,285(46):35919-31. (PMID: 20826781) 21. Jiang Y, Huang Y, Wong HC, Zhou Y, Wang X, Yang J, Hall RA, Brown EM, Yang JJ. Elucidation of a novel extracellular calcium-binding site on metabotropic glutamate receptor 1α that controls receptor activation. Journal of Biological Chemistry. 2010,285(43):33463-33474. (PMID: 20705606) 20. Huang Y, Pastor WA, Shen Y, Tahiliani M, Liu DR, Rao A. The behavior of 5-hydroxymethylcytosine in bisulfite sequencing. PLoS ONE. 2010, 5(1):e8888. (PMID: 20126651) [cited over 750 times] 19. Zhou Y, Tzeng WP, Wong HC, Ye Y, Jiang J, Chen Y, Huang Y, Suppiah S, Frey TK, Yang JJ. Calcium-dependent association of calmodulin with the rubella virus nonstructural protease domain. Journal of Biological Chemistry. 2010,285(12):8855-68. (PMID: 20086014) 18. Zhou Y, Meraner P, Kwon HT, Machnes D, Masatsugu OH, Zimmer J, Huang Y, Stura A, Rao A, Hogan PG. STIM1 gates the store-operated calcium channeld ORAI1 in vitro. Nature Structural &Molecular Biology. 2010, 17(1):112-6. (PMID: 20037597) 17. Wang H, Gao X, Huang Y, Yang J, Liu ZR. P68 RNA helicase is a nucleocytoplasmic shuttling protein. Cell Research. 2009,19(12):1388-400. (PMID: 19786986) 16. Huang Y, Zhou Y, Wong H, Chen Y, Chen Y, Wang S, Castiblanco A, Liu A, Yang JJ. Metal binding studies on an isolated EF-hand motif from STIM1. FEBS Journal, 2009,276(19):5589-97. (PMID: 19694801) 15. Chen N, Huang Y, Yang L, Liu R, Yang JJ. Designing caspase-3 sensors for imaging of apoptosis in living cells. Chemistry, 2009,15(37):9311-4. 14. Zhou Y, Yang W, Lurtz MM, Chen Y, Jiang J, Huang Y, Louis CF, Yang JJ. Calmodulin mediates the Ca2+-dependent regulation of Cx44 gap junctions. Biophysical Journal. 2009,96(7):2832-48. 13. Zhou Y, Tzeng WP, Ye Y, Huang Y, Li S, Chen Y, Frey TK, Yang JJ. A cysteine-rich metal-binding domain from rubella virus non-structural protein is essential for viral protease activity and virus replication. Biochemical Journal. 2009,417(2):477-83. 12. Huang Y, Zhou Y, Castiblanco A, Yang W, Brown EM, Yang JJ. Multiple Ca2+-binding sites in the extracellular domain of Ca2+-sensing receptor corresponding to cooperative Ca2+ responses. Biochemistry, 2009,48(2):388-98. (PMID: 19102677) 11. Chen N, Zou J, Wang S, Ye Y, Huang Y, Gadda G, Yang JJ. Designing protease sensors for real-time imaging of trypsin activation in pancreatic cancer cells. Biochemistry. 2009, 48(15):3519-26. 10. Zhou Y, Yang W, Lurtz MM, Ye Y, Huang Y, Lee HW, Chen Y, Louis CF, Yang JJ. Identification of the calmodulin binding domain of connexin43. Journal of Biological Chemistry. 2007, 282(48):35005-17. 9. Huang Y, Zhou Y, Yang W, Butters R, Lee HW, Li S, Castiblanco A, Brown EM, Yang JJ. Identification and dissection of Ca2+-binding sites in the extracellular domain of Ca2+-sensing receptor. Journal of Biological Chemistry. 2007, 282(26):19000-10. 8. Zou J, Hofer AM, Lurtz MM, Gadda G, Ellis AL, Chen N, Huang Y, Holder A, Ye Y, Louis CF, Welshhans K, Rehder V, Yang JJ. Developing Sensors for real-time measurement of high Ca2+ concentrations. Biochemistry. 2007, 46(43):12275-88. 7. Huang Y, Yang J, Shen J, Chen FF, Yu Y. Sphingolipids are involved in N-methyl-N'-nitro-N-nitrosoguanidine-induced epidermal growth factor receptor clustering. Biochem Biophys Res Commun. 2005, 330(2):430-8. 6. Gao Z, Yang J, Huang Y, Yu Y. N-methyl-N'-nitro-N-nitrosoguanidine interferes with the epidermal growth factor receptor-mediated signaling pathway. Mutat Res. 2005, 570(2):175-84. 5. Huang Y, Shen J, Wang T, et al. Lipidomic study of the effects of N-methyl-N'-nitro-N-nitrosoguanidine on sphingomyelin metabolism. Acta Biochim Biophys Sin. 2005,37(8):515-24. 4. Huang Y, Yu YN, Yang J. Current progress in study of sphingolipid. Journal of Zhejiang University, Medical Sciences. 2005, 34(4):375-9. 3. Yang J, Xu ZP, Huang Y, et al. ATM and ATR: sensing DNA damage. World Journal of Gastroenterology. 2004,10(2):155-60. 2. Huang Y, Ha X, Wu Z. Protective effects of adenovirus-mediated hepatocyte growth factor on injury of rat cortex neurons. Chin J Appl Physiol. 2004 1. Huang Y, Ha X, Wu Z. Reparative effect of hepatocyte growth factor on injured organs and tissues. Letters in Biotechnology. 2003
33. Cingolani P, Cao X, Khetani RS, Chen C, Coon M, Sammak A, Bollig-Fischer A, Land S, Huang Y, Hudson ME, Garfinkel MD, Zhong S, Robinson GE, Ruden DM. Intronic Non-CG DNA Hydroxymethylation and alternative mRNA splicing in honey bees. BMC Genomics. 2013,14:666. (PMID: 24079845) 32. Lister R, Mukamel EA, Nery JR, Urich M, Puddifoot CA, Johnson N, Lucero J, Huang Y, Dwork AJ, Schultz MD, Yu M, Tonti-Filippini J, Heyn H, Hu S, Wu JC, Rao A, Esteller M, He C, Haghighi FG, Sejnowski TJ, Behrens MM, Ecker JR. Global epigenomic reconfiguration during mammalian brain development. Science. 2013,341(6146):1237905. (PMID: 23828890) 30. Huang Y, Rao A. New functions for DNA modifications by TET-JBP. Nature Structural & Molecular Biology. 2012,19(11):1061-4. (PMID: 23132381) 31. Vincent JJ, Huang Y, Chen PY, Feng S, Calvopiña JH, Nee K, Lee SA, Le T, Yoon AJ, Faull K, Fan G, Rao A, Jacobsen SE, Pellegrini M, Clark AT. Stage-Specific Roles for Tet1 and Tet2 in DNA Demethylation in Primordial Germ Cells. Cell Stem Cell. 2013,12(4):470-8. (PMID: 23415914) 29. Huang Y, Pastor WA, Zepeda-Martinez A. J, Anjana Rao. The anti-CMS method for genome-wide mapping of 5-hydroxy methylcytosine. Nature Protocols. 2012,7(10):1909-17. (PMID: 23018194) 28. Pastor WA, Huang Y, Henderson, HR, Agarwal S, Anjana Rao. The GLIB method for mapping 5-hydroxymethylcytosine genome-wide. Nature Protocols. 2012,7(10):1897-908. (PMID: 23018193) 27. Jankowska AM, Makishima H, Tiu RV, Szpurka H, Huang Y, Traina F, Visconte V, Sugimoto Y, Prince C, O'Keefe C, Hsi ED, List A, Sekeres MA, Rao A, McDevitt MA, Maciejewski JP. Mutational spectrum analysis of chronic myelomonocytic leukemia includes genes associated with epigenetic regulation: UTX, EZH2, and DNMT3A. Blood. 2011,118(14):3932-41. (PMID: 21828135) 26. Tang S, Wong HC, Wang ZM, Huang Y, Zou J, Zhuo Y, Pennati A, Gadda G, Delbono O, Yang JJ. Design and application of a class of sensors to monitor Ca2+ dynamics in high Ca2+ concentration cellular compartments. PNAS 2011,108(39):16265-70. (PMID: 21914846) 25. Pastor WA*, Pape UJ*, Huang Y*, Henderson HR, Lister R, Ko M, McLoughlin EM, Brudno Y, Mahapatra S, Kapranov P, Tahiliani M, Daley GQ, Liu XS, Ecker JR, Milos PM, Agarwal S, Rao A. Genome-wide mapping of 5-hydroxymethylcytosine in embryonic stem cells. Nature. 2011,473(7347):394-7. (*equal contribution; PMID: 21552279) [cited over 800 times]
24. Koh KP, Yabuuchi A, Rao S, Huang Y, Cunniff K, Nardone J, Laiho A, Tahiliani M, Sommer CA, Mostoslavsky G, Lahesmaa R, Orkin SH, Rodig SJ, Daley GQ, Rao A. Tet1 and Tet2 regulate 5-hydroxymethylcytosine production and cell lineage specification in mouse embryonic stem cells. Cell Stem Cell. 2011, 8(2):200-13. (PMID: 21295276)
23. Ko M*, Huang Y*, Jankowska AM, Pape UJ, Tahiliani M, Bandukwala HS, An J, Lamperti ED, Koh KP, Ganetzky R, Liu XS, Aravind L, Agarwal S, Maciejewski JP, Rao A. Impaired hydroxylation of 5-methylcytosine in myeloid cancers with mutant TET2. Nature. 2010,468(7325):839-43. (*equal contribution) (PMID: 21057493) [cited over 1300 times] 22. Huang Y, Zhou Y, Wong HC, Castiblanco A, Chen Y, Brown EM, Yang JJ. Identification of Calmodulin binding domain within the C-terminal region of Ca2+-sensing receptor. Journal of Biological Chemistry. 2010,285(46):35919-31. (PMID: 20826781) 21. Jiang Y, Huang Y, Wong HC, Zhou Y, Wang X, Yang J, Hall RA, Brown EM, Yang JJ. Elucidation of a novel extracellular calcium-binding site on metabotropic glutamate receptor 1α that controls receptor activation. Journal of Biological Chemistry. 2010,285(43):33463-33474. (PMID: 20705606) 20. Huang Y, Pastor WA, Shen Y, Tahiliani M, Liu DR, Rao A. The behavior of 5-hydroxymethylcytosine in bisulfite sequencing. PLoS ONE. 2010, 5(1):e8888. (PMID: 20126651) [cited over 750 times] 19. Zhou Y, Tzeng WP, Wong HC, Ye Y, Jiang J, Chen Y, Huang Y, Suppiah S, Frey TK, Yang JJ. Calcium-dependent association of calmodulin with the rubella virus nonstructural protease domain. Journal of Biological Chemistry. 2010,285(12):8855-68. (PMID: 20086014) 18. Zhou Y, Meraner P, Kwon HT, Machnes D, Masatsugu OH, Zimmer J, Huang Y, Stura A, Rao A, Hogan PG. STIM1 gates the store-operated calcium channeld ORAI1 in vitro. Nature Structural &Molecular Biology. 2010, 17(1):112-6. (PMID: 20037597) 17. Wang H, Gao X, Huang Y, Yang J, Liu ZR. P68 RNA helicase is a nucleocytoplasmic shuttling protein. Cell Research. 2009,19(12):1388-400. (PMID: 19786986) 16. Huang Y, Zhou Y, Wong H, Chen Y, Chen Y, Wang S, Castiblanco A, Liu A, Yang JJ. Metal binding studies on an isolated EF-hand motif from STIM1. FEBS Journal, 2009,276(19):5589-97. (PMID: 19694801) 15. Chen N, Huang Y, Yang L, Liu R, Yang JJ. Designing caspase-3 sensors for imaging of apoptosis in living cells. Chemistry, 2009,15(37):9311-4. 14. Zhou Y, Yang W, Lurtz MM, Chen Y, Jiang J, Huang Y, Louis CF, Yang JJ. Calmodulin mediates the Ca2+-dependent regulation of Cx44 gap junctions. Biophysical Journal. 2009,96(7):2832-48. 13. Zhou Y, Tzeng WP, Ye Y, Huang Y, Li S, Chen Y, Frey TK, Yang JJ. A cysteine-rich metal-binding domain from rubella virus non-structural protein is essential for viral protease activity and virus replication. Biochemical Journal. 2009,417(2):477-83. 12. Huang Y, Zhou Y, Castiblanco A, Yang W, Brown EM, Yang JJ. Multiple Ca2+-binding sites in the extracellular domain of Ca2+-sensing receptor corresponding to cooperative Ca2+ responses. Biochemistry, 2009,48(2):388-98. (PMID: 19102677) 11. Chen N, Zou J, Wang S, Ye Y, Huang Y, Gadda G, Yang JJ. Designing protease sensors for real-time imaging of trypsin activation in pancreatic cancer cells. Biochemistry. 2009, 48(15):3519-26. 10. Zhou Y, Yang W, Lurtz MM, Ye Y, Huang Y, Lee HW, Chen Y, Louis CF, Yang JJ. Identification of the calmodulin binding domain of connexin43. Journal of Biological Chemistry. 2007, 282(48):35005-17. 9. Huang Y, Zhou Y, Yang W, Butters R, Lee HW, Li S, Castiblanco A, Brown EM, Yang JJ. Identification and dissection of Ca2+-binding sites in the extracellular domain of Ca2+-sensing receptor. Journal of Biological Chemistry. 2007, 282(26):19000-10. 8. Zou J, Hofer AM, Lurtz MM, Gadda G, Ellis AL, Chen N, Huang Y, Holder A, Ye Y, Louis CF, Welshhans K, Rehder V, Yang JJ. Developing Sensors for real-time measurement of high Ca2+ concentrations. Biochemistry. 2007, 46(43):12275-88. 7. Huang Y, Yang J, Shen J, Chen FF, Yu Y. Sphingolipids are involved in N-methyl-N'-nitro-N-nitrosoguanidine-induced epidermal growth factor receptor clustering. Biochem Biophys Res Commun. 2005, 330(2):430-8. 6. Gao Z, Yang J, Huang Y, Yu Y. N-methyl-N'-nitro-N-nitrosoguanidine interferes with the epidermal growth factor receptor-mediated signaling pathway. Mutat Res. 2005, 570(2):175-84. 5. Huang Y, Shen J, Wang T, et al. Lipidomic study of the effects of N-methyl-N'-nitro-N-nitrosoguanidine on sphingomyelin metabolism. Acta Biochim Biophys Sin. 2005,37(8):515-24. 4. Huang Y, Yu YN, Yang J. Current progress in study of sphingolipid. Journal of Zhejiang University, Medical Sciences. 2005, 34(4):375-9. 3. Yang J, Xu ZP, Huang Y, et al. ATM and ATR: sensing DNA damage. World Journal of Gastroenterology. 2004,10(2):155-60. 2. Huang Y, Ha X, Wu Z. Protective effects of adenovirus-mediated hepatocyte growth factor on injury of rat cortex neurons. Chin J Appl Physiol. 2004 1. Huang Y, Ha X, Wu Z. Reparative effect of hepatocyte growth factor on injured organs and tissues. Letters in Biotechnology. 2003
Book chapters
1. He L, Zhang Q, Zhou Y, Huang Y. (2017) Optogenetic approaches to control calcium entry in non-excitable cells. In: Calcium Entry Channels. Methods in Signal Transduction Series. CRC Press
2. Ma G, Wen S, Huang Y and Zhou Y. (2017) The STIM-Orai pathway: Light-operated calcium entry through engineered CRAC channels. Advances in Experimental Medicine and Biology. 993:117-38. (PMID: 28900912)
3. Ma G, Jing J, Tan P, Huang Y, and Zhou Y (2018). Engineered cross-linking to study the pore architecture of the CRAC channel. Methods Mol Biol. 2018, 1843:147-66. (PMID: 30203285)
Patent filing
Yang JJ, Zou J, Mitchem AL, Ye Y, Holder A, Huang Y, Yang W and Kirberger M. Analyate sensors, methods for preparing and using such sensors, and methods of detecting analyate activity. US Patent 9,201,012, 2015. Zhou Y, Huang Y, Nguyen NT, He L. Reprogramming cellular transcription. U.S. No. 62/735,968. Licensed to Refuge Biotech Inc. (03/2019)