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Yanghua He, PhD

TitleResearcher
Faculty RankAssistant Professor
InstitutionUniversity of Hawaii
DepartmentHuman Nutrition, Food and Animal Sciences
AddressCollege of Tropical Agriculture and Human Resources
University of Hawaii at Manoa
1955 East West Road
Honolulu HI
ORCID ORCID Icon0000-0001-6849-6493 Additional info
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    Collapse Biography 
    Collapse education and training
    China Agricultural University, Beijing, ChinaPh.D.06/2012Animal genomics and epigenomics
    University of Maryland, Maryland, USAPostdoc06/2017Functional genomics and epigenomics in animals
    St. Jude Children's Research Hospital, Tennessee, USAPostdoc06/2019Epigenetic editing in children's blood disorders

    Collapse Overview 
    Collapse overview
    The long-term objective of my research program is to study interactions between genetics and environments in animals and humans using genomic and epigenomic approaches to eventually better serve our life and improve the quality of our life. I was well-trained in Genomics and Epigenomics fields with the platforms of Large Next Generation Sequencing (NGS) datasets and high-density genotypes and phenotypes data in animal and human complex diseases and traits for decades. Also, extensive experience in Genome and Epigenome Editing utilizing CRISPR-based technologies was gained at St. Jude Children’s Research Hospital to beat children’s Sickle Cell Disease, which would be a powerful weapon to use in the post-genome era. Due to this solid background and experience, I am overseeing multiple research projects at UHM regarding the impacts of different diets on human health disparities and the impacts of climate changes on livestock animal production using genomic and epigenomic approaches.

    Collapse Bibliographic 
    Collapse selected publications
    Publications listed below are automatically derived from MEDLINE/PubMed and other sources, which might result in incorrect or missing publications. Faculty can login to make corrections and additions.
    Newest   |   Oldest   |   Most Cited   |   Most Discussed   |   Timeline   |   Field Summary   |   Plain Text
    PMC Citations indicate the number of times the publication was cited by articles in PubMed Central, and the Altmetric score represents citations in news articles and social media. (Note that publications are often cited in additional ways that are not shown here.) Fields are based on how the National Library of Medicine (NLM) classifies the publication's journal and might not represent the specific topic of the publication. Translation tags are based on the publication type and the MeSH terms NLM assigns to the publication. Some publications (especially newer ones and publications not in PubMed) might not yet be assigned Field or Translation tags.) Click a Field or Translation tag to filter the publications.
    1. He Y, Taylor RL, Bai H, Ashwell CM, Zhao K, Li Y, Sun G, Zhang H, Song J. Transgenerational epigenetic inheritance and immunity in chickens that vary in Marek's disease resistance. Poult Sci. 2023 Dec; 102(12):103036. PMID: 37832188.
      Citations: 1     Fields:    Translation:AnimalsCells
    2. Qi Q, Cheng L, Tang X, He Y, Li Y, Yee T, Shrestha D, Feng R, Xu P, Zhou X, Pruett-Miller S, Hardison RC, Weiss MJ, Cheng Y. Dynamic CTCF binding directly mediates interactions among cis-regulatory elements essential for hematopoiesis. Blood. 2021 03 11; 137(10):1327-1339. PMID: 33512425.
      Citations: 14     Fields:    Translation:HumansCells
    3. Bai H, He Y, Lin Y, Leng Q, Carrillo JA, Liu J, Jiang F, Chen J, Song J. Identification of a novel differentially methylated region adjacent to ATG16L2 in lung cancer cells using methyl-CpG binding domain protein-enriched genome sequencing. Genome. 2021 May; 64(5):533-546. PMID: 33113339.
      Citations: 3     Fields:    Translation:HumansCells
    4. Liu J, Liu F, Cai W, Jia C, Bai Y, He Y, Zhu W, Li RW, Song J. Diet-induced changes in bacterial communities in the jejunum and their associations with bile acids in Angus beef cattle. Anim Microbiome. 2020 Sep 16; 2(1):33. PMID: 33499973.
      Citations:    
    5. Bai Y, Carrillo JA, Li Y, He Y, Song J. Correction to: Diet induced the change of mtDNA copy number and metabolism in Angus cattle. J Anim Sci Biotechnol. 2020; 11:95. PMID: 32855812.
      Citations:    
    6. Bai Y, Carrillo JA, Li Y, He Y, Song J. Diet induced the change of mtDNA copy number and metabolism in Angus cattle. J Anim Sci Biotechnol. 2020; 11:84. PMID: 32699629.
      Citations:    
    7. Bai H, He Y, Ding Y, Chu Q, Lian L, Heifetz EM, Yang N, Cheng HH, Zhang H, Chen J, Song J. Genome-wide characterization of copy number variations in the host genome in genetic resistance to Marek's disease using next generation sequencing. BMC Genet. 2020 07 16; 21(1):77. PMID: 32677890.
      Citations: 1     Fields:    Translation:Animals
    8. Lazzarotto CR, Malinin NL, Li Y, Zhang R, Yang Y, Lee G, Cowley E, He Y, Lan X, Jividen K, Katta V, Kolmakova NG, Petersen CT, Qi Q, Strelcov E, Maragh S, Krenciute G, Ma J, Cheng Y, Tsai SQ. CHANGE-seq reveals genetic and epigenetic effects on CRISPR-Cas9 genome-wide activity. Nat Biotechnol. 2020 11; 38(11):1317-1327. PMID: 32541958.
      Citations: 87     Fields:    Translation:HumansCells
    9. He Y, Han B, Ding Y, Zhang H, Chang S, Zhang L, Zhao C, Yang N, Song J. Linc-GALMD1 Regulates Viral Gene Expression in the Chicken. Front Genet. 2019; 10:1122. PMID: 31798630.
      Citations:    
    10. Li Y, Carrillo JA, Ding Y, He Y, Zhao C, Liu J, Zan L, Song J. DNA methylation, microRNA expression profiles and their relationships with transcriptome in grass-fed and grain-fed Angus cattle rumen tissue. PLoS One. 2019; 14(10):e0214559. PMID: 31622349.
      Citations: 6     Fields:    Translation:AnimalsCells
    11. Bai H, He Y, Ding Y, Carrillo JA, Selvaraj RK, Zhang H, Chen J, Song J. Allele-Specific Expression of CD4+ T Cells in Response to Marek's Disease Virus Infection. Genes (Basel). 2019 09 17; 10(9). PMID: 31533276.
      Citations: 3     Fields:    Translation:AnimalsCells
    12. Xu L, He Y, Ding Y, Liu GE, Zhang H, Cheng HH, Taylor RL, Song J. Genetic assessment of inbred chicken lines indicates genomic signatures of resistance to Marek's disease. J Anim Sci Biotechnol. 2018; 9:65. PMID: 30221000.
      Citations:    
    13. He Y, Zuo Q, Edwards J, Zhao K, Lei J, Cai W, Nie Q, Li B, Song J. DNA Methylation and Regulatory Elements during Chicken Germline Stem Cell Differentiation. Stem Cell Reports. 2018 06 05; 10(6):1793-1806. PMID: 29681542.
      Citations: 12     Fields:    Translation:AnimalsCells
    14. Han B, He Y, Zhang L, Ding Y, Lian L, Zhao C, Song J, Yang N. Long intergenic non-coding RNA GALMD3 in chicken Marek's disease. Sci Rep. 2017 08 31; 7(1):10294. PMID: 28860661.
      Citations: 11     Fields:    Translation:AnimalsCells
    15. Xu L, He Y, Ding Y, Sun G, Carrillo JA, Li Y, Ghaly MM, Ma L, Zhang H, Liu GE, Song J. Characterization of Copy Number Variation's Potential Role in Marek's Disease. Int J Mol Sci. 2017 May 09; 18(5). PMID: 28486430.
      Citations: 6     Fields:    Translation:Animals
    16. Usman T, Wang Y, Liu C, He Y, Wang X, Dong Y, Wu H, Liu A, Yu Y. Novel SNPs in IL-17F and IL-17A genes associated with somatic cell count in Chinese Holstein and Inner-Mongolia Sanhe cattle. J Anim Sci Biotechnol. 2017; 8:5. PMID: 28101335.
      Citations:    
    17. He Y, Song M, Zhang Y, Li X, Song J, Zhang Y, Yu Y. Whole-genome regulation analysis of histone H3 lysin 27 trimethylation in subclinical mastitis cows infected by Staphylococcus aureus. BMC Genomics. 2016 08 08; 17:565. PMID: 27503467.
      Citations: 11     Fields:    Translation:AnimalsCells
    18. Song M, He Y, Zhou H, Zhang Y, Li X, Yu Y. Combined analysis of DNA methylome and transcriptome reveal novel candidate genes with susceptibility to bovine Staphylococcus aureus subclinical mastitis. Sci Rep. 2016 07 14; 6:29390. PMID: 27411928.
      Citations: 29     Fields:    Translation:AnimalsCells
    19. Carrillo JA, He Y, Li Y, Liu J, Erdman RA, Sonstegard TS, Song J. Integrated metabolomic and transcriptome analyses reveal finishing forage affects metabolic pathways related to beef quality and animal welfare. Sci Rep. 2016 05 17; 6:25948. PMID: 27185157.
      Citations: 41     Fields:    Translation:Animals
    20. He Y, Ding Y, Zhan F, Zhang H, Han B, Hu G, Zhao K, Yang N, Yu Y, Mao L, Song J. Corrigendum: The conservation and signatures of lincRNAs in Marek's disease of chicken. Sci Rep. 2016 Jan 27; 6:19422. PMID: 26814149.
      Citations: 2     Fields:    
    21. He Y, Ding Y, Zhan F, Zhang H, Han B, Hu G, Zhao K, Yang N, Yu Y, Mao L, Song J. The conservation and signatures of lincRNAs in Marek's disease of chicken. Sci Rep. 2015 Oct 16; 5:15184. PMID: 26471251.
      Citations: 31     Fields:    Translation:HumansAnimalsCells
    22. Li Y, Carrillo JA, Ding Y, He Y, Zhao C, Liu J, Liu GE, Zan L, Song J. Transcriptomic Profiling of Spleen in Grass-Fed and Grain-Fed Angus Cattle. PLoS One. 2015; 10(9):e0135670. PMID: 26367387.
      Citations: 7     Fields:    Translation:AnimalsCells
    23. Li Y, Carrillo JA, Ding Y, He Y, Zhao C, Zan L, Song J. Correction: Ruminal Transcriptomic Analysis of Grass-Fed and Grain-Fed Angus Beef Cattle. PLoS One. 2015; 10(7):e0134067. PMID: 26197431.
      Citations:    Fields:    
    24. Carrillo JA, He Y, Luo J, Menendez KR, Tablante NL, Zhao K, Paulson JN, Li B, Song J. Methylome Analysis in Chickens Immunized with Infectious Laryngotracheitis Vaccine. PLoS One. 2015; 10(6):e0100476. PMID: 26107953.
      Citations: 7     Fields:    Translation:AnimalsCells
    25. Li Y, Carrillo JA, Ding Y, He Y, Zhao C, Zan L, Song J. Ruminal Transcriptomic Analysis of Grass-Fed and Grain-Fed Angus Beef Cattle. PLoS One. 2015; 10(6):e0116437. PMID: 26090810.
      Citations: 14     Fields:    Translation:AnimalsCells
    26. Mitra A, Luo J, He Y, Gu Y, Zhang H, Zhao K, Cui K, Song J. Histone modifications induced by MDV infection at early cytolytic and latency phases. BMC Genomics. 2015 Apr 18; 16:311. PMID: 25896894.
      Citations: 6     Fields:    Translation:AnimalsCells
    27. He Y, Carrillo JA, Luo J, Ding Y, Tian F, Davidson I, Song J. Genome-wide mapping of DNase I hypersensitive sites and association analysis with gene expression in MSB1 cells. Front Genet. 2014; 5:308. PMID: 25352859.
      Citations:    
    28. Liu N, Li H, Liu K, Yu J, Cheng M, De W, Liu J, Shi S, He Y, Zhao J. Differential expression of genes and proteins associated with wool follicle cycling. Mol Biol Rep. 2014 Aug; 41(8):5343-9. PMID: 24847760.
      Citations: 10     Fields:    Translation:AnimalsCells
    29. He Y, Yu Y, Zhang Y, Song J, Mitra A, Zhang Y, Wang Y, Sun D, Zhang S. Genome-wide bovine H3K27me3 modifications and the regulatory effects on genes expressions in peripheral blood lymphocytes. PLoS One. 2012; 7(6):e39094. PMID: 22761725.
      Citations: 9     Fields:    Translation:AnimalsCells
    30. He Y, Chu Q, Ma P, Wang Y, Zhang Q, Sun D, Zhang Y, Yu Y, Zhang Y. Association of bovine CD4 and STAT5b single nucleotide polymorphisms with somatic cell scores and milk production traits in Chinese Holsteins. J Dairy Res. 2011 May; 78(2):242-9. PMID: 21435309.
      Citations: 12     Fields:    Translation:Animals
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