Liang Niu

Liang Niu is a bioinformatician with emphasis in statistical methodologies/tools development. He got his doctoral training in mathematics and biostatistics at Ohio State University, and postdoctoral training in bioinformatics at NIH.

Bachelor's Degree: Hubei University 1997 (Mathematics)

Master's Degree: Peking University 2002 (Mathematics)

Doctoral Degree: Ohio State University 2008 (Mathematics)

Doctoral Degree: Ohio State University 2012 (Biostatistics)

Fellowship : National Institute of Environmental Health Sciences Durham, NC, 2015 ( Research Fellow)

1) Statistical bioinformatics (methodology): RNA-Seq, ChIA-PET, methylation array and PacBio sequencing; 2) Statistical bioinformatics (consulting): data analysis for RNA-Seq, ChIA-PET, methylation array, and mass spectrometry; 3) Biostatistical consulting: study planning and design, power calculations, and statistical modeling and analysis; 4) Data mining of public domain omics datasets (such as TCGA datasets).

Grant: #R01ES034049 Investigators:Mendy, Angelico; Niu, Liang 09-01-2022 -06-30-2025 National Institute of Environmental Health Sciences Childhood and In utero Exposure to Organophosphate and Replacement Brominated Flame Retardants and Child Respiratory Outcomes Role:Collaborator 310264.00 Awarded Level:Federal

Grant: #R01AG072592 Investigators:Hyacinth, Hyacinth; Niu, Liang; Sawyer, Russell 09-15-2021 -05-31-2026 National Institute on Aging Cerebral small vessel disease burden and racial disparity in vascular cognitive impairment and Alzheimer's disease and its related dementias (transfer application) Role:Collaborator 1505134.00 Awarded Level:Federal

Grant: #R01HL156024 Investigators:Hyacinth, Hyacinth; Niu, Liang 07-01-2021 -11-30-2025 National Heart, Lung and Blood Institute Minocycline as a potential therapy for neuroinflammation and cognitive deficit in sickle cell disease Role:Collaborator 918007.00 Active Level:Federal

Grant: #R01HL156024 Investigators:Hyacinth, Hyacinth; Niu, Liang 07-01-2021 -11-30-2025 National Heart, Lung and Blood Institute Minocycline as a potential therapy for neuroinflammation and cognitive deficit in sickle cell disease Role:Collaborator 286061.00 Awarded Level:Federal

Grant: #R01HL156024 Investigators:Hyacinth, Hyacinth; Niu, Liang 07-01-2021 -11-30-2025 National Heart, Lung and Blood Institute Minocycline as a potential therapy for neuroinflammation and cognitive deficit in sickle cell disease Role:Collaborator 286061.00 Active Level:Federal

Grant: #R01HL156024 Investigators:Hyacinth, Hyacinth; Niu, Liang 06-01-2021 -11-30-2025 National Heart, Lung and Blood Institute Minocycline as a potential therapy for neuroinflammation and cognitive deficit in sickle cell disease Role:Collaborator 300615.48 Hold Level:Federal

Grant: #R01ES031054 Investigators:Brunst, Kelly; Niu, Liang 07-01-2020 -04-30-2025 National Institute of Environmental Health Sciences Epigenetics, air pollution, and childhood mental health Role:Collaborator $632,113.00 Awarded Level:Federal

Grant: #137382 / DPIAI131080 Investigators:Niu, Liang 01-01-2020 -07-31-2021 National Institute of Allergy and Infectious Diseases IMMUNOLOGICAL IDENTITY REDEFINED BY GENETICALLY FOREIGN MICROCHIMERIC CELLS Role:PI $5,170.00 Awarded Level:Federal

Grant: #R01HD097597 Investigators:Burns, Katherine; Kasper, Susan; Niu, Liang 09-13-2019 -05-31-2024 National Institute of Child Health and Human Development The Role of the Matrisome in Endometriosis Development Role:Collaborator $439,549.00 Awarded Level:Federal

Grant: #1R21CA241025-01 Investigators:Du, Chunying; Niu, Liang; Wang, Jiang 09-02-2019 -08-31-2021 National Institutes of Health Novel Targeting of Liver Cancer Deficient of DNA Repair Role:Collaborator $209,453.00 Awarded Level:Federal

Grant: #ES010807 Investigators:Biesiada, Jacek; Medvedovic, Mario; Niu, Liang; Puga, Alvaro; Xia, Ying 09-30-2017 -06-30-2022 National Institute of Environmental Health Sciences Molecular Mechanisms of Complex Mixture Toxicity Role:Collaborator $445,504.00 Awarded Level:Federal

Grant: #R01AI173245 Investigators:Huaman Joo, Moises; Huang, Shouxiong; Newburg, David; Niu, Liang 06-01-2023 -05-31-2028 National Institute of Allergy and Infectious Diseases M. tuberculosis metabolites to activate human mucosal-associated invariant T cells Role:Collaborator 559263.00 Awarded Level:Federal

Grant: #R01NS134804 Investigators:Collar, Ryan; Esfandiari, Leyla; Harris, Gregory; Niu, Liang; Pixley, Sarah 01-01-2024 -12-31-2028 National Institute of Neurological Disorders and Stroke Developing multi-cue piezoelectric PVDF-TrFE biomaterials for peripheral nerve repair Role:Collaborator 441060.00 Awarded Level:Federal

Grant: #tba; 1516602201?/ 7R01AI173245-02 Investigators:Huaman, Moises; Niu, Liang 07-01-2024 -06-30-2028 National Institute of Allergy and Infectious Diseases M. tuberculosis metabolites to activate human mucosal-associated invariant T cells Role:Collaborator 73726.96 Hold Level:Federal

Grant: #1R21HL177541-01 (JIT HOLD) Investigators:Liang, Jialiang; Niu, Liang; Wang, Yi-Gang 12-01-2024 -11-30-2026 National Heart, Lung and Blood Institute Engineering RNA biodevices for precise modulation of fibroblasts to boost cardiac reprogramming Role:Collaborator 0.00 Hold Level:Federal

Grant: #R01HL183489-01 Investigators:Liang, Jialiang; Niu, Liang; Wang, Yi-Gang; Xu, Meifeng 12-01-2025 -11-30-2030 National Heart, Lung and Blood Institute Targeted Rewiring of a Fibrosis Driver to Enhance Cardiac Reprogramming Role:Collaborator 0.00 Hold Level:Federal

Peer Reviewed Publications

Conrey, Shannon C; Burrell, Allison R; Brokamp, Cole; Burke, Rachel M; Couch, Sarah C; Niu, Liang; Mattison, Claire P; Piasecki, Alexandra; Payne, Daniel C; Staat, Mary A; Morrow, Ardythe L  (2022). Neighbourhood socio-economic environment predicts adiposity and obesity risk in children under two. Pediatric obesity, 17 (12) , e12964More Information

Sprague, Alexander C; Niu, Liang; Jandarov, Roman; Zhang, Xiang; Zhang, Ge; Chen, Aimin; Šarac, Jelena; Čoklo, Miran; Missoni, Sasa; Rudan, Pavao; Langevin, Scott M; Deka, Ranjan  (2022). Stable methylation loci are associated with systolic blood pressure in a Croatian island population. Epigenomics, 14 (21) , 1343-1354More Information

Jiang, Lin; Liang, Jialiang; Huang, Wei; Ma, Jianyong; Park, Ki Ho; Wu, Zhichao; Chen, Peng; Zhu, Hua; Ma, Jian-Jie; Cai, Wenfeng; Paul, Christian; Niu, Liang; Fan, Guo-Chang; Wang, Hong-Sheng; Kanisicak, Onur; Xu, Meifeng; Wang, Yigang  (2022). CRISPR activation of endogenous genes reprograms fibroblasts into cardiovascular progenitor cells for myocardial infarction therapy. Molecular therapy : the journal of the American Society of Gene Therapy, 30 (1) , 54-74More Information

Xu, Zongli; Niu, Liang; Taylor, Jack A  (2021). The ENmix DNA methylation analysis pipeline for Illumina BeadChip and comparisons with seven other preprocessing pipelines. Clinical epigenetics, 13 (1) , 216More Information

Morrow, Ardythe L; McClain, Janelle; Conrey, Shannon C; Niu, Liang; Kinzer, Alexandra; Cline, Allison R; Piasecki, Alexandra M; DeFranco, Emily; Ward, Laura; Ware, Julie; Payne, Daniel C; Staat, Mary A; Nommsen-Rivers, Laurie A  (2021). Breastfeeding Disparities and Their Mediators in an Urban Birth Cohort of Black and White Mothers. Breastfeeding medicine : the official journal of the Academy of Breastfeeding Medicine, 16 (6) , 452-462More Information

Xu, Zongli; Xie, Changchun; Taylor, Jack A; Niu, Liang  (2021). ipDMR: identification of differentially methylated regions with interval P-values. Bioinformatics (Oxford, England), 37 (5) , 711-713More Information

von Allmen, Douglas; Tang, Alice; Takiar, Vinita; Zender, Chad; Romeo, Stephen; Masch, Jessica; Casper, Keith; Patil, Yash; Wilson, Keith; Khosla, Siddarth; Niu, Liang; Altaye, Mekibib; Tabangin, Meredith; Howell, Rebecca J  (2021). Modified Head and Neck Swallow Scale: Using EORTC-QLQ-H&N35 to Predict Overall Survival. The LaryngoscopeMore Information

Vilfranc, Chrystelle L; Che, Li-Xiao; Patra, Krushna C; Niu, Liang; Olowokure, Olugbenga; Wang, Jiang; Shah, Shimul A; Du, Chun-Ying  (2021). BIR repeat-containing ubiquitin conjugating enzyme (BRUCE) regulation of ?-catenin signaling in the progression of drug-induced hepatic fibrosis and carcinogenesis. World journal of hepatology, 13 (3) , 343-361More Information

Morrow, Ardythe L; Staat, Mary A; DeFranco, Emily A; McNeal, Monica M; Cline, Allison R; Conrey, Shannon C; Schlaudecker, Elizabeth P; Piasecki, Alexandra M; Burke, Rachel M; Niu, Liang; Hall, Aron J; Bowen, Michael D; Gerber, Susan I; Langley, Gayle E; Thornburg, Natalie J; Campbell, Angela P; Vinjé, Jan; Parashar, Umesh D; Payne, Daniel C  (2021). Pediatric Respiratory and Enteric Virus Acquisition and Immunogenesis in US Mothers and Children Aged 0-2: PREVAIL Cohort Study. JMIR research protocols, 10 (2) , e22222More Information

de Gannes, Matthew; Ko, Chia-I; Zhang, Xiang; Biesiada, Jacek; Niu, Liang; Koch, Sheryl E; Medvedovic, Mario; Rubinstein, Jack; Puga, Alvaro  (2020). Dioxin Disrupts Dynamic DNA Methylation Patterns in Genes That Govern Cardiomyocyte Maturation. Toxicological sciences : an official journal of the Society of Toxicology, 178 (2) , 325-337More Information

Sharma, Manju; Zhang, Shuangmin; Niu, Liang; Lewinsohn, David M; Zhang, Xiang; Huang, Shouxiong  (2020). Mucosal-Associated Invariant T Cells Develop an Innate-Like Transcriptomic Program in Anti-mycobacterial Responses. Frontiers in immunology, 11, 1136More Information

Xueheng Zhao, Liang Niu, Carlo Clerici, Roberta Russo, Melissa Byrd, and Kenneth DR Setchell  (2019). Data analysis of MS-based clinical lipidomics studies with crossover design: A tutorial mini-review of statistical methods. Clinical Mass Spectrometry, 13, 5-17

Langevin, Scott M; Kuhnell, Damaris; Niu, Liang; Biesiada, Jacek; Leung, Yuet-Kin; Deka, Ranjan; Chen, Aimin; Medvedovic, Mario; Kelsey, Karl T; Kasper, Susan; Zhang, Xiang  (2019). Comprehensive mapping of the methylation landscape of 16 CpG-dense regions in oral and pharyngeal squamous cell carcinoma. Epigenomics, 11 (9) , 987-1002More Information

Ge, Chunmin; Vilfranc, Chrystelle L; Che, Lixiao; Pandita, Raj K; Hambarde, Shashank; Andreassen, Paul R; Niu, Liang; Olowokure, Olugbenga; Shah, Shimul; Waltz, Susan E; Zou, Lee; Wang, Jiang; Pandita, Tej K; Du, Chunying  (2019). The BRUCE-ATR Signaling Axis Is Required for Accurate DNA Replication and Suppression of Liver Cancer Development. Hepatology (Baltimore, Md.), 69 (6) , 2608-2622More Information

Huang, Weichun; Medvedovic, Mario; Zhang, Jingwen; Niu, Liang  (2019). ChIAPoP: a new tool for ChIA-PET data analysis. Nucleic acids research, 47 (7) , e37More Information

Greene, Alexis D; Kendziorski, Jessica A; Buckholz, Jeanette M; Niu, Liang; Xie, Changchun; Pinney, Susan M; Burns, Katherine A  (2019). Elevated serum chemokines are independently associated with both endometriosis and uranium exposure. Reproductive toxicology (Elmsford, N.Y.), 84, 26-31More Information

Haque, Sulsal-Ul; Niu, Liang; Kuhnell, Damaris; Hendershot, Jacob; Biesiada, Jacek; Niu, Wen; Hagan, Matthew C; Kelsey, Karl T; Casper, Keith A; Wise-Draper, Trisha M; Medvedovic, Mario; Langevin, Scott M  (2018). Differential expression and prognostic value of long non-coding RNA in HPV-negative head and neck squamous cell carcinoma. Head & neck, 40 (7) , 1555-1564More Information

Leung, Yuet-Kin; Ouyang, Bin; Niu, Liang; Xie, Changchun; Ying, Jun; Medvedovic, Mario; Chen, Aimin; Weihe, Pal; Valvi, Damaskini; Grandjean, Philippe; Ho, Shuk-Mei  (2018). Identification of sex-specific DNA methylation changes driven by specific chemicals in cord blood in a Faroese birth cohort. Epigenetics, 13 (3) , 290-300More Information

Sharma, Manju; Zhang, Xiang; Zhang, Shuangmin; Niu, Liang; Ho, Shuk-Mei; Chen, Aimin; Huang, Shouxiong  (2017). Inhibition of endocytic lipid antigen presentation by common lipophilic environmental pollutants. Scientific reports, 7 (1) , 2085More Information

Liu, Hongqi; Feng, Xizhi; Ennis, Kelli N; Behrmann, Catherine A; Sarma, Pranjal; Jiang, Tony T; Kofuji, Satoshi; Niu, Liang; Stratton, Yiwen; Thomas, Hala Elnakat; Yoon, Sang-Oh; Sasaki, Atsuo T; Plas, David R  (2017). Pharmacologic Targeting of S6K1 in PTEN-Deficient Neoplasia. Cell reports, 18 (9) , 2088-2095More Information

Xu, Zongli; Langie, Sabine A S; De Boever, Patrick; Taylor, Jack A; Niu, Liang  (2017). RELIC: a novel dye-bias correction method for Illumina Methylation BeadChip. BMC genomics, 18 (1) , 4More Information

Xu, Zongli; Taylor, Jack A; Leung, Yuet-Kin; Ho, Shuk-Mei; Niu, Liang  (2016). oxBS-MLE: an efficient method to estimate 5-methylcytosine and 5-hydroxymethylcytosine in paired bisulfite and oxidative bisulfite treated DNA. Bioinformatics (Oxford, England), 32 (23) , 3667-3669More Information

Niu, Liang; Xu, Zongli; Taylor, Jack A  (2016). RCP: a novel probe design bias correction method for Illumina Methylation BeadChip. Bioinformatics (Oxford, England), 32 (17) , 2659-63More Information

Chen, Liang; Peng, Zhimin; Meng, Qinghang; Mongan, Maureen; Wang, Jingcai; Sartor, Maureen; Chen, Jing; Niu, Liang; Medvedovic, Mario; Kao, Winston; Xia, Ying  (2016). Loss of I?B kinase ? promotes myofibroblast transformation and senescence through activation of the ROS-TGF? autocrine loop. Protein & cell, 7 (5) , 338-50More Information

Xu, Zongli; Niu, Liang; Li, Leping; Taylor, Jack A  (2016). ENmix: a novel background correction method for Illumina HumanMethylation450 BeadChip. Nucleic acids research, 44 (3) , e20More Information

Dong, Jing; Yang, Jingyun; Tranah, Greg; Franceschini, Nora; Parimi, Neeta; Alkorta-Aranburu, Gorka; Xu, Zongli; Alonso, Alvaro; Cummings, Steven R; Fornage, Myriam; Huang, Xuemei; Kritchevsky, Stephen; Liu, Yongmei; London, Stephanie; Niu, Liang; Wilson, Robert S; De Jager, Philip L; Yu, Lei; Singleton, Andrew B; Harris, Tamara; Mosley, Thomas H; Pinto, Jayant M; Bennett, David A; Chen, Honglei  (2015). Genome-wide Meta-analysis on the Sense of Smell Among US Older Adults. Medicine, 94 (47) , e1892More Information

Niu, Liang; Lin, Shili  (2015). A Bayesian mixture model for chromatin interaction data. Statistical applications in genetics and molecular biology, 14 (1) , 53-64More Information

Niu, Liang; Huang, Weichun; Umbach, David M; Li, Leping  (2014). IUTA: a tool for effectively detecting differential isoform usage from RNA-Seq data. BMC genomics, 15, 862More Information

Niu, Liang; Li, Guoliang; Lin, Shili  (2014). Statistical models for detecting differential chromatin interactions mediated by a protein. PloS one, 9 (5) , e97560More Information

Li, Yuanyuan; Huang, Weichun; Niu, Liang; Umbach, David M; Covo, Shay; Li, Leping  (2013). Characterization of constitutive CTCF/cohesin loci: a possible role in establishing topological domains in mammalian genomes. BMC genomics, 14, 553More Information

Cai Heng Li, Liang Niu, Akos Seress, Ronald Solomon  (2010). The vertex primitive and vertex bi-primitive s-arc regular graphs. Journal of Combinatorial Theory, Series B, 100 (4) , 359-366

Xu, Zongli; Motsinger-Reif, Alison A; Niu, Liang  (2025). Efficient gene set analysis for DNA methylation addressing probe dependency and bias. Bioinformatics (Oxford, England), 41 (8) More Information

Parikh, Milan N; Manning, Erika Rasnick; Niu, Liang; Ruehlmann, Anna Kotsakis; Folger, Alonzo T; Brunst, Kelly J; Brokamp, Cole  (2025). Increasing temporal sensitivity of omics association studies with epigenome-wide distributed lag models. American journal of epidemiology, 194 (5) , 1418-1425More Information

DeVeaux, S'Dravious A; Vyshnya, Sofiya; Propsom, Katherine; Gbotosho, Oluwabukola T; Singh, Asem S; Horning, Robert Z; Sharma, Mihika; Jegga, Anil G; Niu, Liang; Botchwey, Edward A; Hyacinth, Hyacinth I  (2024). Neuroinflammation underlies the development of social stress induced cognitive deficit in male sickle cell mice. Experimental biology and medicine (Maywood, N.J.), 249, 10361More Information

Morrow, Ardythe L; Payne, Daniel C; Conrey, Shannon C; McMorrow, Meredith; McNeal, Monica M; Niu, Liang; Burrell, Allison R; Schlaudecker, Elizabeth P; Mattison, Claire; Burke, Rachel M; DeFranco, Emily; Teoh, Zheyi; Wrammert, Jens; Atherton, Lydia J; Thornburg, Natalie J; Staat, Mary A  (2024). Endemic Coronavirus Infections are Associated with Strong Homotypic Immunity in a US Cohort of Children from Birth to 4 Years. Journal of the Pediatric Infectious Diseases Society, 13 (5) , 265-273More Information

Xu, Zongli; Niu, Liang; Kresovich, Jacob K; Taylor, Jack A  (2024). methscore: a comprehensive R function for DNA methylation-based health predictors. Bioinformatics (Oxford, England), 40 (5) More Information

Sharma, Manju; Niu, Liang; Zhang, Xiang; Huang, Shouxiong  (2023). Comparative transcriptomes reveal pro-survival and cytotoxic programs of mucosal-associated invariant T cells upon Bacillus Calmette-Guérin stimulation. Frontiers in cellular and infection microbiology, 13, 1134119More Information

Conrey, Shannon C; Burrell, Allison R; Brokamp, Cole; Burke, Rachel M; Couch, Sarah C; Niu, Liang; Mattison, Claire P; Payne, Daniel C; Staat, Mary A; Morrow, Ardythe L  (2022). Comparison of neighborhood deprivation index and food desert status as environmental predictors of early childhood obesity. International public health journal, 14 (3) , 263-276

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