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Profile

Jian Hu

  • Department of Human Genetics
    Assistant Professor
  • jian.hu@emory.edu
  • AI in Genomics Lab
  • 615 Michael Street
    Suite 323
    Atlanta, GA 30322
Head shot of Jian Hu

Overview

Jian Hu, PhD, is an Assistant Professor at the Department of Human Genetics at Emory University. He is also a member of Emorys AI Humanity initiative. His research program involves two synergistic components: 1) a methodological component focuses on developing novel statistical methods for biomedical data, including single-cell RNA sequencing, spatial transcriptomics, protein omics, and metabolomics; 2) an applied component focuses on applying these methods for the clinical and biological studies. Specifically, he takes a multidisciplinary approach that integrates methods drawn from statistics, machine learning, bioinformatics, and computational biology for multi-omics data analysis. Hu has also extended his expertise to digital pathology as the cell morphology from histology image data is critical in understanding the tissue microenvironment. Hu works closely with biomedical researchers in order to elucidate the structure and function of genomes and to translate genetics and genomics knowledge into human health. Hu holds a PhD in Biostatistics from the University of Pennsylvania, and a Bachelor of Molecular Biology from Wuhan University, China.
AI in Genomics Lab: https://jianhu-lab.org/

Academic Appointment

  • Assistant Professor, Biostatistics and Bioinformatics, School of Public Health, Emory University
  • Assistant Professor, Human Genetics, School of Medicine, Emory University

Education

Degrees

  • PhD in Biostatistics from University of Pennsylvania
  • Bachelor of Science in Molecular Biology and Math Minor from Wuhan University

Research

Publications

  • Integrating spatial transcriptomics and snRNA-seq data enhances differential gene expression analysis results of AD-related phenotypes.
    HGG Adv Page(s): 100447
    05/05/2025 Authors: Tang S; Liu S; Buchman AS; Bennett DA; De Jager PL; Yang J; Hu J
  • Author Correction: Resolving tissue complexity by multimodal spatial omics modeling with MISO.
    Nat Methods Volume: 22 Page(s): 874
    04/01/2025 Authors: Coleman K; Schroeder A; Loth M; Zhang D; Park JH; Sung J-Y; Blank N; Cowan AJ; Qian X; Chen J
  • Author Correction: Resolving tissue complexity by multimodal spatial omics modeling with MISO.
    Nat Methods Volume: 22 Page(s): 635
    03/01/2025 Authors: Coleman K; Schroeder A; Loth M; Zhang D; Park JH; Sung J-Y; Blank N; Cowan AJ; Qian X; Chen J
  • Resolving tissue complexity by multimodal spatial omics modeling with MISO.
    Nat Methods Volume: 22 Page(s): 530 - 538
    03/01/2025 Authors: Coleman K; Schroeder A; Loth M; Zhang D; Park JH; Sung J-Y; Blank N; Cowan AJ; Qian X; Chen J
  • Identification of pathological pathways centered on circRNA dysregulation in association with irreversible progression of Alzheimer's disease.
    Genome Med Volume: 16 Page(s): 129
    11/11/2024 Authors: Wang F; Li Y; Shen H; Martinez-Feduchi P; Ji X; Teng P; Krishnakumar S; Hu J; Chen L; Feng Y
  • Inferring super-resolution tissue architecture by integrating spatial transcriptomics with histology.
    Nat Biotechnol Volume: 42 Page(s): 1372 - 1377
    09/01/2024 Authors: Zhang D; Schroeder A; Yan H; Yang H; Hu J; Lee MYY; Cho KS; Susztak K; Xu GX; Feldman MD
  • METI: deep profiling of tumor ecosystems by integrating cell morphology and spatial transcriptomics.
    Nat Commun Volume: 15 Page(s): 7312
    08/25/2024 Authors: Jiang J; Liu Y; Qin J; Chen J; Wu J; Pizzi MP; Lazcano R; Yamashita K; Xu Z; Pei G
  • Longitudinal Plasma Metabolome Patterns and Relation to Kidney Function and Proteinuria in Pediatric CKD.
    Clin J Am Soc Nephrol Volume: 19 Page(s): 837 - 850
    07/01/2024 Authors: Lee AM; Xu Y; Hu J; Xiao R; Hooper SR; Hartung EA; Coresh J; Rhee EP; Vasan RS; Kimmel PL
  • Circulating Metabolomic Associations with Neurocognitive Outcomes in Pediatric CKD.
    Clin J Am Soc Nephrol Volume: 19 Page(s): 13 - 25
    01/01/2024 Authors: Lee AM; Xu Y; Hooper SR; Abraham AG; Hu J; Xiao R; Matheson MB; Brunson C; Rhee EP; Coresh J
  • Leveraging spatial transcriptomics data to recover cell locations in single-cell RNA-seq with CeLEry.
    Nat Commun Volume: 14 Page(s): 4050
    07/08/2023 Authors: Zhang Q; Jiang S; Schroeder A; Hu J; Li K; Zhang B; Dai D; Lee EB; Xiao R; Li M
  • Pan-cancer T cell atlas links a cellular stress response state to immunotherapy resistance.
    Nat Med Volume: 29 Page(s): 1550 - 1562
    06/01/2023 Authors: Chu Y; Dai E; Li Y; Han G; Pei G; Ingram DR; Thakkar K; Qin J-J; Dang M; Le X
  • Deciphering tumor ecosystems at super resolution from spatial transcriptomics with TESLA.
    Cell Syst Volume: 14 Page(s): 404 - 417.e4
    05/17/2023 Authors: Hu J; Coleman K; Zhang D; Lee EB; Kadara H; Wang L; Li M
  • SpaDecon: cell-type deconvolution in spatial transcriptomics with semi-supervised learning.
    Commun Biol Volume: 6 Page(s): 378
    04/07/2023 Authors: Coleman K; Hu J; Schroeder A; Lee EB; Li M
  • The Single-Cell Immunogenomic Landscape of B and Plasma Cells in Early-Stage Lung Adenocarcinoma.
    Cancer Discov Volume: 12 Page(s): 2626 - 2645
    11/02/2022 Authors: Hao D; Han G; Sinjab A; Gomez-Bolanos LI; Lazcano R; Serrano A; Hernandez SD; Dai E; Cao X; Hu J
  • Downregulated cytotoxic CD8+ T-cell identifies with the NKG2A-soluble HLA-E axis as a predictive biomarker and potential therapeutic target in keloids.
    Cell Mol Immunol Volume: 19 Page(s): 527 - 539
    04/01/2022 Authors: Xu H; Zhu Z; Hu J; Sun J; Wo Y; Wang X; Zou H; Li B; Zhang Y
  • Using Machine Learning to Identify Metabolomic Signatures of Pediatric Chronic Kidney Disease Etiology.
    J Am Soc Nephrol Volume: 33 Page(s): 375 - 386
    02/01/2022 Authors: Lee AM; Hu J; Xu Y; Abraham AG; Xiao R; Coresh J; Rebholz C; Chen J; Rhee EP; Feldman HI
  • As in Real Estate, Location Matters: Cellular Expression of Complement Varies Between Macular and Peripheral Regions of the Retina and Supporting Tissues.
    Front Immunol Volume: 13 Page(s): 895519
    01/01/2022 Authors: Zauhar R; Biber J; Jabri Y; Kim M; Hu J; Kaplan L; Pfaller AM; Schfer N; Enzmann V; Schltzer-Schrehardt U
  • SpaGCN: Integrating gene expression, spatial location and histology to identify spatial domains and spatially variable genes by graph convolutional network.
    Nat Methods Volume: 18 Page(s): 1342 - 1351
    11/01/2021 Authors: Hu J; Li X; Coleman K; Schroeder A; Ma N; Irwin DJ; Lee EB; Shinohara RT; Li M
  • Applications of single-cell genomics and computational strategies to study common disease and population-level variation.
    Genome Res Volume: 31 Page(s): 1728 - 1741
    10/01/2021 Authors: Auerbach BJ; Hu J; Reilly MP; Li M
  • Implication of specific retinal cell-type involvement and gene expression changes in AMD progression using integrative analysis of single-cell and bulk RNA-seq profiling.
    Sci Rep Volume: 11 Page(s): 15612
    08/02/2021 Authors: Lyu Y; Zauhar R; Dana N; Strang CE; Hu J; Wang K; Liu S; Pan N; Gamlin P; Kimble JA
  • Thymic stromal lymphopoietin induces adipose loss through sebum hypersecretion.
    Science Volume: 373
    07/30/2021 Authors: Choa R; Tohyama J; Wada S; Meng H; Hu J; Okumura M; May RM; Robertson TF; Pai R-AL; Nace A
  • Machine learning models to predict electroencephalographic seizures in critically ill children.
    Seizure Volume: 87 Page(s): 61 - 68
    04/01/2021 Authors: Hu J; Fung FW; Jacobwitz M; Parikh DS; Vala L; Donnelly M; Topjian AA; Abend NS; Xiao R
  • Statistical and machine learning methods for spatially resolved transcriptomics with histology.
    Comput Struct Biotechnol J Volume: 19 Page(s): 3829 - 3841
    01/01/2021 Authors: Hu J; Schroeder A; Coleman K; Chen C; Auerbach BJ; Li M
  • Iterative transfer learning with neural network for clustering and cell type classification in single-cell RNA-seq analysis.
    Nat Mach Intell Volume: 2 Page(s): 607 - 618
    10/01/2020 Authors: Hu J; Li X; Hu G; Lyu Y; Susztak K; Li M
  • Physical activity during and after breast cancer therapy and associations of baseline physical activity with changes in cardiac function by echocardiography.
    Cancer Med Volume: 9 Page(s): 6122 - 6131
    09/01/2020 Authors: Upshaw JN; Hubbard RA; Hu J; Brown JC; Smith AM; Demissei B; Schmitz KH; Ky B
  • ASEP: Gene-based detection of allele-specific expression across individuals in a population by RNA sequencing.
    PLoS Genet Volume: 16 Page(s): e1008786
    05/01/2020 Authors: Fan J; Hu J; Xue C; Zhang H; Susztak K; Reilly MP; Xiao R; Li M
  • PennDiff: detecting differential alternative splicing and transcription by RNA sequencing.
    Bioinformatics Volume: 34 Page(s): 2384 - 2391
    07/15/2018 Authors: Hu Y; Lin J; Hu J; Hu G; Wang K; Zhang H; Reilly MP; Li M
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