(* co-first author, # co-corresponding author, lab members in bold)
Preprint/Manuscript in submission and recently selected published papers
- Golfinos-Owens A, Lozar T, Khatri P, Johns ED, Hu R, Harari PM, Lambert PF, Fitzpatrick M, Dinh HQ. Integrated single-cell and spatial analysis identifies context-dependent myeloid-T cell interactions in head and neck cancer immune checkpoint blockade response. Provisionally Accepted. BioRxiv preprint link.
- Brand J, Zhang W, Carchman E, Dinh HQ (2026). Fluoro-forest: a random forest workflow for cell type annotation in high-dimensional immunofluorescence imaging with limited training data. Bioinform Adv. Volume 6, Issue 1, 2026, vbaf320.
- Junak M*, Khatri P*, Zajac J, Kubica P, Yan D, Dinh HQ#, Gibson ALF# (2025). Spatial Transcriptome Analysis Reveals Diverse Human Burn Wound Microenvironment. Wound Repair Regen . 2025 Jul-Aug;33(4):e70061.
Selected Papers (at UW Madison)
- Hou Y*, Khatri P*, Rindy J, Schultz Z, Gao A, Chen Z, Gibson ALF, Huttenlocher A#, Dinh HQ# (2024). Single-cell transcriptional landscape of temporal neutrophil response to burn wound in larval zebrafish. Journal of Immunology 213: 1-12.
- Brand J, Haro M, Lin X, Jimel BJ, McGregor S, Lawrenson K, Dinh HQ(2024). Fallopian tube single cell analysis reveals myeloid cell alterations in high grade serous ovarian cancer. iScience 27, 108990.
- Wang W, Lozar T, Golfinos AE, Lee D, Groski E, Ward-Shaw E, Hayes M, Kimple RJ, Hu R, Xu J, Keske A, Sondel PM, Fitzpatrick MB, Dinh HQ#, Lambert PF# (2022). Stress Keratin 17 Expression in Head and Neck Cancer Contributes to Immune Evasion and Resistance to Immune-Checkpoint Blockade Clin Cancer Res 2022 May 27:OF1-OF16. doi: 10.1158/1078-0432.CCR-21-3039.
- Dinh HQ*,#, Pan F*, Wang G*, Huang QF*, Olingy CE, Wu ZY, Wang SH, Xu X, Xu XE, He JZ, Yang Q, Orsulic S, Haro M, LI LY, Huang GW, Breunig JJ, Koeffler HP, Hedrick CC, Xu LY#, Lin DC#, Li EM# (2021) Integrated single-cell transcriptome analysis reveals heterogeneity of esophageal squamous cell carcinoma microenvironment. Nature Communications 12, 7335.
Selected Papers (before UW Madison)
- Dinh HQ*, Lin X*, Abbasi*, Nameki R, Haro M, Olingy CE, Chang H, Hernandez L, Gayther S, Wright KN, Aspuria PJ, Karlan B, Corona RI, Li A, RImel BJ, Siedhoff M, Medeiros F, Lawrenson K (2021). Single-cell transcriptomics identifies gene expression networks driving differentiation and tumorigenesis in the human fallopian tube. Cell Reports 35, 108978.
- Dinh HQ*, Eggert T*, Meyer MA*, Zhu YP, Olingy CE, Llewellyn R, Runpei W, Hedrick CC (2020). Coexpression of CD71 and CD117 identifies an early unipotent neutrophil progenitor population in human bone marrow. Immunity 53, 319–334.
- Zhou W*, Dinh HQ*, Ramjan Z, Nicolet C, Weisenberger DJ, Nicolet CM, Shen H, Laird PW, Berman BP (2018). DNA methylation loss in late-replicating domains is linked to mitotic cell division. Nature Genetics 50, 591-602.
- Lin DC*, Dinh HQ*, Xie JJ*, Mayakonda A*, Silva TC, Jiang YY, Ding LW, He JZ, Xu XE, Hao JJ, Wang MR, Li C, Xu LY, Li EM, Berman BP, Koeffler HP (2017). Identification of distinct mutational patterns and new driver genes in oesophageal squamous cell carcinomas and adenocarcinomas.
- Hao JJ*, Lin DC*, Dinh HQ*, Mayakonda A*, Jiang YY*, Chang C, Jiang Y, Lu CC, Shi ZZ, Xu X, Zhang Y, Cai Y, Wang JW, Zhan QM, Wei EQ, Berman BP, Wang M-R, Koeffler HP (2016). Spatial intratumoral heterogeneity of genetic, epigenetic and temporal clonal evolution in esophageal squamous cell carcinoma. Nature Genetics. 2016 Dec;48(12):1500-1507.