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Kelly N Street, PhD

Assistant Professor of Population and Public Health Sciences

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Overview

Kelly Street is an Assistant Professor of Population and Public Health Sciences in the Division of Biostatistics at the Keck School of Medicine of USC. His research interests include the development and evaluation of computational methods for high-dimensional genomic data. Much of his work has focused on applications in single-cell RNA sequencing, particularly for the analysis of continuous differentiation trajectories. He also has experience working with data on chromatin structure (ATAC-seq), DNA methylation (WGBS), mass cytometry (CyTOF, IMC), and immune repertoire (TCR-seq). He is currently interested in multi-omic integration, the problem of combining information from different genomic assays to reveal novel relationships between biological systems.

Publications

  • Patterning human kidney organoids with synthetic Wnt-secreting organizers. Science. 2026 Jul 02; 393(6806):eadu9122.. View in PubMed
  • Annotation-Based Gene-Peak Links Improve Regulatory Network Prediction of Gene Expression in Human Kidney Multi-Omics. bioRxiv. 2026 Jun 17.. View in PubMed
  • Neutrophil Transcriptomic Changes in Severe Sterile Vasoplegic Syndrome Resemble a Distinct Molecular Subtype of Septic Shock. Shock. 2026 May 01; 65(5):801-811.. View in PubMed
  • Blunt trauma induces a proinvasive transcriptional program in isolated circulating human neutrophils. J Trauma Acute Care Surg. 2026 Apr 01; 100(4):571-579.. View in PubMed
  • A latent activated olfactory stem cell state revealed by single-cell transcriptomic and epigenomic profiling. Stem Cell Reports. 2026 Feb 10; 21(2):102778.. View in PubMed
  • Epigenetic conservation infers that colorectal cancer progenitors retain the phenotypic plasticity of normal colon. Sci Rep. 2025 Nov 20; 15(1):40941.. View in PubMed
  • Presence of Tertiary Lymphoid Structures and Exhausted Tissue-Resident T Cells Determines Clinical Response to PD-1 Blockade in Renal Cell Carcinoma. Cancer Discov. 2025 May 02; 15(5):948-968.. View in PubMed
  • Attenuated kidney oxidative metabolism in young adults with type 1 diabetes. J Clin Invest. 2024 10 22; 134(24).. View in PubMed
  • Spatially resolved immune exhaustion within the alloreactive microenvironment predicts liver transplant rejection. Sci Adv. 2024 04 12; 10(15):eadm8841.. View in PubMed
  • A review of single-cell transcriptomics and epigenomics studies in maternal and child health. Epigenomics. 2024; 16(10):775-793.. View in PubMed
  • Spatially resolved immune exhaustion within the alloreactive microenvironment predicts liver transplant rejection. Res Sq. 2023 Jul 03.. View in PubMed
  • A Guide to Trajectory Inference and RNA Velocity. Methods Mol Biol. 2023; 2584:269-292.. View in PubMed
  • Normalization benchmark of ATAC-seq datasets shows the importance of accounting for GC-content effects. Cell Rep Methods. 2022 11 21; 2(11):100321.. View in PubMed
  • MUC1-C Dictates JUN and BAF-Mediated Chromatin Remodeling at Enhancer Signatures in Cancer Stem Cells. Mol Cancer Res. 2022 04 01; 20(4):556-567.. View in PubMed
  • A transcriptomic and epigenomic cell atlas of the mouse primary motor cortex. Nature. 2021 10; 598(7879):103-110.. View in PubMed
  • Progressive immune dysfunction with advancing disease stage in renal cell carcinoma. Cancer Cell. 2021 05 10; 39(5):632-648.e8.. View in PubMed
  • Non-neuronal expression of SARS-CoV-2 entry genes in the olfactory system suggests mechanisms underlying COVID-19-associated anosmia. Sci Adv. 2020 07 31; 6(31).. View in PubMed
  • Trajectory-based differential expression analysis for single-cell sequencing data. Nat Commun. 2020 03 05; 11(1):1201.. View in PubMed
  • Slingshot: cell lineage and pseudotime inference for single-cell transcriptomics. BMC Genomics. 2018 Jun 19; 19(1):477.. View in PubMed
  • Injury Activates Transient Olfactory Stem Cell States with Diverse Lineage Capacities. Cell Stem Cell. 2017 Dec 07; 21(6):775-790.e9.. View in PubMed
  • Deconstructing Olfactory Stem Cell Trajectories at Single-Cell Resolution. Cell Stem Cell. 2017 06 01; 20(6):817-830.e8.. View in PubMed
  • Bacterial microbiome of breast milk and child saliva from low-income Mexican-American women and children. Pediatr Res. 2016 06; 79(6):846-54.. View in PubMed
  • Urinary Phthalate Metabolites and Biomarkers of Oxidative Stress in a Mexican-American Cohort: Variability in Early and Late Pregnancy. Toxics. 2016 Mar; 4(1).. View in PubMed
  • PON1 as a model for integration of genetic, epigenetic, and expression data on candidate susceptibility genes. Environ Epigenet. 2015 Jan; 1(1).. View in PubMed
  • Bioconductor workflow for single-cell RNA sequencing: Normalization, dimensionality reduction, clustering, and lineage inference. F1000Res. 2017; 6:1158.. View in PubMed

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