Kelly N Street

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.

• Spatially resolved immune exhaustion within the alloreactive microenvironment predicts liver transplant rejection Sci Adv. 2024 Apr 12; 10(15):eadm8841. . 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
• 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
• 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
• 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 carcinomaCancer Cell. 2021 05 10; 39(5):632-648. e8. . View in PubMed
• Trajectory-based differential expression analysis for single-cell sequencing data Nat Commun. 2020 03 05; 11(1):1201. . 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
• 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 CapacitiesCell Stem Cell. 2017 Dec 07; 21(6):775-790. e9. . View in PubMed
• Bioconductor workflow for single-cell RNA sequencing: Normalization, dimensionality reduction, clustering, and lineage inference F1000Res. 2017; 6:1158. . View in PubMed
• Deconstructing Olfactory Stem Cell Trajectories at Single-Cell ResolutionCell Stem Cell. 2017 06 01; 20(6):817-830. e8. . 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
• 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
• 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

• Bernstein, Kenneth
• McMahon, Andrew
• Gill, Inderbir