Kelly N Street, PhD

Title(s)Assistant Professor of Population and Public Health Sciences
SchoolKeck School of Medicine of Usc
Address1845 N. Soto Street
Health Sciences Campus
Los Angeles CA 90032
ORCID ORCID Icon0000-0001-6379-5013 Additional info
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    Collapse Biography 
    Collapse Education and Training
    University of California, Berkeley, Berkeley, CAPh.D.12/2018Biostatistics
    University of California, Berkeley, Berkeley, CAMA05/2014Biostatistics
    University of Chicago, Chicago, ILBS06/2012Mathematics

    Collapse Overview 
    Collapse 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.
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    Collapse Bibliographic 
    Collapse Publications
    Publications listed below are automatically derived from MEDLINE/PubMed and other sources, which might result in incorrect or missing publications. Researchers can login to make corrections and additions, or contact us for help. to make corrections and additions.
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    Altmetrics Details PMC Citations indicate the number of times the publication was cited by articles in PubMed Central, and the Altmetric score represents citations in news articles and social media. (Note that publications are often cited in additional ways that are not shown here.) Fields are based on how the National Library of Medicine (NLM) classifies the publication's journal and might not represent the specific topic of the publication. Translation tags are based on the publication type and the MeSH terms NLM assigns to the publication. Some publications (especially newer ones and publications not in PubMed) might not yet be assigned Field or Translation tags.) Click a Field or Translation tag to filter the publications.
    1. A review of single-cell transcriptomics and epigenomics studies in maternal and child health. Epigenomics. 2024; 16(10):775-793. Shu C, Street K, Breton CV, Bastain TM, Wilson ML. PMID: 38709139; PMCID: PMC11318716.
      View in: PubMed   Mentions:    Fields:    Translation:HumansAnimalsCells
    2. Spatially resolved immune exhaustion within the alloreactive microenvironment predicts liver transplant rejection. Sci Adv. 2024 Apr 12; 10(15):eadm8841. Barbetta A, Rocque B, Bangerth S, Street K, Weaver C, Chopra S, Kim J, Sher L, Gaudilliere B, Akbari O, Kohli R, Emamaullee J. PMID: 38608023; PMCID: PMC11014454.
      View in: PubMed   Mentions:    Fields:    
    3. Spatially resolved immune exhaustion within the alloreactive microenvironment predicts liver transplant rejection. Res Sq. 2023 Jul 03. Barbetta A, Rocque B, Bangerth S, Street K, Weaver C, Chopra S, Kim J, Sher L, Gaudilliere B, Akbari O, Kohli R, Emamaullee J. PMID: 37461437; PMCID: PMC10350170.
      View in: PubMed   Mentions:
    4. A Guide to Trajectory Inference and RNA Velocity. Methods Mol Biol. 2023; 2584:269-292. Weiler P, Van den Berge K, Street K, Tiberi S. PMID: 36495456.
      View in: PubMed   Mentions: 7     Fields:    Translation:Cells
    5. Normalization benchmark of ATAC-seq datasets shows the importance of accounting for GC-content effects. Cell Rep Methods. 2022 11 21; 2(11):100321. Van den Berge K, Chou HJ, Roux de Bézieux H, Street K, Risso D, Ngai J, Dudoit S. PMID: 36452861; PMCID: PMC9701614.
      View in: PubMed   Mentions: 4     Fields:    
    6. 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. Bhattacharya A, Fushimi A, Yamashita N, Hagiwara M, Morimoto Y, Rajabi H, Long MD, Abdulla M, Ahmad R, Street K, Liu S, Liu T, Kufe D. PMID: 35022313; PMCID: PMC8983489.
      View in: PubMed   Mentions: 18     Fields:    Translation:HumansCells
    7. A transcriptomic and epigenomic cell atlas of the mouse primary motor cortex. Nature. 2021 10; 598(7879):103-110. Yao Z, Liu H, Xie F, Fischer S, Adkins RS, Aldridge AI, Ament SA, Bartlett A, Behrens MM, Van den Berge K, Bertagnolli D, de Bézieux HR, Biancalani T, Booeshaghi AS, Bravo HC, Casper T, Colantuoni C, Crabtree J, Creasy H, Crichton K, Crow M, Dee N, Dougherty EL, Doyle WI, Dudoit S, Fang R, Felix V, Fong O, Giglio M, Goldy J, Hawrylycz M, Herb BR, Hertzano R, Hou X, Hu Q, Kancherla J, Kroll M, Lathia K, Li YE, Lucero JD, Luo C, Mahurkar A, McMillen D, Nadaf NM, Nery JR, Nguyen TN, Niu SY, Ntranos V, Orvis J, Osteen JK, Pham T, Pinto-Duarte A, Poirion O, Preissl S, Purdom E, Rimorin C, Risso D, Rivkin AC, Smith K, Street K, Sulc J, Svensson V, Tieu M, Torkelson A, Tung H, Vaishnav ED, Vanderburg CR, van Velthoven C, Wang X, White OR, Huang ZJ, Kharchenko PV, Pachter L, Ngai J, Regev A, Tasic B, Welch JD, Gillis J, Macosko EZ, Ren B, Ecker JR, Zeng H, Mukamel EA. PMID: 34616066; PMCID: PMC8494649.
      View in: PubMed   Mentions: 112     Fields:    Translation:AnimalsCells
    8. Progressive immune dysfunction with advancing disease stage in renal cell carcinoma. Cancer Cell. 2021 05 10; 39(5):632-648.e8. Braun DA, Street K, Burke KP, Cookmeyer DL, Denize T, Pedersen CB, Gohil SH, Schindler N, Pomerance L, Hirsch L, Bakouny Z, Hou Y, Forman J, Huang T, Li S, Cui A, Keskin DB, Steinharter J, Bouchard G, Sun M, Pimenta EM, Xu W, Mahoney KM, McGregor BA, Hirsch MS, Chang SL, Livak KJ, McDermott DF, Shukla SA, Olsen LR, Signoretti S, Sharpe AH, Irizarry RA, Choueiri TK, Wu CJ. PMID: 33711273; PMCID: PMC8138872.
      View in: PubMed   Mentions: 184     Fields:    Translation:HumansCells
    9. 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). Brann DH, Tsukahara T, Weinreb C, Lipovsek M, Van den Berge K, Gong B, Chance R, Macaulay IC, Chou HJ, Fletcher RB, Das D, Street K, de Bezieux HR, Choi YG, Risso D, Dudoit S, Purdom E, Mill J, Hachem RA, Matsunami H, Logan DW, Goldstein BJ, Grubb MS, Ngai J, Datta SR. PMID: 32937591; PMCID: PMC10715684.
      View in: PubMed   Mentions: 634     Fields:    Translation:HumansAnimalsCellsPHPublic Health
    10. Trajectory-based differential expression analysis for single-cell sequencing data. Nat Commun. 2020 03 05; 11(1):1201. Van den Berge K, Roux de Bézieux H, Street K, Saelens W, Cannoodt R, Saeys Y, Dudoit S, Clement L. PMID: 32139671; PMCID: PMC7058077.
      View in: PubMed   Mentions: 236     Fields:    Translation:Animals
    11. Slingshot: cell lineage and pseudotime inference for single-cell transcriptomics. BMC Genomics. 2018 Jun 19; 19(1):477. Street K, Risso D, Fletcher RB, Das D, Ngai J, Yosef N, Purdom E, Dudoit S. PMID: 29914354; PMCID: PMC6007078.
      View in: PubMed   Mentions: 960     Fields:    Translation:HumansCells
    12. Injury Activates Transient Olfactory Stem Cell States with Diverse Lineage Capacities. Cell Stem Cell. 2017 Dec 07; 21(6):775-790.e9. Gadye L, Das D, Sanchez MA, Street K, Baudhuin A, Wagner A, Cole MB, Choi YG, Yosef N, Purdom E, Dudoit S, Risso D, Ngai J, Fletcher RB. PMID: 29174333; PMCID: PMC5728414.
      View in: PubMed   Mentions: 45     Fields:    Translation:AnimalsCells
    13. Bioconductor workflow for single-cell RNA sequencing: Normalization, dimensionality reduction, clustering, and lineage inference. F1000Res. 2017; 6:1158. Perraudeau F, Risso D, Street K, Purdom E, Dudoit S. PMID: 28868140; PMCID: PMC5558107.
      View in: PubMed   Mentions: 11     Fields:    
    14. Deconstructing Olfactory Stem Cell Trajectories at Single-Cell Resolution. Cell Stem Cell. 2017 06 01; 20(6):817-830.e8. Fletcher RB, Das D, Gadye L, Street KN, Baudhuin A, Wagner A, Cole MB, Flores Q, Choi YG, Yosef N, Purdom E, Dudoit S, Risso D, Ngai J. PMID: 28506465; PMCID: PMC5484588.
      View in: PubMed   Mentions: 102     Fields:    Translation:AnimalsCells
    15. Urinary Phthalate Metabolites and Biomarkers of Oxidative Stress in a Mexican-American Cohort: Variability in Early and Late Pregnancy. Toxics. 2016 Mar; 4(1). Holland N, Huen K, Tran V, Street K, Nguyen B, Bradman A, Eskenazi B. PMID: 28008399; PMCID: PMC5171220.
      View in: PubMed   Mentions: 31  
    16. Bacterial microbiome of breast milk and child saliva from low-income Mexican-American women and children. Pediatr Res. 2016 06; 79(6):846-54. Davé V, Street K, Francis S, Bradman A, Riley L, Eskenazi B, Holland N. PMID: 26756784; PMCID: PMC4899194.
      View in: PubMed   Mentions: 37     Fields:    Translation:HumansCellsPHPublic Health
    17. PON1 as a model for integration of genetic, epigenetic, and expression data on candidate susceptibility genes. Environ Epigenet. 2015 Jan; 1(1). Huen K, Yousefi P, Street K, Eskenazi B, Holland N. PMID: 26913202; PMCID: PMC4762373.
      View in: PubMed   Mentions: 18  
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    NIH Funding Acknowledgment: Important - All publications resulting from the utilization of SC CTSI resources are required to credit the SC CTSI grant by including the NIH funding acknowledgment and must comply with the NIH Public Access Policy.

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