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Jonathan Lake

Anatomic and Hematopathology

Special Interests

  • - Spatial proteomics and transcriptomics
  • - Lowering entry barriers for digital pathology, including in education
  • - Diagnostic, prognostic, and predictive tissue biomarkers

One-liner

Hematopathologist and developmental cell biologist working to bring precision tissue-based diagnostics into the drug development pipeline.

Experience

Associate Director, Translational Pathology

2022 - Present
Bristol Myers Squibb, Princeton NJ

I integrate diagnostic pathology, disease biology, and tissue-based testing technology to facilitate the drug development process. I provide pathology support for drug and biomarker development programs, and direct assay development across the scientific and regulatory spectrum ranging from cutting-edge hyperplexed mIF to chromogenic manual-read IHC assays for IDE submission under 21 CFR §812.

Instructor, Hematopathology Division

2021-2022
Department of Pathology and Laboratory Medicine, Hospital of the University of Pennsylvania

Peripheral blood, bone marrow, and tissue diagnostics for hematologic diseases, including morphology, flow cytometry, and integrated diagnosis.

Postdoctoral Fellow, Saar Gill Lab

2021-2022
Center for Cellular Immunotherapies, University of Pennsylvania

Developed manual cyclic IF and RNA-ISH wet lab methods and analysis pipeline to spatially interrogate the effects of cell therapies on myeloid diseases.

Board Certifications

Board Certified in Anatomic and Clinical Pathology

2021
American Board of Pathology

Board Certified in Hematopathology

2021
American Board of Pathology

Education and Postgraduate Medical Training

BSc in Biology

2002 - 2005
Cornell University, College of Agriculture and Life Sciences

Ithaca is cold

MD and PhD in Cell Biology

2006 - 2015
Washington University in St. Louis School of Medicine

Thesis work in Molecular Cell Biology in the lab of Dr. Robert Heuckeroth: Gene-environment interactions in Hirschsprung Disease, a model oligogenic disease

Residency in Anatomic and Clinical Pathology

2016 - 2021
Hospital of the University of Pennsylvania

CP Chief Resident 2020-2021

Fellowship in Hematopathology

2019 - 2020
Hospital of the University of Pennsylvania

Publications

  • Clinicopathologic characteristics of myeloproliferative neoplasms with JAK2 exon 12 mutation
    • Suknuntha, K., Geyer, J.T., Patel, K.P., Weinberg, O.K., Rogers, H.J., Lake, J.I., Lauridsen, L., Patel, J.L., Kluk, M.J., Arber, D.A. and Hsi, E.D.
    *Leukemia Research* 127 (2023): 107033.
  • Digital image analysis of erythroblastic islands in myelodysplastic syndromes
    • Zhang, R., Drumheller, B., Wang, L.P., Obstfeld, A.E., Lake, J.I. and Bagg, A.
    International Journal of Laboratory Hematology 45, no. 3 (2023): 289-296
  • Triple-Negative Primary Myelofibrosis: A Bone Marrow Pathology Group Study
    • Al-Ghamdi, Y.A., Lake, J., Bagg, A., Thakral, B., Wang, S.A., Bueso-Ramos, C., Masarova, L., Verstovsek, S., Rogers, H.J., Hsi, E.D. and Gralewski, J.H
    Modern Pathology 36, no. 3 (2023): 100016.
  • Subcellular detection of SARS-CoV-2 RNA in human tissue reveals distinct localization in alveolar type 2 pneumocytes and alveolar macrophages.
    • Acheampong, K.K., Schaff, D.L., Emert, B.L., Lake, J., Reffsin, S., Shea, E.K., Comar, C.E., Litzky, L.A., Khurram, N.A., Linn, R.L. and Feldman, M.
    MBio 13, no. 1 (2022): e03751-21.
  • Hematopoietic neoplasms with 9p24/JAK2 rearrangement: a multicenter study.
    • Tang, G., Sydney Sir Philip, J.K., Weinberg, O., Tam, W., Sadigh, S., Lake, J.I., Margolskee, E.M., Rogers, H.J., Miranda, R.N., Bueso-Ramos C, C. and Hsi, E.D.
    Modern Pathology 32, no. 4 (2019): 490-498.
  • Myeloid neoplasm with eosinophilia and PCM1-JAK2 associated with acute promyelocytic leukemia with PML-RARA
    • Salehi, S., Astle, J.M., Sadigh, S., Lake, J., Aikawa, V., Tang, G., Wang, S.A. and Bagg, A.
    Leukemia and Lymphoma 60, no. 9 (2019): 2299-2303.
  • Ibuprofen slows migration and inhibits bowel colonization by enteric nervous system precursors in zebrafish, chick and mouse.
    • Schill, E.M., Lake, J.I., Tusheva, O.A., Nagy, N., Bery, S.K., Foster, L., Avetisyan, M., Johnson, S.L., Stenson, W.F., Goldstein, A.M. and Heuckeroth, R.O.
    Developmental biology 409, no. 2 (2016): 473-488.
  • Neural crest requires Impdh2 for development of the enteric nervous system, great vessels, and craniofacial skeleton.
    • Lake, J.I., Avetisyan, M., Zimmermann, A.G. and Heuckeroth, R.O.
    Developmental biology 409, no. 1 (2016): 152-165.
  • Hirschsprung-like disease is exacerbated by reduced de novo GMP synthesis.
    • Lake, J.I., Tusheva, O.A., Graham, B.L. and Heuckeroth, R.O.
    Journal of clinical investigation 123, no. 11 (2013): 4875-4887.
  • Enteric nervous system development: migration, differentiation, and disease.
    • Lake, J.I. and Heuckeroth, R.O.
    American Journal of Physiology-Gastrointestinal and Liver Physiology 305, no. 1 (2013): G1-G24.

    Personal and Prior Projects

    I’m not responsible for the time you waste here; I’m only responsible for the time I waste here.

    diWSI - A minimalist motorized brightfield microscope, with the intent to create a DIY whole-slide scanner for about $1000. The initial hardware prototype is complete and does take decent photos). I’m slowly working on getting it to do useful things.
    Simple Pivot Web - Reshape spreadsheet data in the browser, without installing Excel add-ons or writing formulas. Works like a simplified tidyverse pivot_longer and pivot_wider. No data is uploaded, all work is done in clientside javascript.
    SP_Toolbar - It’s a Penn thing. IYKYK. It slices, it dices, it synchronizes the EMR and the LIS, it reformats your diagnostic lines, it even juliennes and fries. Long may it parse, OCR, and send keystrokes. As long as Cerner lives, I solemnly promise to fix it, if asked nicely.
    HLA Platelets Database - I wrote and deployed a handoff application to improve situational awareness of HLA-matched/compatible platelet unit inventories and patient needs. This integrated (nearly) live inventory status for specific earmarked units, handoff communications, and relevant patient lab results to allow the transfusion service to manage unit releases and prevent unit expiration and wastage.
    Older Projects - Mostly work related to my PhD