Protocol for multimodal analysis of human kidney tissue by imaging mass spectrometry and CODEX multiplexed immunofluorescence

Elizabeth K Neumann; Nathan Heath Patterson; Jamie L Allen; Lukasz G Migas; Haichun Yang; Maya Brewer; David M Anderson; Jennifer Harvey; Danielle B Gutierrez; Raymond C Harris; Mark P deCaestecker; Agnes B Fogo; Raf Van de Plas; Richard M Caprioli; Jeffrey M Spraggins

doi:10.1016/j.xpro.2021.100747

Protocol for multimodal analysis of human kidney tissue by imaging mass spectrometry and CODEX multiplexed immunofluorescence

STAR Protoc. 2021 Aug 13;2(3):100747. doi: 10.1016/j.xpro.2021.100747. eCollection 2021 Sep 17.

Authors

Elizabeth K Neumann^{1

2}, Nathan Heath Patterson^{1

2}, Jamie L Allen^{1

2}, Lukasz G Migas³, Haichun Yang⁴, Maya Brewer⁴, David M Anderson^{1

2}, Jennifer Harvey², Danielle B Gutierrez^{1

2}, Raymond C Harris⁴, Mark P deCaestecker⁴, Agnes B Fogo^{4

5

6}, Raf Van de Plas^{1

2

3}, Richard M Caprioli^{1

2

7}, Jeffrey M Spraggins^{1

2

7

8}

Affiliations

¹ Department of Biochemistry, Vanderbilt University, Nashville, TN 37232, USA.
² Mass Spectrometry Research Center, Vanderbilt University, Nashville, TN 37232, USA.
³ Delft Center for Systems and Control (DCSC), Delft University of Technology, 2628 CD Delft, the Netherlands.
⁴ Division of Nephrology and Hypertension, Department of Medicine, Vanderbilt University Medical Center, Nashville, TN 37232, USA.
⁵ Department of Pathology, Microbiology and Immunology, Vanderbilt University Medical Center, Nashville, TN 37232, USA.
⁶ Departments of Medicine and Pediatrics, Vanderbilt University Medical Center, Nashville, TN 37232, USA.
⁷ Department of Chemistry, Vanderbilt University, Nashville, TN 37232, USA.
⁸ Department of Cell and Developmental Biology, Vanderbilt University School of Medicine, Nashville, TN 37232, USA.

Abstract

Here, we describe the preservation and preparation of human kidney tissue for interrogation by histopathology, imaging mass spectrometry, and multiplexed immunofluorescence. Custom image registration and integration techniques are used to create cellular and molecular atlases of this organ system. Through careful optimization, we ensure high-quality and reproducible datasets suitable for cross-patient comparisons that are essential to understanding human health and disease. Moreover, each of these steps can be adapted to other organ systems or diseases, enabling additional atlas efforts.

Keywords: Antibody; Chemistry; Health Sciences; Mass Spectrometry; Metabolomics; Microscopy.

Publication types

Research Support, N.I.H., Extramural
Research Support, U.S. Gov't, Non-P.H.S.

MeSH terms

Animals
Diagnostic Imaging
Fluorescent Antibody Technique / methods*
Humans
Image Processing, Computer-Assisted / methods
Kidney / cytology
Kidney / diagnostic imaging*
Mass Spectrometry / methods
Multimodal Imaging / methods*
Single-Cell Analysis / methods
Specimen Handling / methods*
Staining and Labeling / methods

Abstract

Publication types

MeSH terms

Grants and funding