High-throughput interrogation of immune responses using the Human Immune Profiling Pipeline

Guanning Wang; Olga Lyudovyk; Justin Y. Kim; Ya Hui Lin; Yuval Elhanati; Divij Mathew; E. John Wherry; Ramin S. Herati; Allison R. Greenplate; Benjamin Greenbaum; Santosha A. Vardhana; Alexander C. Huang

doi:10.1016/j.xpro.2023.102289

High-throughput interrogation of immune responses using the Human Immune Profiling Pipeline

Guanning Wang, Olga Lyudovyk, Justin Y. Kim, Ya Hui Lin, Yuval Elhanati, Divij Mathew, E. John Wherry, Ramin S. Herati, Allison R. Greenplate, Benjamin Greenbaum, Santosha A. Vardhana, Alexander C. Huang

Research output: Contribution to journal › Article › peer-review

1 Scopus citations

Abstract

The current abundance of immunotherapy clinical trials presents an opportunity to learn about the underlying mechanisms and pharmacodynamic effects of novel drugs on the human immune system. Here, we present a protocol to study how these immune responses impact clinical outcomes using large-scale high-throughput immune profiling of clinical cohorts. We describe the Human Immune Profiling Pipeline, which comprises an end-to-end solution from flow cytometry results to computational approaches and unsupervised patient clustering based on lymphocyte landscape. For complete details on the use and execution of this protocol, please refer to Lyudovyk et al. (2022).¹

Original language	English
Article number	102289
Journal	STAR Protocols
Volume	4
Issue number	2
DOIs	https://doi.org/10.1016/j.xpro.2023.102289
State	Published - 16 Jun 2023
Externally published	Yes

Keywords

Flow Cytometry/Mass Cytometry
Health Sciences
Immunology

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10.1016/j.xpro.2023.102289

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title = "High-throughput interrogation of immune responses using the Human Immune Profiling Pipeline",

abstract = "The current abundance of immunotherapy clinical trials presents an opportunity to learn about the underlying mechanisms and pharmacodynamic effects of novel drugs on the human immune system. Here, we present a protocol to study how these immune responses impact clinical outcomes using large-scale high-throughput immune profiling of clinical cohorts. We describe the Human Immune Profiling Pipeline, which comprises an end-to-end solution from flow cytometry results to computational approaches and unsupervised patient clustering based on lymphocyte landscape. For complete details on the use and execution of this protocol, please refer to Lyudovyk et al. (2022).1",

keywords = "Flow Cytometry/Mass Cytometry, Health Sciences, Immunology",

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doi = "10.1016/j.xpro.2023.102289",

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T1 - High-throughput interrogation of immune responses using the Human Immune Profiling Pipeline

AU - Wang, Guanning

AU - Lyudovyk, Olga

AU - Kim, Justin Y.

AU - Lin, Ya Hui

AU - Elhanati, Yuval

AU - Mathew, Divij

AU - Wherry, E. John

AU - Herati, Ramin S.

AU - Greenplate, Allison R.

AU - Greenbaum, Benjamin

AU - Vardhana, Santosha A.

AU - Huang, Alexander C.

PY - 2023/6/16

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AB - The current abundance of immunotherapy clinical trials presents an opportunity to learn about the underlying mechanisms and pharmacodynamic effects of novel drugs on the human immune system. Here, we present a protocol to study how these immune responses impact clinical outcomes using large-scale high-throughput immune profiling of clinical cohorts. We describe the Human Immune Profiling Pipeline, which comprises an end-to-end solution from flow cytometry results to computational approaches and unsupervised patient clustering based on lymphocyte landscape. For complete details on the use and execution of this protocol, please refer to Lyudovyk et al. (2022).1

KW - Flow Cytometry/Mass Cytometry

KW - Health Sciences

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High-throughput interrogation of immune responses using the Human Immune Profiling Pipeline

Abstract

Keywords

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