Image-Based Quantitation of Host Cell–Toxoplasma gondii Interplay Using HRMAn: A Host Response to Microbe Analysis Pipeline

Research output: Chapter in Book/Report/Conference proceedingChapter

Standard

Image-Based Quantitation of Host Cell–Toxoplasma gondii Interplay Using HRMAn : A Host Response to Microbe Analysis Pipeline. / Fisch, Daniel; Yakimovich, Artur; Clough, Barbara; Mercer, Jason; Frickel, Eva Maria.

Methods in Molecular Biology. ed. / Christopher J Tonkin. Vol. 2071 Humana Press, 2019. p. 411-433 (Methods in Molecular Biology; Vol. 2071).

Research output: Chapter in Book/Report/Conference proceedingChapter

Harvard

Fisch, D, Yakimovich, A, Clough, B, Mercer, J & Frickel, EM 2019, Image-Based Quantitation of Host Cell–Toxoplasma gondii Interplay Using HRMAn: A Host Response to Microbe Analysis Pipeline. in CJ Tonkin (ed.), Methods in Molecular Biology. vol. 2071, Methods in Molecular Biology, vol. 2071, Humana Press, pp. 411-433. https://doi.org/10.1007/978-1-4939-9857-9_21

APA

Fisch, D., Yakimovich, A., Clough, B., Mercer, J., & Frickel, E. M. (2019). Image-Based Quantitation of Host Cell–Toxoplasma gondii Interplay Using HRMAn: A Host Response to Microbe Analysis Pipeline. In C. J. Tonkin (Ed.), Methods in Molecular Biology (Vol. 2071, pp. 411-433). (Methods in Molecular Biology; Vol. 2071). Humana Press. https://doi.org/10.1007/978-1-4939-9857-9_21

Vancouver

Fisch D, Yakimovich A, Clough B, Mercer J, Frickel EM. Image-Based Quantitation of Host Cell–Toxoplasma gondii Interplay Using HRMAn: A Host Response to Microbe Analysis Pipeline. In Tonkin CJ, editor, Methods in Molecular Biology. Vol. 2071. Humana Press. 2019. p. 411-433. (Methods in Molecular Biology). https://doi.org/10.1007/978-1-4939-9857-9_21

Author

Fisch, Daniel ; Yakimovich, Artur ; Clough, Barbara ; Mercer, Jason ; Frickel, Eva Maria. / Image-Based Quantitation of Host Cell–Toxoplasma gondii Interplay Using HRMAn : A Host Response to Microbe Analysis Pipeline. Methods in Molecular Biology. editor / Christopher J Tonkin. Vol. 2071 Humana Press, 2019. pp. 411-433 (Methods in Molecular Biology).

Bibtex

@inbook{f33098e4d34f407391a7342a4fc4810a,
title = "Image-Based Quantitation of Host Cell–Toxoplasma gondii Interplay Using HRMAn: A Host Response to Microbe Analysis Pipeline",
abstract = "Research on Toxoplasma gondii and its interplay with the host is often performed using fluorescence microscopy-based imaging experiments combined with manual quantification of acquired images. We present here an accurate and unbiased quantification method for host–pathogen interactions. We describe how to plan experiments and prepare, stain and image infected specimens and analyze them with the program HRMAn (Host Response to Microbe Analysis). HRMAn is a high-content image analysis method based on KNIME Analytics Platform. Users of this guide will be able to perform infection studies in high-throughput volume and to a greater level of detail. Relying on cutting edge machine learning algorithms, HRMAn can be trained and tailored to many experimental settings and questions.",
keywords = "Artificial intelligence, High-content image analysis, Host–pathogen interaction, HRMAn, KNIME Analytics platform, Machine learning, Toxoplasma gondii",
author = "Daniel Fisch and Artur Yakimovich and Barbara Clough and Jason Mercer and Frickel, {Eva Maria}",
year = "2019",
month = nov,
day = "23",
doi = "10.1007/978-1-4939-9857-9_21",
language = "English",
isbn = "9781493998562",
volume = "2071",
series = "Methods in Molecular Biology",
publisher = "Humana Press",
pages = "411--433",
editor = "Tonkin, {Christopher J}",
booktitle = "Methods in Molecular Biology",

}

RIS

TY - CHAP

T1 - Image-Based Quantitation of Host Cell–Toxoplasma gondii Interplay Using HRMAn

T2 - A Host Response to Microbe Analysis Pipeline

AU - Fisch, Daniel

AU - Yakimovich, Artur

AU - Clough, Barbara

AU - Mercer, Jason

AU - Frickel, Eva Maria

PY - 2019/11/23

Y1 - 2019/11/23

N2 - Research on Toxoplasma gondii and its interplay with the host is often performed using fluorescence microscopy-based imaging experiments combined with manual quantification of acquired images. We present here an accurate and unbiased quantification method for host–pathogen interactions. We describe how to plan experiments and prepare, stain and image infected specimens and analyze them with the program HRMAn (Host Response to Microbe Analysis). HRMAn is a high-content image analysis method based on KNIME Analytics Platform. Users of this guide will be able to perform infection studies in high-throughput volume and to a greater level of detail. Relying on cutting edge machine learning algorithms, HRMAn can be trained and tailored to many experimental settings and questions.

AB - Research on Toxoplasma gondii and its interplay with the host is often performed using fluorescence microscopy-based imaging experiments combined with manual quantification of acquired images. We present here an accurate and unbiased quantification method for host–pathogen interactions. We describe how to plan experiments and prepare, stain and image infected specimens and analyze them with the program HRMAn (Host Response to Microbe Analysis). HRMAn is a high-content image analysis method based on KNIME Analytics Platform. Users of this guide will be able to perform infection studies in high-throughput volume and to a greater level of detail. Relying on cutting edge machine learning algorithms, HRMAn can be trained and tailored to many experimental settings and questions.

KW - Artificial intelligence

KW - High-content image analysis

KW - Host–pathogen interaction

KW - HRMAn

KW - KNIME Analytics platform

KW - Machine learning

KW - Toxoplasma gondii

UR - http://www.scopus.com/inward/record.url?scp=85075418242&partnerID=8YFLogxK

U2 - 10.1007/978-1-4939-9857-9_21

DO - 10.1007/978-1-4939-9857-9_21

M3 - Chapter

C2 - 31758464

AN - SCOPUS:85075418242

SN - 9781493998562

VL - 2071

T3 - Methods in Molecular Biology

SP - 411

EP - 433

BT - Methods in Molecular Biology

A2 - Tonkin, Christopher J

PB - Humana Press

ER -