Dataset Information

Domain-Scan: Combinatorial Sero-Diagnosis of Infectious Diseases Using Machine Learning.

ABSTRACT: The presence of pathogen-specific antibodies in an individual's blood-sample is used as an indication of previous exposure and infection to that specific pathogen (e.g., virus or bacterium). Measurement of the diagnostic antibodies is routinely achieved using solid phase immuno-assays such as ELISA tests and western blots. Here, we describe a sero-diagnostic approach based on phage-display of epitope arrays we term "Domain-Scan". We harness Next-generation sequencing (NGS) to measure the serum binding to dozens of epitopes derived from HIV-1 and HCV simultaneously. The distinction of healthy individuals from those infected with either HIV-1 or HCV, is modeled as a machine-learning classification problem, in which each determinant ("domain") is considered as a feature, and its NGS read-out provides values that correspond to the level of determinant-specific antibodies in the sample. We show that following training of a machine-learning model on labeled examples, we can very accurately classify unlabeled samples and pinpoint the domains that contribute most to the classification. Our experimental/computational Domain-Scan approach is general and can be adapted to other pathogens as long as sufficient training samples are provided.

SUBMITTER: Hada-Neeman S

PROVIDER: S-EPMC7902724 | biostudies-literature | 2020

REPOSITORIES: biostudies-literature

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Publications

Domain-Scan: Combinatorial Sero-Diagnosis of Infectious Diseases Using Machine Learning.

Hada-Neeman Smadar S Weiss-Ottolenghi Yael Y Wagner Naama N Avram Oren O Ashkenazy Haim H Maor Yaakov Y Sklan Ella H EH Shcherbakov Dmitry D Pupko Tal T Gershoni Jonathan M JM

Frontiers in immunology 20210210

The presence of pathogen-specific antibodies in an individual's blood-sample is used as an indication of previous exposure and infection to that specific pathogen (e.g., virus or bacterium). Measurement of the diagnostic antibodies is routinely achieved using solid phase immuno-assays such as ELISA tests and western blots. Here, we describe a sero-diagnostic approach based on phage-display of epitope arrays we term "Domain-Scan". We harness Next-generation sequencing (NGS) to measure the serum b ...[more]

PMID: 33643301

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Dataset Information

Domain-Scan: Combinatorial Sero-Diagnosis of Infectious Diseases Using Machine Learning.

Publications

Domain-Scan: Combinatorial Sero-Diagnosis of Infectious Diseases Using Machine Learning.

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