Host-Based Peripheral Blood Gene Expression Analysis for Diagnosis of Infectious Diseases

Holcomb, Zachary E.; Tsalik, Ephraim L.; Woods, Christopher W.; McClain, Micah T.

doi:10.1128/jcm.01057-16

Cited by 61 publications

(47 citation statements)

References 27 publications

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“…Other investigators have described gene sets based on peripheral blood gene expression for the diagnosis of infections (reviewed elsewhere [51]). However, most of these have used complex algorithms that required local retraining in independent cohorts and so cannot be said strictly to have been validated.…”

Section: Transcriptomics In the Diagnosis Of Infectionsmentioning

confidence: 99%

Diagnosing and Managing Sepsis by Probing the Host Response to Infection: Advances, Opportunities, and Challenges

Gunsolus

Sweeney²,

Liesenfeld³

et al. 2019

J Clin Microbiol

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Sepsis is a major source of mortality and morbidity globally. Accurately diagnosing sepsis remains challenging due to the heterogeneous nature of the disease, and delays in diagnosis and intervention contribute to high mortality rates. Measuring the host response to infection enables more rapid diagnosis of sepsis than is possible through direct detection of the causative pathogen, and recent advances in host response diagnostics and prognostics hold promise for improving outcomes. The current review discusses recent advances in the technologies used to probe the host response to infection, particularly those based on transcriptomics. These are discussed in the context of contemporary approaches to diagnosing and prognosing sepsis, and recommendations are made for successful development and validation of host response technologies.

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Section: Transcriptomics In the Diagnosis Of Infectionsmentioning

confidence: 99%

Diagnosing and Managing Sepsis by Probing the Host Response to Infection: Advances, Opportunities, and Challenges

Gunsolus

Sweeney²,

Liesenfeld³

et al. 2019

J Clin Microbiol

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show abstract

“…Certain host genes are transcribed when fighting an infectious disease, and these transcripts, or their absence, can be detected using current transcriptomic approaches, providing additional clues to the type of infection . Quantifying the level of these particular transcripts can also distinguish between an infectious and non‐infectious disease . 2.…”

Section: Assessing and Treating Diseases In Pathology: The Present Anmentioning

confidence: 99%

Microbiome applications for pathology: challenges of low microbial biomass samples during diagnostic testing

Selway

Eisenhofer

Weyrich

2020

The Journal of Pathology CR

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The human microbiome can play key roles in disease, and diagnostic testing will soon have the ability to examine these roles in the context of clinical applications. Currently, most diagnostic testing in pathology applications focuses on a small number of disease-causing microbes and dismisses the whole microbial community that causes or is modulated by disease. Microbiome modifications have already provided clinically relevant insights in gut and oral diseases, such as irritable bowel disease, but there are currently limitations when clinically examining microbiomes outside of these body sites. This is critical, as the majority of microbial samples used in pathology originate from body sites that contain low concentrations of microbial DNA, including skin, tissue, blood, and urine. These samples, also known as low microbial biomass samples, are difficult to examine without careful consideration and precautions to mitigate contamination and biases. Here, we present the limitations when analysing low microbial biomass samples using current protocols and techniques and highlight the advantages that microbiome testing can offer diagnostics in the future, if the proper precautions are implemented. Specifically, we discuss the sources of contamination and biases that may result in false assessments for these sample types. Finally, we provide recommendations to mitigate contamination and biases from low microbial biomass samples during diagnostic testing, which will be especially important to effectively diagnose and treat patients using microbiome analyses.

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“…Despite its undoubted clinical relevance, the performance of conventional microbiology is still suboptimal in many circumstances, especially in the setting of SOTRs, where the rapid and accurate identification of the causative pathogens of respiratory infections is critical for appropriate therapeutic management [3]. The most significant pitfalls of conventional microbiology are described below.…”

Section: Etiologic Diagnosis Of Lung Infections In Solid Organ Transpmentioning

confidence: 99%

“…First, the rapid and accurate identification of the causative pathogens of lung infections is critical for the appropriate therapeutic management of patients and to avert fatal outcomes. Unfortunately, conventional microbiology is characterized by suboptimal diagnostic accuracy, and few studies have attempted to describe the etiologic distribution of lung infections in SOTRs [3]. Second, the adverse outcomes associated with lung infections in SOTRs have led to the common use of prolonged courses of broad-spectrum antimicrobial agents in SOTRs.…”

Section: Introductionmentioning

confidence: 99%

Challenges in the Diagnosis and Management of Bacterial Lung Infections in Solid Organ Recipients: A Narrative Review

Carugati

Morlacchi

Peri

et al. 2020

IJMS

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Respiratory infections pose a significant threat to the success of solid organ transplantation, and the diagnosis and management of these infections are challenging. The current narrative review addressed some of these challenges, based on evidence from the literature published in the last 20 years. Specifically, we focused our attention on (i) the obstacles to an etiologic diagnosis of respiratory infections among solid organ transplant recipients, (ii) the management of bacterial respiratory infections in an era characterized by increased antimicrobial resistance, and (iii) the development of antimicrobial stewardship programs dedicated to solid organ transplant recipients.

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Host-Based Peripheral Blood Gene Expression Analysis for Diagnosis of Infectious Diseases

Cited by 61 publications

References 27 publications

Diagnosing and Managing Sepsis by Probing the Host Response to Infection: Advances, Opportunities, and Challenges

Diagnosing and Managing Sepsis by Probing the Host Response to Infection: Advances, Opportunities, and Challenges

Microbiome applications for pathology: challenges of low microbial biomass samples during diagnostic testing

Challenges in the Diagnosis and Management of Bacterial Lung Infections in Solid Organ Recipients: A Narrative Review

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