What are the steps to diagnose immunodeficiency?

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Last updated: October 10, 2025View editorial policy

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Diagnostic Approach to Immunodeficiency

A stepwise laboratory evaluation is essential for diagnosing immunodeficiency, beginning with screening tests and progressing to advanced tests based on clinical presentation and initial findings. 1

Initial Evaluation Based on Clinical Presentation

  • Suspect immunodeficiency when patients present with recurrent, persistent, or severe bacterial, viral, or fungal infections; failure to thrive; or other characteristic presentations like autoimmunity or lymphoproliferation 1, 2
  • The pattern of infections often provides clues to the type of immunodeficiency:
    • Recurrent sinopulmonary infections with encapsulated bacteria suggest antibody deficiency 1
    • Deep-seated infections with abscess formation suggest phagocytic defects like Chronic Granulomatous Disease 1
    • Severe or disseminated infections with opportunistic pathogens suggest T-cell defects like SCID 1

Screening Laboratory Tests

Humoral Immunity Assessment

  • Measure serum immunoglobulin levels (IgG, IgA, IgM, IgE) 1
  • Determine specific antibody titers to both protein antigens (tetanus, diphtheria) and polysaccharide antigens (pneumococcal) 1
  • Evaluate antibody response to booster immunization if titers are low 1
  • Enumerate B cells by flow cytometry 1

Cellular Immunity Assessment

  • Complete blood count with differential to identify lymphopenia 1
  • Flow cytometry to enumerate CD4 and CD8 T cells and NK cells 1, 2
  • T-cell receptor excision circle (TREC) screening in newborns for SCID 2
  • Cutaneous delayed hypersensitivity testing 1

Phagocytic Cell Assessment

  • Complete blood count with differential to identify neutropenia or neutrophilia 1
  • Neutrophil morphology examination on peripheral blood smear 1
  • Dihydrorhodamine (DHR) reduction or nitroblue tetrazolium test for neutrophil oxidative burst 1

Complement Assessment

  • CH50 assay (total hemolytic complement activity) 1
  • AH50 assay (alternative pathway hemolytic activity) 1
  • Lectin pathway function assessment 1

Advanced Testing

Advanced Humoral Immunity Tests

  • Flow cytometry to enumerate B-cell subsets (naive and switched memory cells) 1
  • In vitro immunoglobulin production in response to mitogens or other stimuli 1

Advanced Cellular Immunity Tests

  • Flow cytometry to enumerate T-cell subsets (naive, memory, activated cells) 1, 2
  • In vitro proliferative response to mitogens and antigens 1, 2
  • T-cell cytotoxicity assays 1
  • Cytokine production assessment in response to stimuli 1

Advanced Phagocytic Cell Tests

  • Chemotaxis and/or phagocytosis assays 1
  • Enzyme assays (myeloperoxidase, G6PDH) 1
  • Bacterial or fungal killing assays 1

Genetic Testing

  • Microarray for copy number variation as initial genetic screening 1
  • Targeted gene sequencing for suspected specific disorders 1, 3
  • Whole-exome/genome sequencing for complex or undiagnosed cases 1, 3

Diagnostic Patterns in SCID

  • T cells are always affected in SCID with very low or absent counts and function 2
  • Different patterns of affected cells help determine the genetic defect:
    • T-B-NK- phenotype: seen in adenosine deaminase deficiency 2
    • T-B+NK- phenotype: common in X-linked SCID and JAK3 deficiency 2
    • T-B-NK+ phenotype: seen in RAG1/2 deficiencies 2
    • T-B+NK+ phenotype: observed in IL-7 receptor deficiency 2

Important Considerations

  • A molecular diagnosis is highly desirable to establish unequivocal diagnosis, permit accurate genetic counseling, and identify candidates for specific therapies 1
  • When uncertainty exists regarding evaluation or management, consultation with physicians experienced with immunodeficiencies is essential 1
  • Internet resources are available for healthcare providers and patients (see Table V in guidelines) 1
  • Early diagnosis is critical as it offers the best opportunity for reduced morbidity and survival 4
  • For SCID specifically, diagnosis is an urgent medical condition requiring immediate intervention 1

Pitfalls to Avoid

  • Relying solely on global immune parameters (like total immunoglobulin levels) without assessing specific immune responses 1
  • Failing to consider secondary causes of immunodeficiency before diagnosing primary immunodeficiency 1
  • Delaying evaluation when characteristic clinical presentations are present 1
  • Not considering the possibility of combined immunodeficiencies when only one component appears affected 1
  • Overlooking the need for genetic diagnosis, which is essential for definitive treatment planning 1

References

Guideline

Guideline Directed Topic Overview

Dr.Oracle Medical Advisory Board & Editors, 2025

Guideline

Cell Types Affected in Severe Combined Immunodeficiency (SCID)

Praxis Medical Insights: Practical Summaries of Clinical Guidelines, 2025

Research

12. Primary immunodeficiency diseases.

The Journal of allergy and clinical immunology, 2003

Professional Medical Disclaimer

This information is intended for healthcare professionals. Any medical decision-making should rely on clinical judgment and independently verified information. The content provided herein does not replace professional discretion and should be considered supplementary to established clinical guidelines. Healthcare providers should verify all information against primary literature and current practice standards before application in patient care. Dr.Oracle assumes no liability for clinical decisions based on this content.

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