National Health and Nutrition Examination Survey

1999-2004 Data Documentation, Codebook, and Frequencies

Cytomegalovirus shedding - Urine (Surplus) (SSUCSH_A)

Data File: SSUCSH_A.xpt

First Published: January 2016

Last Revised: April 2022

Note: The NHANES Biospecimen Program processes were reevaluated in 2021 and 2022 to monitor quality control after a procedural error was identified. This error did not pose any risk of participant disclosure. Addressing this error resulted in the removal of some records from various stored biospecimen data files between 1999 and 2018 that did not meet program standards. After a comprehensive review of all stored specimen datasets, this data file was modified to remove records (<5% of records) that were initially included in error. No data values were altered. The sample weights and overall estimates were compared between the original and revised files. The sample weights provided with the original data release are appropriate to use with this updated data file; therefore, no new survey weights were created. The overall estimates from these files were examined and are consistent with the previous file. However, not all possible analyses were performed. For any queries related to this dataset please email the Biospecimen Program at serumplasmaurine@cdc.gov.

Component Description

Among participants aged 6-49 years in NHANES between 1999 and 2004 who had stored urine samples available and were cytomegalovirus (CMV) IgG positive, urine specimens were tested with real time PCR to detect CMV.

Eligible Sample

Surplus urine from individuals aged 6 to 49 years who participated in NHANES years 1999 to 2004 and were CMV IgG+.

Description of Laboratory Methodology

DNA Extraction: DNA was extracted from urine specimens by treatment with the QIAamp MinElute Media kit (Qiagen, Valencia, CA) then processed with the Qiacube automated extractor (Qiagen, Valencia, CA), both following manufacturer’s instructions.

PCR: The detection of CMV DNA was performed with polymerase chain reaction (PCR) targeting the viral immediate early 2 (IE-2) region as described by Bopanna et al., and using the MX 3005P Real-time PCR System (Agilent Technologies, New Castle, DE).

Laboratory Quality Assurance and Monitoring

Commercial reagents were used for all CMV detection. All QA/QC procedures recommended by the manufacturer were followed. The laboratory follows guidelines established by CDC Quality Management Systems (QMS) to ensure overall quality and consistency in diagnostic testing.

Data Processing and Editing

Data were submitted after all the testing on CMV detection was complete. The data were not edited.

Data Access: All data are publicly available.

Analytic Notes

There are two variables:

Shedding: urinary CMV shedding results (1=Yes, 2=No, 3=Equivocal)

VirLoad: CMV urinary viral load Measured in copies/mL. Continuous variable - Values range from 68 to 707687.

Codebook and Frequencies

SEQN - Respondent sequence number

Variable Name:: SEQN
SAS Label:: Respondent sequence number
English Text:: Respondent sequence number.
Target:: Both males and females 6 YEARS - 49 YEARS

SSUCYSH - Cytomegalovirus shedding

Variable Name:: SSUCYSH
SAS Label:: Cytomegalovirus shedding
English Text:: Cytomegalovirus shedding
Target:: Both males and females 6 YEARS - 49 YEARS

Code or Value	Value Description	Count	Cumulative
1	Positive	537	537
2	Negative	6286	6823
3	Equivocal	31	6854
.	Missing	0	6854

SSUCTVL - Cytomegalovirus viral load Copies/mL

Variable Name:: SSUCTVL
SAS Label:: Cytomegalovirus viral load Copies/mL
English Text:: Cytomegalovirus viral load Copies/mL
Target:: Both males and females 6 YEARS - 49 YEARS

Code or Value	Value Description	Count	Cumulative	Skip to Item
68 to 707687	Range of Values	537	537
.	Missing	6317	6854

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