Influenza A Transmission Bottleneck Estimates from U.S. Household Studies

U.S. household transmission studies from the 2017/2018 to 2021/2022 seasons sequenced 567 nasal swab samples from 319 individuals in 102 households. The dataset contains bottleneck estimates for 56-60 defined transmission pairs, calculated using beta binomial and clonal mutation models. Kathryn C. Krupinsky authored this research dataset, last updated in March 2026.

Use Cases

• Estimating the size of influenza transmission bottlenecks based on intrahost single nucleotide variant (iSNV) data.
• Analyzing the impact of host factors like vaccination status, sex, and age on viral transmission bottlenecks.
• Comparing transmission bottleneck estimates from beta binomial and clonal mutation models.
• Studying the genetic diversity of influenza A virus (IAV) across different seasons and subtypes within households.

Strengths

• Data is derived from 567 samples sequenced in duplicate with a mutation identification pipeline noted for >99.99% specificity.
• Analysis includes 56-60 defined transmission pairs from two multi-season U.S. household studies.
• Bottleneck estimates are provided using two distinct statistical models (beta binomial and clonal mutation).

Limitations

• Row count is unknown, which may limit suitability assessment.
• Column-level documentation is absent; field semantics must be inferred after download.

Provenance

Source

Kathryn C. Krupinsky via figshare.

Collection Method

Nasal swabs collected daily from IAV-infected individuals in case-ascertained U.S. household transmission studies (FluTES and RVTN). Viruses were sequenced in duplicate and iSNVs identified at a 0.5% frequency threshold.

Time Range

Covers the 2017/2018, 2018/2019, 2019/2020, and 2021/2022 influenza seasons.

Freshness

Last updated 2026-03-25 18:00:40; freshness should be verified.

Geography

United States.