Journal: iScience

Article Title: MAP3K19 regulatory variation in populations with African ancestry may increase COVID-19 severity

doi: 10.1016/j.isci.2023.107555

Figure Lengend Snippet: SNPs displaying the greatest differential association signal between two GWASs that compared COVID-19 hospitalized cases to either non-hospitalized patients (HGI-B1) or the general population (HGI-B2)

Article Snippet: To determine whether the association of rs16831827 with COVID-19 hospitalization was reproducible and to evaluate whether other MAP3K19 SNPs are associated with different COVID-19 phenotypes, we queried the SNP of MAP3K19 in publicly available COVID-19 GWASs, including GRASP ( https://grasp.nhlbi.nih.gov/COVID-19GWASResults.aspx ), the European population specific severe COVID-19 GWAS, and the Regeneron curated COVID-19 GWASs for MAP3K19 ( https://rgc-covid19.regeneron.com/ ).

Techniques:

Journal: iScience

Article Title: MAP3K19 regulatory variation in populations with African ancestry may increase COVID-19 severity

doi: 10.1016/j.isci.2023.107555

Figure Lengend Snippet: Local Manhattan plots of COVID-19 association signals around MAP3K19 The four scatterplots illustrate the association signals among 4 GWASs: HGI-B1, HGI-B2, raw HGI-B1 vs. HGI-B2, and normalized HGI-B1 vs. HGI-B2. After adjusting for sample overlap, the final differential effect size of rs16831827 for the HGI-B1 to HGI-B2 comparison is p = 7.8 × 10 −8 . The positive and negative directions of effect sizes are colored orange and green in the scatterplots.

Article Snippet: To determine whether the association of rs16831827 with COVID-19 hospitalization was reproducible and to evaluate whether other MAP3K19 SNPs are associated with different COVID-19 phenotypes, we queried the SNP of MAP3K19 in publicly available COVID-19 GWASs, including GRASP ( https://grasp.nhlbi.nih.gov/COVID-19GWASResults.aspx ), the European population specific severe COVID-19 GWAS, and the Regeneron curated COVID-19 GWASs for MAP3K19 ( https://rgc-covid19.regeneron.com/ ).

Techniques: Comparison

Journal: iScience

Article Title: MAP3K19 regulatory variation in populations with African ancestry may increase COVID-19 severity

doi: 10.1016/j.isci.2023.107555

Figure Lengend Snippet: Analysis of rs16831827 and MAP3K19 expression (A) eQTL analysis of rs16831827 in GTEx tissues. (B) Expression of MAP3K19 across GTEx tissues. The error bar indicates the 95% confidence interval (CI) of odd ratio (OR). (C) MAP3K19 expression among lung single cell types. Only tissues with median normalized expression of Transcripts Per Kilobase Million (TPM) > 0.05 were included in panel A and B. The box-and-whisker plots display the mean (dot within box), median (line inside the box), inter-quantile interval (box), minimum (lowest value of whisker), and maximum (maximum value of whisker), with outliers represented by dots up or down the whiskers. Note: the lower or upper whisker is the line specifically goes from the minimum to the lower quartile or the line links the upper quartile to maximum. NES: normalized effect size.

Article Snippet: To determine whether the association of rs16831827 with COVID-19 hospitalization was reproducible and to evaluate whether other MAP3K19 SNPs are associated with different COVID-19 phenotypes, we queried the SNP of MAP3K19 in publicly available COVID-19 GWASs, including GRASP ( https://grasp.nhlbi.nih.gov/COVID-19GWASResults.aspx ), the European population specific severe COVID-19 GWAS, and the Regeneron curated COVID-19 GWASs for MAP3K19 ( https://rgc-covid19.regeneron.com/ ).

Techniques: Expressing, Whisker Assay

Journal: iScience

Article Title: MAP3K19 regulatory variation in populations with African ancestry may increase COVID-19 severity

doi: 10.1016/j.isci.2023.107555

Figure Lengend Snippet: MAP3K19 is expressed in ciliated cells and associated with COVID-19 severity (A) Uniform Manifold Approximation and Projection (UMAP) of nasopharyngeal single cell expression profiles from healthy controls (n = 16), severe (n = 23), and critical (n = 9) COVID-19 patients. (B) Highlighted view of ciliated clusters expressing MAP3K19 with black dots in the UMAP as that from panel (A). MAP3K19 is predominantly expressed in ciliated cell types. (C) Fewer ciliated cells show MAP3K19 expression in individuals with COVID-19. (D) The percentage of each cell type among all cells. (E) The percentage of MAP3K19 -expressing cells. (F) MAP3K19 expression is reduced in ciliated cells of critical COVID-19 patients. There are 4 ciliated cell types: ciliated (Ciliated), ciliated-differentiated (Ciliated-Diff), ciliated-viral-response (Ciliated-ViralResp), and secretory-ciliated (Secretory-Ciliated) cells. MAP3K19 expression was reduced in Ciliated-Diff, Ciliated-ViralResp, and Secretory-Ciliated cells but not Ciliated cells from severe critical COVID-19 patients compared to healthy controls. MAP3K19 expression is lower in Ciliated-Diff and Ciliated-ViralResp cells of critical relative to severe COVID-19 patients. The box-and-whisker plots display the mean (dot within box), median (line within the box), inter-quantile interval (box), minimum (lowest value of whisker), and maximum (maximum value of whisker), with outliers represented by dots above or below the whiskers. Pairwise statistical significance test was conducted with the “lsmeans” statement adjusted by the “TUKEY” method using the SAS procedure “proc GLM”, with p < 0.05 set as the significance threshold.

Article Snippet: To determine whether the association of rs16831827 with COVID-19 hospitalization was reproducible and to evaluate whether other MAP3K19 SNPs are associated with different COVID-19 phenotypes, we queried the SNP of MAP3K19 in publicly available COVID-19 GWASs, including GRASP ( https://grasp.nhlbi.nih.gov/COVID-19GWASResults.aspx ), the European population specific severe COVID-19 GWAS, and the Regeneron curated COVID-19 GWASs for MAP3K19 ( https://rgc-covid19.regeneron.com/ ).

Techniques: Expressing, Whisker Assay

Journal: iScience

Article Title: MAP3K19 regulatory variation in populations with African ancestry may increase COVID-19 severity

doi: 10.1016/j.isci.2023.107555

Figure Lengend Snippet:

Article Snippet: To determine whether the association of rs16831827 with COVID-19 hospitalization was reproducible and to evaluate whether other MAP3K19 SNPs are associated with different COVID-19 phenotypes, we queried the SNP of MAP3K19 in publicly available COVID-19 GWASs, including GRASP ( https://grasp.nhlbi.nih.gov/COVID-19GWASResults.aspx ), the European population specific severe COVID-19 GWAS, and the Regeneron curated COVID-19 GWASs for MAP3K19 ( https://rgc-covid19.regeneron.com/ ).

Techniques: Infection, Software

Journal: Frontiers in Psychiatry

Article Title: Genomic structural equation study reveals links between anorexia nervosa and delay discounting and lack of perseverance but not other facets of impulsivity

doi: 10.3389/fpsyt.2025.1613776

Figure Lengend Snippet: Genetic correlation model with AN, impulsivity facets, SUDs, delay discounting, sensation seeking, and lack of perseverance, adapted from prior studies . Ovals indicate latent factors, and squares indicate individual GWAS summary statistics. In this model, a “common impulsivity” factor successfully captured the shared variance across selected measures of the UPPS-P and BIS scales. To capture the particularly high correlation among UPPS-P negative urgency and UPPS-P positive urgency subscales, we included a second latent factor called “urgency-specific impulsivity”, which was fixed to be uncorrelated with genetic variance in common impulsivity. The four SUDs were modeled using a single factor (“substance use disorders”). The values under each trait represent the residual variances of the indicators. The colors are included for ease of visualization (e.g., black, correlations with AN; blue, correlations with SUDs; orange, correlations among impulsivity facets). UPPS-P NU, UPPS-P Negative Urgency; UPPS-P PU, UPPS-P Positive Urgency; UPPS-P Premed, UPPS-P Premediation; BIS Nonplan, BIS Nonplanning; SUDs, substance use disorders; PAU, problematic alcohol use; CUD, cannabis use disorder; OUD, opioid use disorder; TUD, tobacco use disorder; SS, BIS Sensation Seeking; Persev, BIS Lack of Perseverance; DD, delay discounting; AN, anorexia nervosa; GWASs, genome-wide association studies.

Article Snippet: GWASs of impulsivity were based on a sample of up to 133,517 23andMe Inc. research participants ( , ).

Techniques: Cannabis, GWAS