Principle Components Analysis - Maternal Tdap+ vs. mTdap-

Last updated: 2024-12-02

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File	Version	Author	Date	Message
Rmd	03a267b	alecbuetow	2024-12-02	updated loops with feature clusters
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Maternal Tdap+ vs. Tdap- visit:vaccinated - vaccinated : PCA Results

Antigen: PT

Features: PT_ADCD, PT_ADCP, PT_ADNP, PT_FcgR2a, PT_FcgR3b, PT_IgG1, PT_IgG3, PT_IgG2, PT_IgG4

Proportion of Variance

Summary for first 5 principal components (PC)

	PC1	PC2	PC3	PC4	PC5
Standard deviation	2.158	1.119	0.922	0.862	0.739
Proportion of Variance	0.517	0.139	0.094	0.083	0.061
Cumulative Proportion	0.517	0.656	0.751	0.833	0.894

Plot of PC1 vs PC2 scores

Comparison of principle components by arm
Maternal Tdap+ vs. Tdap- vaccinated PT PC1: p=.00019
Maternal Tdap+ vs. Tdap- vaccinated PT PC2: p=.77

Plot of PCA Eigen Vectors

Correlation between features and each PC score - colored by variance contribution

**Loadings plot

Plot of UMAP1 vs UMAP2 Loadings

Comparison of UMAP loadings by arm
Maternal Tdap+ vs. Tdap- vaccinated PT UMAP1: p=.0012
Maternal Tdap+ vs. Tdap- vaccinated PT UMAP2: p=.019

Antigen: FHA

Features: FHA_ADCD, FHA_ADNP, FHA_FcgR2a, FHA_FcgR3b, FHA_IgG1, FHA_IgG3, FHA_ADCP, FHA_IgG2, FHA_IgG4

Proportion of Variance

Summary for first 5 principal components (PC)

	PC1	PC2	PC3	PC4	PC5
Standard deviation	1.936	1.240	1.072	0.840	0.748
Proportion of Variance	0.417	0.171	0.128	0.078	0.062
Cumulative Proportion	0.417	0.587	0.715	0.793	0.855

Plot of PC1 vs PC2 scores

Comparison of principle components by arm
Maternal Tdap+ vs. Tdap- vaccinated FHA PC1: p=.00057
Maternal Tdap+ vs. Tdap- vaccinated FHA PC2: p=.0018

Plot of PCA Eigen Vectors

Correlation between features and each PC score - colored by variance contribution

**Loadings plot

Plot of UMAP1 vs UMAP2 Loadings

Comparison of UMAP loadings by arm
Maternal Tdap+ vs. Tdap- vaccinated FHA UMAP1: p=.44
Maternal Tdap+ vs. Tdap- vaccinated FHA UMAP2: p=.063

Antigen: PRN

Features: PRN_ADCD, PRN_FcgR2a, PRN_FcgR3b, PRN_IgG1, PRN_IgG3, PRN_ADCP, PRN_ADNP, PRN_IgG2, PRN_IgG4

Proportion of Variance

Summary for first 5 principal components (PC)

	PC1	PC2	PC3	PC4	PC5
Standard deviation	1.709	1.193	1.046	0.982	0.915
Proportion of Variance	0.325	0.158	0.122	0.107	0.093
Cumulative Proportion	0.325	0.483	0.604	0.712	0.805

Plot of PC1 vs PC2 scores

Comparison of principle components by arm
Maternal Tdap+ vs. Tdap- vaccinated PRN PC1: p<.0001
Maternal Tdap+ vs. Tdap- vaccinated PRN PC2: p=.087

Plot of PCA Eigen Vectors

Correlation between features and each PC score - colored by variance contribution

**Loadings plot

Plot of UMAP1 vs UMAP2 Loadings

Comparison of UMAP loadings by arm
Maternal Tdap+ vs. Tdap- vaccinated PRN UMAP1: p=.64
Maternal Tdap+ vs. Tdap- vaccinated PRN UMAP2: p<.0001

Antigen: DT

Features: DT_ADCD, DT_FcgR2a, DT_FcgR3b, DT_IgG1, DT_IgG3, DT_ADCP, DT_ADNP, DT_IgG2, DT_IgG4

Proportion of Variance

Summary for first 5 principal components (PC)

	PC1	PC2	PC3	PC4	PC5
Standard deviation	1.677	1.257	1.154	1.004	0.811
Proportion of Variance	0.312	0.176	0.148	0.112	0.073
Cumulative Proportion	0.312	0.488	0.636	0.748	0.821

Plot of PC1 vs PC2 scores

Comparison of principle components by arm
Maternal Tdap+ vs. Tdap- vaccinated DT PC1: p<.0001
Maternal Tdap+ vs. Tdap- vaccinated DT PC2: p=.25

Plot of PCA Eigen Vectors

Correlation between features and each PC score - colored by variance contribution

**Loadings plot

Plot of UMAP1 vs UMAP2 Loadings

Comparison of UMAP loadings by arm
Maternal Tdap+ vs. Tdap- vaccinated DT UMAP1: p=.00066
Maternal Tdap+ vs. Tdap- vaccinated DT UMAP2: p=.23

Antigen: TT

Features: TT_ADCD, TT_ADCP, TT_ADNP, TT_FcgR2a, TT_FcgR3b, TT_IgG1, TT_IgG3, TT_IgG2, TT_IgG4

Proportion of Variance

Summary for first 5 principal components (PC)

	PC1	PC2	PC3	PC4	PC5
Standard deviation	1.978	1.213	0.989	0.872	0.786
Proportion of Variance	0.435	0.164	0.109	0.084	0.069
Cumulative Proportion	0.435	0.598	0.707	0.791	0.860

Plot of PC1 vs PC2 scores

Comparison of principle components by arm
Maternal Tdap+ vs. Tdap- vaccinated TT PC1: p<.0001
Maternal Tdap+ vs. Tdap- vaccinated TT PC2: p=.8

Plot of PCA Eigen Vectors

Correlation between features and each PC score - colored by variance contribution

**Loadings plot

Plot of UMAP1 vs UMAP2 Loadings

Comparison of UMAP loadings by arm
Maternal Tdap+ vs. Tdap- vaccinated TT UMAP1: p=.19
Maternal Tdap+ vs. Tdap- vaccinated TT UMAP2: p=.033

Feature Cluster: IgG2 / IgG4

Features: PT_IgG2, DT_IgG2, DT_IgG4, FHA_IgG2, FHA_IgG4, PT_IgG4, TT_IgG2, TT_IgG4, PRN_IgG2, PRN_IgG4

Proportion of Variance

summary for first 5 principal components (PC)

	PC1	PC2	PC3	PC4	PC5	PC6	PC7	PC8	PC9	PC10
Standard deviation	1.811	1.254	1.105	1.003	0.931	0.765	0.739	0.653	0.527	0.466
Proportion of Variance	0.328	0.157	0.122	0.101	0.087	0.059	0.055	0.043	0.028	0.022
Cumulative Proportion	0.328	0.485	0.607	0.708	0.795	0.853	0.908	0.950	0.978	1.000

Plot of PC1 vs PC2 scores

Comparison of principle components by arm
Maternal Tdap+ vs. Tdap- vaccinated Feature Cluster IgG2 / IgG4 PC1: p=.41
Maternal Tdap+ vs. Tdap- vaccinated Feature Cluster IgG2 / IgG4 PC2: p=.12

Plot of PCA Eigen Vectors

Correlation between features and each PC score - colored by variance contribution

**Loadings plot

Plot of UMAP1 vs UMAP2 Loadings

Comparison of UMAP loadings by arm
Maternal Tdap+ vs. Tdap- vaccinated TT UMAP1: p=.18
Maternal Tdap+ vs. Tdap- vaccinated TT UMAP2: p=.17

Feature Cluster: ADCD

Features: DT_ADCD, FHA_ADCD, PRN_ADCD, PT_ADCD, TT_ADCD

Proportion of Variance

summary for first 5 principal components (PC)

	PC1	PC2	PC3	PC4	PC5
Standard deviation	1.966	0.772	0.566	0.350	0.313
Proportion of Variance	0.773	0.119	0.064	0.024	0.020
Cumulative Proportion	0.773	0.892	0.956	0.980	1.000

Plot of PC1 vs PC2 scores

Comparison of principle components by arm
Maternal Tdap+ vs. Tdap- vaccinated Feature Cluster ADCD PC1: p=.0038
Maternal Tdap+ vs. Tdap- vaccinated Feature Cluster ADCD PC2: p=.032

Plot of PCA Eigen Vectors

Correlation between features and each PC score - colored by variance contribution

**Loadings plot

Plot of UMAP1 vs UMAP2 Loadings

Comparison of UMAP loadings by arm
Maternal Tdap+ vs. Tdap- vaccinated TT UMAP1: p=.83
Maternal Tdap+ vs. Tdap- vaccinated TT UMAP2: p=.0015

Feature Cluster: ADNP / ADCP

Features: FHA_ADNP, PT_ADCP, PT_ADNP, TT_ADCP, TT_ADNP, DT_ADCP, FHA_ADCP, PRN_ADCP, DT_ADNP, PRN_ADNP

Proportion of Variance

summary for first 5 principal components (PC)

	PC1	PC2	PC3	PC4	PC5	PC6	PC7	PC8	PC9	PC10
Standard deviation	1.649	1.234	1.123	1.015	0.990	0.853	0.754	0.737	0.635	0.494
Proportion of Variance	0.272	0.152	0.126	0.103	0.098	0.073	0.057	0.054	0.040	0.024
Cumulative Proportion	0.272	0.424	0.550	0.653	0.751	0.824	0.881	0.935	0.976	1.000

Plot of PC1 vs PC2 scores

Comparison of principle components by arm
Maternal Tdap+ vs. Tdap- vaccinated Feature Cluster ADNP / ADCP PC1: p=.00032
Maternal Tdap+ vs. Tdap- vaccinated Feature Cluster ADNP / ADCP PC2: p=.051

Plot of PCA Eigen Vectors

Correlation between features and each PC score - colored by variance contribution

**Loadings plot

Plot of UMAP1 vs UMAP2 Loadings

Comparison of UMAP loadings by arm
Maternal Tdap+ vs. Tdap- vaccinated TT UMAP1: p=.81
Maternal Tdap+ vs. Tdap- vaccinated TT UMAP2: p<.0001

Feature Cluster: FcgR2a / FcgR3b

Features: DT_FcgR2a, DT_FcgR3b, FHA_FcgR2a, FHA_FcgR3b, PRN_FcgR2a, PRN_FcgR3b, PT_FcgR2a, PT_FcgR3b, TT_FcgR2a, TT_FcgR3b

Proportion of Variance

summary for first 5 principal components (PC)

	PC1	PC2	PC3	PC4	PC5	PC6	PC7	PC8	PC9	PC10
Standard deviation	2.764	0.774	0.724	0.646	0.543	0.501	0.335	0.277	0.214	0.191
Proportion of Variance	0.764	0.060	0.052	0.042	0.029	0.025	0.011	0.008	0.005	0.004
Cumulative Proportion	0.764	0.824	0.877	0.918	0.948	0.973	0.984	0.992	0.996	1.000

Plot of PC1 vs PC2 scores

Comparison of principle components by arm
Maternal Tdap+ vs. Tdap- vaccinated Feature Cluster FcgR2a / FcgR3b PC1: p<.0001
Maternal Tdap+ vs. Tdap- vaccinated Feature Cluster FcgR2a / FcgR3b PC2: p=.8

Plot of PCA Eigen Vectors

Correlation between features and each PC score - colored by variance contribution

**Loadings plot

Plot of UMAP1 vs UMAP2 Loadings

Comparison of UMAP loadings by arm
Maternal Tdap+ vs. Tdap- vaccinated TT UMAP1: p=.037
Maternal Tdap+ vs. Tdap- vaccinated TT UMAP2: p<.0001

Feature Cluster: IgG1

Features: DT_IgG1, FHA_IgG1, PRN_IgG1, PT_IgG1, TT_IgG1

Proportion of Variance

summary for first 5 principal components (PC)

	PC1	PC2	PC3	PC4	PC5
Standard deviation	1.781	0.895	0.655	0.571	0.521
Proportion of Variance	0.634	0.160	0.086	0.065	0.054
Cumulative Proportion	0.634	0.795	0.880	0.946	1.000

Plot of PC1 vs PC2 scores

Comparison of principle components by arm
Maternal Tdap+ vs. Tdap- vaccinated Feature Cluster IgG1 PC1: p=.014
Maternal Tdap+ vs. Tdap- vaccinated Feature Cluster IgG1 PC2: p=.23

Plot of PCA Eigen Vectors

Correlation between features and each PC score - colored by variance contribution

**Loadings plot

Plot of UMAP1 vs UMAP2 Loadings

Comparison of UMAP loadings by arm
Maternal Tdap+ vs. Tdap- vaccinated TT UMAP1: p=.03
Maternal Tdap+ vs. Tdap- vaccinated TT UMAP2: p=.049

Feature Cluster: IgG3

Features: DT_IgG3, FHA_IgG3, PRN_IgG3, PT_IgG3, TT_IgG3

Proportion of Variance

summary for first 5 principal components (PC)

	PC1	PC2	PC3	PC4	PC5
Standard deviation	1.823	0.767	0.669	0.595	0.536
Proportion of Variance	0.665	0.118	0.089	0.071	0.057
Cumulative Proportion	0.665	0.782	0.872	0.943	1.000

Plot of PC1 vs PC2 scores

Comparison of principle components by arm
Maternal Tdap+ vs. Tdap- vaccinated Feature Cluster IgG3 PC1: p=.00052
Maternal Tdap+ vs. Tdap- vaccinated Feature Cluster IgG3 PC2: p=.66

Plot of PCA Eigen Vectors

Correlation between features and each PC score - colored by variance contribution

**Loadings plot

Plot of UMAP1 vs UMAP2 Loadings

Comparison of UMAP loadings by arm
Maternal Tdap+ vs. Tdap- vaccinated TT UMAP1: p=.21
Maternal Tdap+ vs. Tdap- vaccinated TT UMAP2: p=.0022

Feature Cluster: IgG

Features:

Response Cluster: 1

Features: DT_ADCD, DT_FcgR2a, DT_FcgR3b, DT_IgG1, DT_IgG3, FHA_ADCD, FHA_ADNP, FHA_FcgR2a, FHA_FcgR3b, FHA_IgG1, FHA_IgG3, PRN_ADCD, PRN_FcgR2a, PRN_FcgR3b, PRN_IgG1, PRN_IgG3, PT_ADCD, PT_ADCP, PT_ADNP, PT_FcgR2a, PT_FcgR3b, PT_IgG1, PT_IgG3, TT_ADCD, TT_ADCP, TT_ADNP, TT_FcgR2a, TT_FcgR3b, TT_IgG1, TT_IgG3

Proportion of Variance

summary for first 5 principal components (PC)

	PC1	PC2	PC3	PC4	PC5	PC6	PC7	PC8	PC9	PC10	PC11	PC12	PC13	PC14	PC15	PC16	PC17	PC18	PC19	PC20	PC21	PC22	PC23	PC24	PC25	PC26	PC27	PC28	PC29	PC30
Standard deviation	3.843	1.533	1.391	1.378	1.111	1.025	0.962	0.847	0.808	0.738	0.689	0.646	0.639	0.605	0.569	0.556	0.524	0.485	0.452	0.429	0.365	0.347	0.311	0.307	0.277	0.265	0.239	0.184	0.170	0.133
Proportion of Variance	0.492	0.078	0.064	0.063	0.041	0.035	0.031	0.024	0.022	0.018	0.016	0.014	0.014	0.012	0.011	0.010	0.009	0.008	0.007	0.006	0.004	0.004	0.003	0.003	0.003	0.002	0.002	0.001	0.001	0.001
Cumulative Proportion	0.492	0.571	0.635	0.698	0.739	0.774	0.805	0.829	0.851	0.869	0.885	0.899	0.912	0.925	0.935	0.946	0.955	0.963	0.970	0.976	0.980	0.984	0.987	0.991	0.993	0.995	0.997	0.998	0.999	1.000

Plot of PC1 vs PC2 scores

Comparison of principle components by arm
Maternal Tdap+ vs. Tdap- vaccinated RCluster_ 1 PC1: p<.0001
Maternal Tdap+ vs. Tdap- vaccinated RCluster_ 1 PC2: p=.46

Plot of PCA Eigen Vectors

Correlation between features and each PC score - colored by variance contribution

**Loadings plot

Plot of UMAP1 vs UMAP2 Loadings

Comparison of UMAP loadings by arm
Maternal Tdap+ vs. Tdap- vaccinated TT UMAP1: p=.18
Maternal Tdap+ vs. Tdap- vaccinated TT UMAP2: p<.0001

Response Cluster: 2

Features: DT_ADCP, FHA_ADCP, PRN_ADCP

Proportion of Variance

summary for first 5 principal components (PC)

	PC1	PC2	PC3
Standard deviation	1.224	0.986	0.727
Proportion of Variance	0.499	0.324	0.176
Cumulative Proportion	0.499	0.824	1.000

Plot of PC1 vs PC2 scores

Comparison of principle components by arm
Maternal Tdap+ vs. Tdap- vaccinated RCluster_ 2 PC1: p=.43
Maternal Tdap+ vs. Tdap- vaccinated RCluster_ 2 PC2: p=.81

Plot of PCA Eigen Vectors

Correlation between features and each PC score - colored by variance contribution

**Loadings plot

Plot of UMAP1 vs UMAP2 Loadings

Comparison of UMAP loadings by arm
Maternal Tdap+ vs. Tdap- vaccinated TT UMAP1: p=.79
Maternal Tdap+ vs. Tdap- vaccinated TT UMAP2: p=.37

Response Cluster: 3

Features: DT_ADNP, PT_IgG2

Proportion of Variance

summary for first 5 principal components (PC)

	PC1	PC2
Standard deviation	1.098	0.891
Proportion of Variance	0.603	0.397
Cumulative Proportion	0.603	1.000

Plot of PC1 vs PC2 scores

Comparison of principle components by arm
Maternal Tdap+ vs. Tdap- vaccinated RCluster_ 3 PC1: p=.66
Maternal Tdap+ vs. Tdap- vaccinated RCluster_ 3 PC2: p=.29

Plot of PCA Eigen Vectors

Correlation between features and each PC score - colored by variance contribution

**Loadings plot

Plot of UMAP1 vs UMAP2 Loadings

Comparison of UMAP loadings by arm
Maternal Tdap+ vs. Tdap- vaccinated TT UMAP1: p=.17
Maternal Tdap+ vs. Tdap- vaccinated TT UMAP2: p=.28

Response Cluster: 4

Features: DT_IgG2, DT_IgG4, FHA_IgG2, FHA_IgG4, PT_IgG4, TT_IgG2, TT_IgG4

Proportion of Variance

summary for first 5 principal components (PC)

	PC1	PC2	PC3	PC4	PC5	PC6	PC7
Standard deviation	1.745	1.077	1.033	0.764	0.734	0.592	0.508
Proportion of Variance	0.435	0.166	0.152	0.083	0.077	0.050	0.037
Cumulative Proportion	0.435	0.601	0.753	0.836	0.913	0.963	1.000

Plot of PC1 vs PC2 scores

Comparison of principle components by arm
Maternal Tdap+ vs. Tdap- vaccinated RCluster_ 4 PC1: p=.28
Maternal Tdap+ vs. Tdap- vaccinated RCluster_ 4 PC2: p=.09

Plot of PCA Eigen Vectors

Correlation between features and each PC score - colored by variance contribution

**Loadings plot

Plot of UMAP1 vs UMAP2 Loadings

Comparison of UMAP loadings by arm
Maternal Tdap+ vs. Tdap- vaccinated TT UMAP1: p=.23
Maternal Tdap+ vs. Tdap- vaccinated TT UMAP2: p=.13

Response Cluster: 5

Features: PRN_ADNP

Response Cluster: 6

Features: PRN_IgG2, PRN_IgG4

Proportion of Variance

summary for first 5 principal components (PC)

	PC1	PC2
Standard deviation	1.099	0.890
Proportion of Variance	0.604	0.396
Cumulative Proportion	0.604	1.000

Plot of PC1 vs PC2 scores

Comparison of principle components by arm
Maternal Tdap+ vs. Tdap- vaccinated RCluster_ 6 PC1: p=.036
Maternal Tdap+ vs. Tdap- vaccinated RCluster_ 6 PC2: p=.43

Plot of PCA Eigen Vectors

Correlation between features and each PC score - colored by variance contribution

**Loadings plot

Plot of UMAP1 vs UMAP2 Loadings

Comparison of UMAP loadings by arm
Maternal Tdap+ vs. Tdap- vaccinated TT UMAP1: p=.1
Maternal Tdap+ vs. Tdap- vaccinated TT UMAP2: p=.035

Maternal Tdap+ vs. Tdap- visit: boosted - boosted : PCA Results

Antigen: PT

Features: PT_ADCD, PT_FcgR2a, PT_ADNP, PT_ADCP, PT_FcgR3b, PT_IgG1, PT_IgG2, PT_IgG4, PT_IgG3

Proportion of Variance

Summary for first 5 principal components (PC)

	PC1	PC2	PC3	PC4	PC5
Standard deviation	1.539	1.228	1.086	0.983	0.933
Proportion of Variance	0.263	0.168	0.131	0.107	0.097
Cumulative Proportion	0.263	0.431	0.562	0.669	0.766

Plot of PC1 vs PC2 scores

Comparison of principle components by arm
Maternal Tdap+ vs. Tdap- boosted PT PC1: p=.8
Maternal Tdap+ vs. Tdap- boosted PT PC2: p=.027

Plot of PCA Eigen Vectors

Correlation between features and each PC score - colored by variance contribution

**Loadings plot

Plot of UMAP1 vs UMAP2 Loadings

Comparison of UMAP loadings by arm
Maternal Tdap+ vs. Tdap- boosted PT UMAP1: p=.089
Maternal Tdap+ vs. Tdap- boosted PT UMAP2: p=.27

Antigen: FHA

Features: FHA_ADCD, FHA_ADNP, FHA_ADCP, FHA_FcgR2a, FHA_FcgR3b, FHA_IgG1, FHA_IgG2, FHA_IgG4, FHA_IgG3

Proportion of Variance

Summary for first 5 principal components (PC)

	PC1	PC2	PC3	PC4	PC5
Standard deviation	1.739	1.224	1.127	1.047	0.835
Proportion of Variance	0.336	0.166	0.141	0.122	0.077
Cumulative Proportion	0.336	0.502	0.644	0.765	0.843

Plot of PC1 vs PC2 scores

Comparison of principle components by arm
Maternal Tdap+ vs. Tdap- boosted FHA PC1: p=.28
Maternal Tdap+ vs. Tdap- boosted FHA PC2: p=.28

Plot of PCA Eigen Vectors

Correlation between features and each PC score - colored by variance contribution

**Loadings plot

Plot of UMAP1 vs UMAP2 Loadings

Comparison of UMAP loadings by arm
Maternal Tdap+ vs. Tdap- boosted FHA UMAP1: p=.081
Maternal Tdap+ vs. Tdap- boosted FHA UMAP2: p=.59

Antigen: PRN

Features: PRN_ADCD, PRN_ADNP, PRN_ADCP, PRN_FcgR2a, PRN_FcgR3b, PRN_IgG1, PRN_IgG2, PRN_IgG4, PRN_IgG3

Proportion of Variance

Summary for first 5 principal components (PC)

	PC1	PC2	PC3	PC4	PC5
Standard deviation	1.540	1.252	1.104	1.057	0.931
Proportion of Variance	0.264	0.174	0.136	0.124	0.096
Cumulative Proportion	0.264	0.438	0.573	0.698	0.794

Plot of PC1 vs PC2 scores

Comparison of principle components by arm
Maternal Tdap+ vs. Tdap- boosted PRN PC1: p=.79
Maternal Tdap+ vs. Tdap- boosted PRN PC2: p=.91

Plot of PCA Eigen Vectors

Correlation between features and each PC score - colored by variance contribution

**Loadings plot

Plot of UMAP1 vs UMAP2 Loadings

Comparison of UMAP loadings by arm
Maternal Tdap+ vs. Tdap- boosted PRN UMAP1: p=.4
Maternal Tdap+ vs. Tdap- boosted PRN UMAP2: p=.34

Antigen: DT

Features: DT_ADCD, DT_FcgR2a, DT_ADCP, DT_ADNP, DT_FcgR3b, DT_IgG1, DT_IgG2, DT_IgG4, DT_IgG3

Proportion of Variance

Summary for first 5 principal components (PC)

	PC1	PC2	PC3	PC4	PC5
Standard deviation	1.307	1.286	1.210	1.098	0.984
Proportion of Variance	0.190	0.184	0.163	0.134	0.108
Cumulative Proportion	0.190	0.373	0.536	0.670	0.778

Plot of PC1 vs PC2 scores

Comparison of principle components by arm
Maternal Tdap+ vs. Tdap- boosted DT PC1: p=.66
Maternal Tdap+ vs. Tdap- boosted DT PC2: p=.85

Plot of PCA Eigen Vectors

Correlation between features and each PC score - colored by variance contribution

**Loadings plot

Plot of UMAP1 vs UMAP2 Loadings

Comparison of UMAP loadings by arm
Maternal Tdap+ vs. Tdap- boosted DT UMAP1: p=.82
Maternal Tdap+ vs. Tdap- boosted DT UMAP2: p=.91

Antigen: TT

Features: TT_ADCD, TT_ADCP, TT_FcgR2a, TT_IgG2, TT_ADNP, TT_FcgR3b, TT_IgG1, TT_IgG4, TT_IgG3

Proportion of Variance

Summary for first 5 principal components (PC)

	PC1	PC2	PC3	PC4	PC5
Standard deviation	1.353	1.210	1.151	1.071	1.023
Proportion of Variance	0.203	0.163	0.147	0.127	0.116
Cumulative Proportion	0.203	0.366	0.513	0.641	0.757

Plot of PC1 vs PC2 scores

Comparison of principle components by arm
Maternal Tdap+ vs. Tdap- boosted TT PC1: p=.91
Maternal Tdap+ vs. Tdap- boosted TT PC2: p=.2

Plot of PCA Eigen Vectors

Correlation between features and each PC score - colored by variance contribution

**Loadings plot

Plot of UMAP1 vs UMAP2 Loadings

Comparison of UMAP loadings by arm
Maternal Tdap+ vs. Tdap- boosted TT UMAP1: p=.74
Maternal Tdap+ vs. Tdap- boosted TT UMAP2: p=.41

Feature Cluster: IgG2 / IgG4

Features: TT_IgG2, DT_IgG2, DT_IgG4, FHA_IgG2, FHA_IgG4, PRN_IgG2, PRN_IgG4, PT_IgG2, PT_IgG4, TT_IgG4

Proportion of Variance

summary for first 5 principal components (PC)

	PC1	PC2	PC3	PC4	PC5	PC6	PC7	PC8	PC9	PC10
Standard deviation	1.848	1.159	1.096	1.038	0.913	0.889	0.668	0.566	0.547	0.522
Proportion of Variance	0.342	0.134	0.120	0.108	0.083	0.079	0.045	0.032	0.030	0.027
Cumulative Proportion	0.342	0.476	0.596	0.704	0.787	0.866	0.911	0.943	0.973	1.000

Plot of PC1 vs PC2 scores

Comparison of principle components by arm
Maternal Tdap+ vs. Tdap- boosted Feature Cluster IgG2 / IgG4 PC1: p=.39
Maternal Tdap+ vs. Tdap- boosted Feature Cluster IgG2 / IgG4 PC2: p=.092

Plot of PCA Eigen Vectors

Correlation between features and each PC score - colored by variance contribution

**Loadings plot

Plot of UMAP1 vs UMAP2 Loadings

Comparison of UMAP loadings by arm
Maternal Tdap+ vs. Tdap- boosted TT UMAP1: p=.23
Maternal Tdap+ vs. Tdap- boosted TT UMAP2: p=.75

Feature Cluster: ADCD

Features: DT_ADCD, FHA_ADCD, PRN_ADCD, PT_ADCD, TT_ADCD

Proportion of Variance

summary for first 5 principal components (PC)

	PC1	PC2	PC3	PC4	PC5
Standard deviation	1.91	0.782	0.598	0.521	0.334
Proportion of Variance	0.73	0.122	0.072	0.054	0.022
Cumulative Proportion	0.73	0.852	0.923	0.978	1.000

Plot of PC1 vs PC2 scores

Comparison of principle components by arm
Maternal Tdap+ vs. Tdap- boosted Feature Cluster ADCD PC1: p=.35
Maternal Tdap+ vs. Tdap- boosted Feature Cluster ADCD PC2: p=.18

Plot of PCA Eigen Vectors

Correlation between features and each PC score - colored by variance contribution

**Loadings plot

Plot of UMAP1 vs UMAP2 Loadings

Comparison of UMAP loadings by arm
Maternal Tdap+ vs. Tdap- boosted TT UMAP1: p=.36
Maternal Tdap+ vs. Tdap- boosted TT UMAP2: p=.25

Feature Cluster: ADNP / ADCP

Features: TT_ADCP, DT_ADCP, DT_ADNP, FHA_ADNP, PRN_ADNP, PT_ADNP, TT_ADNP, FHA_ADCP, PRN_ADCP, PT_ADCP

Proportion of Variance

summary for first 5 principal components (PC)

	PC1	PC2	PC3	PC4	PC5	PC6	PC7	PC8	PC9	PC10
Standard deviation	1.713	1.376	1.047	0.994	0.918	0.792	0.749	0.731	0.539	0.482
Proportion of Variance	0.293	0.189	0.110	0.099	0.084	0.063	0.056	0.053	0.029	0.023
Cumulative Proportion	0.293	0.483	0.592	0.691	0.775	0.838	0.894	0.948	0.977	1.000

Plot of PC1 vs PC2 scores

Comparison of principle components by arm
Maternal Tdap+ vs. Tdap- boosted Feature Cluster ADNP / ADCP PC1: p=.58
Maternal Tdap+ vs. Tdap- boosted Feature Cluster ADNP / ADCP PC2: p=.37

Plot of PCA Eigen Vectors

Correlation between features and each PC score - colored by variance contribution

**Loadings plot

Plot of UMAP1 vs UMAP2 Loadings

Comparison of UMAP loadings by arm
Maternal Tdap+ vs. Tdap- boosted TT UMAP1: p=.83
Maternal Tdap+ vs. Tdap- boosted TT UMAP2: p=.97

Feature Cluster: FcgR2a / FcgR3b

Features: DT_FcgR2a, PT_FcgR2a, TT_FcgR2a, DT_FcgR3b, FHA_FcgR2a, FHA_FcgR3b, PRN_FcgR2a, PRN_FcgR3b, PT_FcgR3b, TT_FcgR3b

Proportion of Variance

summary for first 5 principal components (PC)

	PC1	PC2	PC3	PC4	PC5	PC6	PC7	PC8	PC9	PC10
Standard deviation	2.115	1.303	1.148	1.055	0.747	0.662	0.416	0.350	0.243	0.218
Proportion of Variance	0.447	0.170	0.132	0.111	0.056	0.044	0.017	0.012	0.006	0.005
Cumulative Proportion	0.447	0.617	0.749	0.860	0.916	0.960	0.977	0.989	0.995	1.000

Plot of PC1 vs PC2 scores

Comparison of principle components by arm
Maternal Tdap+ vs. Tdap- boosted Feature Cluster FcgR2a / FcgR3b PC1: p=.58
Maternal Tdap+ vs. Tdap- boosted Feature Cluster FcgR2a / FcgR3b PC2: p=.73

Plot of PCA Eigen Vectors

Correlation between features and each PC score - colored by variance contribution

**Loadings plot

Plot of UMAP1 vs UMAP2 Loadings

Comparison of UMAP loadings by arm
Maternal Tdap+ vs. Tdap- boosted TT UMAP1: p=.54
Maternal Tdap+ vs. Tdap- boosted TT UMAP2: p=.71

Feature Cluster: IgG1

Features: DT_IgG1, FHA_IgG1, PRN_IgG1, PT_IgG1, TT_IgG1

Proportion of Variance

summary for first 5 principal components (PC)

	PC1	PC2	PC3	PC4	PC5
Standard deviation	1.780	0.892	0.699	0.565	0.479
Proportion of Variance	0.634	0.159	0.098	0.064	0.046
Cumulative Proportion	0.634	0.793	0.890	0.954	1.000

Plot of PC1 vs PC2 scores

Comparison of principle components by arm
Maternal Tdap+ vs. Tdap- boosted Feature Cluster IgG1 PC1: p=.2
Maternal Tdap+ vs. Tdap- boosted Feature Cluster IgG1 PC2: p=.11

Plot of PCA Eigen Vectors

Correlation between features and each PC score - colored by variance contribution

**Loadings plot

Plot of UMAP1 vs UMAP2 Loadings

Comparison of UMAP loadings by arm
Maternal Tdap+ vs. Tdap- boosted TT UMAP1: p=.2
Maternal Tdap+ vs. Tdap- boosted TT UMAP2: p=.09

Feature Cluster: IgG3

Features: DT_IgG3, FHA_IgG3, PRN_IgG3, PT_IgG3, TT_IgG3

Proportion of Variance

summary for first 5 principal components (PC)

	PC1	PC2	PC3	PC4	PC5
Standard deviation	1.540	0.908	0.855	0.746	0.720
Proportion of Variance	0.474	0.165	0.146	0.111	0.104
Cumulative Proportion	0.474	0.639	0.785	0.896	1.000

Plot of PC1 vs PC2 scores

Comparison of principle components by arm
Maternal Tdap+ vs. Tdap- boosted Feature Cluster IgG3 PC1: p=.62
Maternal Tdap+ vs. Tdap- boosted Feature Cluster IgG3 PC2: p=.92

Plot of PCA Eigen Vectors

Correlation between features and each PC score - colored by variance contribution

**Loadings plot

Plot of UMAP1 vs UMAP2 Loadings

Comparison of UMAP loadings by arm
Maternal Tdap+ vs. Tdap- boosted TT UMAP1: p=.89
Maternal Tdap+ vs. Tdap- boosted TT UMAP2: p=.98

Feature Cluster: IgG

Features:

Response Cluster: 1

Features: DT_ADCD, DT_FcgR2a, FHA_ADCD, PRN_ADCD, PT_ADCD, PT_FcgR2a, TT_ADCD, TT_ADCP, TT_FcgR2a, TT_IgG2

Proportion of Variance

summary for first 5 principal components (PC)

	PC1	PC2	PC3	PC4	PC5	PC6	PC7	PC8	PC9	PC10
Standard deviation	2.181	1.156	0.998	0.956	0.797	0.649	0.645	0.500	0.449	0.269
Proportion of Variance	0.476	0.134	0.100	0.091	0.064	0.042	0.042	0.025	0.020	0.007
Cumulative Proportion	0.476	0.609	0.709	0.800	0.864	0.906	0.948	0.973	0.993	1.000

Plot of PC1 vs PC2 scores

Comparison of principle components by arm
Maternal Tdap+ vs. Tdap- boosted RCluster_ 1 PC1: p=.41
Maternal Tdap+ vs. Tdap- boosted RCluster_ 1 PC2: p=.22

Plot of PCA Eigen Vectors

Correlation between features and each PC score - colored by variance contribution

**Loadings plot

Plot of UMAP1 vs UMAP2 Loadings

Comparison of UMAP loadings by arm
Maternal Tdap+ vs. Tdap- boosted TT UMAP1: p=.33
Maternal Tdap+ vs. Tdap- boosted TT UMAP2: p=.46

Response Cluster: 2

Features: DT_ADCP, DT_ADNP, FHA_ADNP, PRN_ADNP, PT_ADNP, TT_ADNP

Proportion of Variance

summary for first 5 principal components (PC)

	PC1	PC2	PC3	PC4	PC5	PC6
Standard deviation	1.529	1.048	0.927	0.862	0.752	0.628
Proportion of Variance	0.390	0.183	0.143	0.124	0.094	0.066
Cumulative Proportion	0.390	0.573	0.716	0.840	0.934	1.000

Plot of PC1 vs PC2 scores

Comparison of principle components by arm
Maternal Tdap+ vs. Tdap- boosted RCluster_ 2 PC1: p=.7
Maternal Tdap+ vs. Tdap- boosted RCluster_ 2 PC2: p=.39

Plot of PCA Eigen Vectors

Correlation between features and each PC score - colored by variance contribution

**Loadings plot

Plot of UMAP1 vs UMAP2 Loadings

Comparison of UMAP loadings by arm
Maternal Tdap+ vs. Tdap- boosted TT UMAP1: p=.85
Maternal Tdap+ vs. Tdap- boosted TT UMAP2: p=.58

Response Cluster: 3

Features: DT_FcgR3b, FHA_ADCP, FHA_FcgR2a, FHA_FcgR3b, PRN_ADCP, PRN_FcgR2a, PRN_FcgR3b, PT_ADCP, PT_FcgR3b, TT_FcgR3b

Proportion of Variance

summary for first 5 principal components (PC)

	PC1	PC2	PC3	PC4	PC5	PC6	PC7	PC8	PC9	PC10
Standard deviation	2.094	1.328	1.033	0.976	0.853	0.657	0.543	0.473	0.297	0.257
Proportion of Variance	0.438	0.176	0.107	0.095	0.073	0.043	0.030	0.022	0.009	0.007
Cumulative Proportion	0.438	0.615	0.722	0.817	0.890	0.933	0.962	0.985	0.993	1.000

Plot of PC1 vs PC2 scores

Comparison of principle components by arm
Maternal Tdap+ vs. Tdap- boosted RCluster_ 3 PC1: p=.35
Maternal Tdap+ vs. Tdap- boosted RCluster_ 3 PC2: p=.33

Plot of PCA Eigen Vectors

Correlation between features and each PC score - colored by variance contribution

**Loadings plot

Plot of UMAP1 vs UMAP2 Loadings

Comparison of UMAP loadings by arm
Maternal Tdap+ vs. Tdap- boosted TT UMAP1: p=.91
Maternal Tdap+ vs. Tdap- boosted TT UMAP2: p=.86

Response Cluster: 4

Features: DT_IgG1, FHA_IgG1, PRN_IgG1, PT_IgG1, TT_IgG1

Proportion of Variance

summary for first 5 principal components (PC)

	PC1	PC2	PC3	PC4	PC5
Standard deviation	1.780	0.892	0.699	0.565	0.479
Proportion of Variance	0.634	0.159	0.098	0.064	0.046
Cumulative Proportion	0.634	0.793	0.890	0.954	1.000

Plot of PC1 vs PC2 scores

Comparison of principle components by arm
Maternal Tdap+ vs. Tdap- boosted RCluster_ 4 PC1: p=.2
Maternal Tdap+ vs. Tdap- boosted RCluster_ 4 PC2: p=.11

Plot of PCA Eigen Vectors

Correlation between features and each PC score - colored by variance contribution

**Loadings plot

Plot of UMAP1 vs UMAP2 Loadings

Comparison of UMAP loadings by arm
Maternal Tdap+ vs. Tdap- boosted TT UMAP1: p=.2
Maternal Tdap+ vs. Tdap- boosted TT UMAP2: p=.09

Response Cluster: 5

Features: DT_IgG2, DT_IgG4, FHA_IgG2, FHA_IgG4, PRN_IgG2, PRN_IgG4, PT_IgG2, PT_IgG4, TT_IgG4

Proportion of Variance

summary for first 5 principal components (PC)

	PC1	PC2	PC3	PC4	PC5	PC6	PC7	PC8	PC9
Standard deviation	1.823	1.141	1.039	0.995	0.900	0.692	0.635	0.560	0.546
Proportion of Variance	0.369	0.145	0.120	0.110	0.090	0.053	0.045	0.035	0.033
Cumulative Proportion	0.369	0.514	0.634	0.744	0.834	0.887	0.932	0.967	1.000

Plot of PC1 vs PC2 scores

Comparison of principle components by arm
Maternal Tdap+ vs. Tdap- boosted RCluster_ 5 PC1: p=.43
Maternal Tdap+ vs. Tdap- boosted RCluster_ 5 PC2: p=.044

Plot of PCA Eigen Vectors

Correlation between features and each PC score - colored by variance contribution

**Loadings plot

Plot of UMAP1 vs UMAP2 Loadings

Comparison of UMAP loadings by arm
Maternal Tdap+ vs. Tdap- boosted TT UMAP1: p=.61
Maternal Tdap+ vs. Tdap- boosted TT UMAP2: p=.39

Response Cluster: 6

Features: DT_IgG3, FHA_IgG3, PRN_IgG3, PT_IgG3, TT_IgG3

Proportion of Variance

summary for first 5 principal components (PC)

	PC1	PC2	PC3	PC4	PC5
Standard deviation	1.540	0.908	0.855	0.746	0.720
Proportion of Variance	0.474	0.165	0.146	0.111	0.104
Cumulative Proportion	0.474	0.639	0.785	0.896	1.000

Plot of PC1 vs PC2 scores

Comparison of principle components by arm
Maternal Tdap+ vs. Tdap- boosted RCluster_ 6 PC1: p=.62
Maternal Tdap+ vs. Tdap- boosted RCluster_ 6 PC2: p=.92

Plot of PCA Eigen Vectors

Correlation between features and each PC score - colored by variance contribution

**Loadings plot

Plot of UMAP1 vs UMAP2 Loadings

Comparison of UMAP loadings by arm
Maternal Tdap+ vs. Tdap- boosted TT UMAP1: p=.89
Maternal Tdap+ vs. Tdap- boosted TT UMAP2: p=.98

sessionInfo()

R version 4.4.2 (2024-10-31)
Platform: aarch64-apple-darwin20
Running under: macOS Sequoia 15.1.1

Matrix products: default
BLAS:   /Library/Frameworks/R.framework/Versions/4.4-arm64/Resources/lib/libRblas.0.dylib 
LAPACK: /Library/Frameworks/R.framework/Versions/4.4-arm64/Resources/lib/libRlapack.dylib;  LAPACK version 3.12.0

locale:
[1] en_US.UTF-8/en_US.UTF-8/en_US.UTF-8/C/en_US.UTF-8/en_US.UTF-8

time zone: America/New_York
tzcode source: internal

attached base packages:
[1] stats     graphics  grDevices utils     datasets  methods   base     

other attached packages:
 [1] e1071_1.7-16         glue_1.8.0           RPostgres_1.4.7     
 [4] magrittr_2.0.3       broom.helpers_1.17.0 broom_1.0.7         
 [7] RColorBrewer_1.1-3   skimr_2.1.5          rmarkdown_2.28      
[10] papeR_1.0-5          xtable_1.8-4         car_3.1-3           
[13] carData_3.0-5        corrplot_0.94        rempsyc_0.1.8       
[16] FactoMineR_2.11      factoextra_1.0.7     rstatix_0.7.2       
[19] umap_0.2.10.0        pracma_2.4.4         PCAmixdata_3.1      
[22] qgraph_1.9.8         kableExtra_1.4.0     gtsummary_2.0.3     
[25] gtExtras_0.5.0       gt_0.11.1            ggfortify_0.4.17    
[28] ggpubr_0.6.0         ggExtra_0.10.1       ggrepel_0.9.6       
[31] janitor_2.2.0        here_1.0.1           data.table_1.16.2   
[34] DT_0.33              DBI_1.2.3            fpc_2.2-13          
[37] lubridate_1.9.3      forcats_1.0.0        stringr_1.5.1       
[40] dplyr_1.1.4          purrr_1.0.2          readr_2.1.5         
[43] tidyr_1.3.1          tibble_3.2.1         ggplot2_3.5.1       
[46] tidyverse_2.0.0     

loaded via a namespace (and not attached):
  [1] splines_4.4.2        later_1.3.2          rpart_4.1.23        
  [4] lifecycle_1.0.4      rprojroot_2.0.4      lattice_0.22-6      
  [7] prabclus_2.3-4       MASS_7.3-61          flashClust_1.01-2   
 [10] backports_1.5.0      Hmisc_5.1-3          sass_0.4.9          
 [13] jquerylib_0.1.4      yaml_2.3.10          httpuv_1.6.15       
 [16] flexmix_2.3-19       askpass_1.2.1        reticulate_1.39.0   
 [19] pbapply_1.7-2        multcomp_1.4-26      abind_1.4-8         
 [22] quadprog_1.5-8       TH.data_1.1-2        nnet_7.3-19         
 [25] sandwich_3.1-1       git2r_0.33.0         gmodels_2.19.1      
 [28] gdata_3.0.0          RSpectra_0.16-2      svglite_2.1.3       
 [31] codetools_0.2-20     xml2_1.3.6           tidyselect_1.2.1    
 [34] farver_2.1.2         stats4_4.4.2         base64enc_0.1-3     
 [37] jsonlite_1.8.9       Formula_1.2-5        survival_3.7-0      
 [40] emmeans_1.10.4       systemfonts_1.1.0    tools_4.4.2         
 [43] Rcpp_1.0.13          mnormt_2.1.1         gridExtra_2.3       
 [46] xfun_0.48            withr_3.0.1          fastmap_1.2.0       
 [49] fansi_1.0.6          openssl_2.2.2        digest_0.6.37       
 [52] timechange_0.3.0     R6_2.5.1             mime_0.12           
 [55] estimability_1.5.1   colorspace_2.1-1     gtools_3.9.5        
 [58] jpeg_0.1-10          diptest_0.77-1       utf8_1.2.4          
 [61] generics_0.1.3       corpcor_1.6.10       robustbase_0.99-4-1 
 [64] class_7.3-22         htmlwidgets_1.6.4    scatterplot3d_0.3-44
 [67] whisker_0.4.1        pkgconfig_2.0.3      gtable_0.3.5        
 [70] modeltools_0.2-23    blob_1.2.4           workflowr_1.7.1     
 [73] htmltools_0.5.8.1    lavaan_0.6-19        multcompView_0.1-10 
 [76] scales_1.3.0         leaps_3.2            png_0.1-8           
 [79] snakecase_0.11.1     knitr_1.48.1         rstudioapi_0.16.0   
 [82] tzdb_0.4.0           reshape2_1.4.4       coda_0.19-4.1       
 [85] checkmate_2.3.2      nlme_3.1-166         proxy_0.4-27        
 [88] repr_1.1.7           zoo_1.8-12           cachem_1.1.0        
 [91] parallel_4.4.2       miniUI_0.1.1.1       foreign_0.8-87      
 [94] pillar_1.9.0         grid_4.4.2           vctrs_0.6.5         
 [97] promises_1.3.0       cluster_2.1.6        htmlTable_2.4.3     
[100] paletteer_1.6.0      evaluate_1.0.1       pbivnorm_0.6.0      
[103] mvtnorm_1.3-1        cli_3.6.3            compiler_4.4.2      
[106] rlang_1.1.4          ggsignif_0.6.4       labeling_0.4.3      
[109] fdrtool_1.2.18       mclust_6.1.1         rematch2_2.1.2      
[112] plyr_1.8.9           fs_1.6.4             stringi_1.8.4       
[115] psych_2.4.6.26       viridisLite_0.4.2    munsell_0.5.1       
[118] Matrix_1.7-1         hms_1.1.3            glasso_1.11         
[121] bit64_4.5.2          shiny_1.9.1          highr_0.11          
[124] kernlab_0.9-33       fontawesome_0.5.2    igraph_2.0.3        
[127] bslib_0.8.0          bit_4.5.0            DEoptimR_1.1-3

Principle Components Analysis - Maternal Tdap+ vs. mTdap-

Excluding total IgG - IgG Standardized - 6 response clusters

Lisa Gallagher, David Kook, Alec Buetow, Scot Zens

Maternal Tdap+ vs. Tdap- visit:vaccinated - vaccinated : PCA Results

Antigen: PT

Proportion of Variance

Plot of PC1 vs PC2 scores

Plot of PCA Eigen Vectors

Plot of UMAP1 vs UMAP2 Loadings

Antigen: FHA

Proportion of Variance

Plot of PC1 vs PC2 scores

Plot of PCA Eigen Vectors

Plot of UMAP1 vs UMAP2 Loadings

Antigen: PRN

Proportion of Variance

Plot of PC1 vs PC2 scores

Plot of PCA Eigen Vectors

Plot of UMAP1 vs UMAP2 Loadings

Antigen: DT

Proportion of Variance

Plot of PC1 vs PC2 scores

Plot of PCA Eigen Vectors

Plot of UMAP1 vs UMAP2 Loadings

Antigen: TT

Proportion of Variance

Plot of PC1 vs PC2 scores

Plot of PCA Eigen Vectors

Plot of UMAP1 vs UMAP2 Loadings

Feature Cluster: IgG2 / IgG4

Proportion of Variance

Plot of PC1 vs PC2 scores

Plot of PCA Eigen Vectors

Plot of UMAP1 vs UMAP2 Loadings

Feature Cluster: ADCD

Proportion of Variance

Plot of PC1 vs PC2 scores

Plot of PCA Eigen Vectors

Plot of UMAP1 vs UMAP2 Loadings

Feature Cluster: ADNP / ADCP

Proportion of Variance

Plot of PC1 vs PC2 scores

Plot of PCA Eigen Vectors

Plot of UMAP1 vs UMAP2 Loadings

Feature Cluster: FcgR2a / FcgR3b

Proportion of Variance

Plot of PC1 vs PC2 scores

Plot of PCA Eigen Vectors

Plot of UMAP1 vs UMAP2 Loadings

Feature Cluster: IgG1

Proportion of Variance

Plot of PC1 vs PC2 scores

Plot of PCA Eigen Vectors

Plot of UMAP1 vs UMAP2 Loadings

Feature Cluster: IgG3

Proportion of Variance

Plot of PC1 vs PC2 scores

Plot of PCA Eigen Vectors

Plot of UMAP1 vs UMAP2 Loadings

Feature Cluster: IgG

Response Cluster: 1

Proportion of Variance

Plot of PC1 vs PC2 scores

Plot of PCA Eigen Vectors

Plot of UMAP1 vs UMAP2 Loadings

Response Cluster: 2

Proportion of Variance

Plot of PC1 vs PC2 scores

Plot of PCA Eigen Vectors

Plot of UMAP1 vs UMAP2 Loadings

Response Cluster: 3

Proportion of Variance

Plot of PC1 vs PC2 scores

Plot of PCA Eigen Vectors

Plot of UMAP1 vs UMAP2 Loadings

Response Cluster: 4

Proportion of Variance

Plot of PC1 vs PC2 scores

Plot of PCA Eigen Vectors

Plot of UMAP1 vs UMAP2 Loadings