Single Cell Immunophenotyping of the Skin Lesion Erythema Migrans Identifies IgM-Switched Memory B Cells

Creators

Ruoyi Jiang

Description

Data file. Differentially expressed genes for B cells from EM skin compared to B cells from uninvolved skin. The column "DIFF_FINAL" corresponds to the difference value used to rank genes (the minimum difference between EM and uninvolved samples). "DIFFERENCE" is a boolean column that specifies whether the gene expression in all EM samples is greater (or less) than that of all uninvolved skin samples, connoting significance (only genes with TRUE in this column were studied). The “COMPARE” column describes the difference used to compute “DIFF_FINAL.”

See attached bcr_bcell.csv

Data file. Differentially expressed genes for CD4 T cells from EM skin compared to CD4 T cells from uninvolved skin. The column "DIFFERENCE" corresponds to the mean difference of z-score normalized expression values. "P_PAIR" corresponds to the paired t-test significance value of EM vs. uninvolved skin gene expression comparisons without FDR correction using Storrey's method. "P_PAIR_ADJ" corresponds to the paired t-test significance value of EM vs. uninvolved skin gene expression comparisons with FDR correction using Storrey's method.

See attached tcr_cd4.csv

Data file. Differentially expressed genes for CD8 T cells from EM skin compared to CD8 T cells from uninvolved skin. The column "DIFFERENCE" corresponds to the mean difference of z-score normalized expression values. "P_PAIR" corresponds to the paired t-test significance value of EM vs. uninvolved skin gene expression comparisons without FDR correction using Storrey's method. "P_PAIR_ADJ" corresponds to the paired t-test significance value of EM vs. uninvolved skin gene expression comparisons with FDR correction using Storrey's method.

See attached tcr_cd8.csv

Data file. Differentially expressed genes for Treg cells from EM skin compared to Treg cells from uninvolved skin. The column "DIFFERENCE" corresponds to the mean difference of z-score normalized expression values. "P_PAIR" corresponds to the paired t-test significance value of EM vs. uninvolved skin gene expression comparisons without FDR correction using Storrey's method. "P_PAIR_ADJ" corresponds to the paired t-test significance value of EM vs. uninvolved skin gene expression comparisons with FDR correction using Storrey's method.

See attached tcr_treg.csv

Data file. Differentially expressed genes for "Mobile" CD4 T cells from EM skin that can be traced to the circulation compared to "Resident" CD4 T cells from EM skin that cannot be traced to the circulation . The column "DIFFERENCE" corresponds to the mean difference of z-score normalized expression values. "P_PAIR" corresponds to the paired t-test significance value of Mobile vs. Resident gene expression comparisons without FDR correction using Storrey's method. "P_PAIR_ADJ" corresponds to the paired t-test significance value of Mobile vs. Resident skin gene expression comparisons with FDR correction using Storrey's method.

See attached tcr_cd4_overlap.csv

Data file. Differentially expressed genes for "Mobile" CD8 T cells from EM skin that can be traced to the circulation compared to "Resident" CD8 T cells from EM skin that cannot be traced to the circulation . The column "DIFFERENCE" corresponds to the mean difference of z-score normalized expression values. "P_PAIR" corresponds to the paired t-test significance value of Mobile vs. Resident gene expression comparisons without FDR correction using Storrey's method. "P_PAIR_ADJ" corresponds to the paired t-test significance value of Mobile vs. Resident skin gene expression comparisons with FDR correction using Storrey's method.

See attached tcr_cd8_overlap.csv

Data file. Differentially expressed genes for "Mobile" memory B cells from EM skin that can be traced to the circulation compared to "Resident" memory B cells from EM skin that cannot be traced to the circulation . The column "DIFFERENCE" corresponds to the mean difference of z-score normalized expression values. "P_PAIR" corresponds to the paired t-test significance value of Mobile vs. Resident gene expression comparisons without FDR correction using Storrey's method. "P_PAIR_ADJ" corresponds to the paired t-test significance value of Mobile vs. Resident skin gene expression comparisons with FDR correction using Storrey's method.

See attached bcr_memory_overlap.csv

Data file. Differentially expressed genes for umutated IgM memory B cells from EM skin ("TRUE") compared to all other memory B cells from EM skin ("FALSE"). The column "DIFFERENCE" corresponds to the mean difference of z-score normalized expression values. "P_PAIR" corresponds to the paired t-test significance value of unmutated IgM memory B cell vs other memory B cell gene expression comparisons without FDR correction using Storrey's method. "P_PAIR_ADJ" corresponds to the paired t-test significance value of unmutated IgM memory B cell vs other memory B cell skin gene expression comparisons with FDR correction using Storrey's method.

See attached unmut_igm.csv

Data file. Differentially expressed genes for myeloid cells from EM skin compared to myeloid cells from uninvolved skin. The column "DIFFERENCE" corresponds to the mean difference of z-score normalized expression values. "P_PAIR" corresponds to the paired t-test significance value of EM vs. uninvolved skin gene expression comparisons without FDR correction using Storrey's method. "P_PAIR_ADJ" corresponds to the paired t-test significance value of EM vs. uninvolved skin gene expression comparisons with FDR correction using Storrey's method.

See attached my.csv