Christopher H. Woelk
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View article: Integrated plasma proteomics identifies tuberculosis-specific diagnostic biomarkers
Integrated plasma proteomics identifies tuberculosis-specific diagnostic biomarkers Open
Novel biomarkers to identify infectious patients transmitting Mycobacterium tuberculosis are urgently needed to control the global tuberculosis (TB) pandemic. We hypothesized that proteins released into the plasma in active pulmonary TB ar…
View article: Very early life microbiome and metabolome correlates with primary vaccination variability in children
Very early life microbiome and metabolome correlates with primary vaccination variability in children Open
Despite multiple vaccine doses early in life, a substantial proportion of infants do not mount protective responses. In this study, we followed a cohort of children over the first 2 years of life, collecting microbiome and metabolome data …
View article: Data from Upregulated Glucose Metabolism Correlates Inversely with CD8<sup>+</sup> T-cell Infiltration and Survival in Squamous Cell Carcinoma
Data from Upregulated Glucose Metabolism Correlates Inversely with CD8<sup>+</sup> T-cell Infiltration and Survival in Squamous Cell Carcinoma Open
Antibodies that block T-cell–regulatory checkpoints have recently emerged as a transformative approach to cancer treatment. However, the clinical efficacy of checkpoint blockade depends upon inherent tumor immunogenicity, with variation in…
View article: Figure S4 from Upregulated Glucose Metabolism Correlates Inversely with CD8<sup>+</sup> T-cell Infiltration and Survival in Squamous Cell Carcinoma
Figure S4 from Upregulated Glucose Metabolism Correlates Inversely with CD8<sup>+</sup> T-cell Infiltration and Survival in Squamous Cell Carcinoma Open
Figure S4. Pathway and survival analysis of genes negatively associated with the leukocyte module (M1) eigengene. (A) Each module whose eigengene inversely correlated with ME1 were represented as a node connected to some of the top-ranked …
View article: Data from Head and Neck Squamous Cell Carcinomas Are Characterized by a Stable Immune Signature Within the Primary Tumor Over Time and Space
Data from Head and Neck Squamous Cell Carcinomas Are Characterized by a Stable Immune Signature Within the Primary Tumor Over Time and Space Open
Purpose: Genetic and morphologic heterogeneity is well-documented in solid cancers. Immune cells are also variably distributed within the tumor; this heterogeneity is difficult to assess in small biopsies, and may confound our under…
View article: Figure S5 from Upregulated Glucose Metabolism Correlates Inversely with CD8<sup>+</sup> T-cell Infiltration and Survival in Squamous Cell Carcinoma
Figure S5 from Upregulated Glucose Metabolism Correlates Inversely with CD8<sup>+</sup> T-cell Infiltration and Survival in Squamous Cell Carcinoma Open
Figure S5. Magnitude and breadth of T-cell response to HPV-16 E7/E6 DNA vaccine. The E7/E6 DNA vaccine (VB1025) was obtained from Agnete Fredriksen and Ole Brekke (Vaccibody, Oslo, Norway). It encodes a HPV-16 E7/E6 fusion protein, which f…
View article: Table S2 from Upregulated Glucose Metabolism Correlates Inversely with CD8<sup>+</sup> T-cell Infiltration and Survival in Squamous Cell Carcinoma
Table S2 from Upregulated Glucose Metabolism Correlates Inversely with CD8<sup>+</sup> T-cell Infiltration and Survival in Squamous Cell Carcinoma Open
Table S2. Excel spreadsheet of enriched GO terms (Bonferoni adj.P< 0.05) and top 20 negatively enriched MSigDB hallmark gene sets.
View article: Figure S1 from Upregulated Glucose Metabolism Correlates Inversely with CD8<sup>+</sup> T-cell Infiltration and Survival in Squamous Cell Carcinoma
Figure S1 from Upregulated Glucose Metabolism Correlates Inversely with CD8<sup>+</sup> T-cell Infiltration and Survival in Squamous Cell Carcinoma Open
Figure S1. Overview of workflow.
View article: Figure S3 from Upregulated Glucose Metabolism Correlates Inversely with CD8<sup>+</sup> T-cell Infiltration and Survival in Squamous Cell Carcinoma
Figure S3 from Upregulated Glucose Metabolism Correlates Inversely with CD8<sup>+</sup> T-cell Infiltration and Survival in Squamous Cell Carcinoma Open
Figure S3. Increased expression of the CD8+ T-cell signature has a prognostic value for overall survival. (A and B) Kaplan-Meier estimates of overall survival among patients grouped according to expression of genes with the strongest membe…
View article: Data from Upregulated Glucose Metabolism Correlates Inversely with CD8<sup>+</sup> T-cell Infiltration and Survival in Squamous Cell Carcinoma
Data from Upregulated Glucose Metabolism Correlates Inversely with CD8<sup>+</sup> T-cell Infiltration and Survival in Squamous Cell Carcinoma Open
Antibodies that block T-cell–regulatory checkpoints have recently emerged as a transformative approach to cancer treatment. However, the clinical efficacy of checkpoint blockade depends upon inherent tumor immunogenicity, with variation in…
View article: Table S1 from Upregulated Glucose Metabolism Correlates Inversely with CD8<sup>+</sup> T-cell Infiltration and Survival in Squamous Cell Carcinoma
Table S1 from Upregulated Glucose Metabolism Correlates Inversely with CD8<sup>+</sup> T-cell Infiltration and Survival in Squamous Cell Carcinoma Open
Table S1. Complete list of identified modules in the HNSC network and their top GO Biological Process category.
View article: Supplementary Legend from Head and Neck Squamous Cell Carcinomas Are Characterized by a Stable Immune Signature Within the Primary Tumor Over Time and Space
Supplementary Legend from Head and Neck Squamous Cell Carcinomas Are Characterized by a Stable Immune Signature Within the Primary Tumor Over Time and Space Open
Supplementary Legend
View article: Figure S3 from Upregulated Glucose Metabolism Correlates Inversely with CD8<sup>+</sup> T-cell Infiltration and Survival in Squamous Cell Carcinoma
Figure S3 from Upregulated Glucose Metabolism Correlates Inversely with CD8<sup>+</sup> T-cell Infiltration and Survival in Squamous Cell Carcinoma Open
Figure S3. Increased expression of the CD8+ T-cell signature has a prognostic value for overall survival. (A and B) Kaplan-Meier estimates of overall survival among patients grouped according to expression of genes with the strongest membe…
View article: Table S3 from Upregulated Glucose Metabolism Correlates Inversely with CD8<sup>+</sup> T-cell Infiltration and Survival in Squamous Cell Carcinoma
Table S3 from Upregulated Glucose Metabolism Correlates Inversely with CD8<sup>+</sup> T-cell Infiltration and Survival in Squamous Cell Carcinoma Open
Table S3. Complete list of identified modules in the SCC consensus network and their top GO Biological Process category.
View article: Supplementary Table 1 from Head and Neck Squamous Cell Carcinomas Are Characterized by a Stable Immune Signature Within the Primary Tumor Over Time and Space
Supplementary Table 1 from Head and Neck Squamous Cell Carcinomas Are Characterized by a Stable Immune Signature Within the Primary Tumor Over Time and Space Open
Supplementary Table 1. Clinical Information from the cohort analyzed.
View article: Supplementary Table 1 from Head and Neck Squamous Cell Carcinomas Are Characterized by a Stable Immune Signature Within the Primary Tumor Over Time and Space
Supplementary Table 1 from Head and Neck Squamous Cell Carcinomas Are Characterized by a Stable Immune Signature Within the Primary Tumor Over Time and Space Open
Supplementary Table 1. Clinical Information from the cohort analyzed.
View article: Data from Head and Neck Squamous Cell Carcinomas Are Characterized by a Stable Immune Signature Within the Primary Tumor Over Time and Space
Data from Head and Neck Squamous Cell Carcinomas Are Characterized by a Stable Immune Signature Within the Primary Tumor Over Time and Space Open
Purpose: Genetic and morphologic heterogeneity is well-documented in solid cancers. Immune cells are also variably distributed within the tumor; this heterogeneity is difficult to assess in small biopsies, and may confound our under…
View article: Supplementary Figures 1 to 6 from Head and Neck Squamous Cell Carcinomas Are Characterized by a Stable Immune Signature Within the Primary Tumor Over Time and Space
Supplementary Figures 1 to 6 from Head and Neck Squamous Cell Carcinomas Are Characterized by a Stable Immune Signature Within the Primary Tumor Over Time and Space Open
Supplementary 1. Hierarchical clustering and Principle component analysis of all cases and all sequenced genes (n=18979). Supplementary Figure 2. Comparison of minimum and maximum Euclidean distance from hierarchical clustering of tumor re…
View article: Figure S1 from Upregulated Glucose Metabolism Correlates Inversely with CD8<sup>+</sup> T-cell Infiltration and Survival in Squamous Cell Carcinoma
Figure S1 from Upregulated Glucose Metabolism Correlates Inversely with CD8<sup>+</sup> T-cell Infiltration and Survival in Squamous Cell Carcinoma Open
Figure S1. Overview of workflow.
View article: Figure S2 from Upregulated Glucose Metabolism Correlates Inversely with CD8<sup>+</sup> T-cell Infiltration and Survival in Squamous Cell Carcinoma
Figure S2 from Upregulated Glucose Metabolism Correlates Inversely with CD8<sup>+</sup> T-cell Infiltration and Survival in Squamous Cell Carcinoma Open
Figure S2. Analysis of gene coexpression and eigengene relationships with overall survival. (A) Box-and-whisker plots of the Pearson correlation between a module gene's expression profile and the deviance residual, a measure of observed mi…
View article: Table S3 from Upregulated Glucose Metabolism Correlates Inversely with CD8<sup>+</sup> T-cell Infiltration and Survival in Squamous Cell Carcinoma
Table S3 from Upregulated Glucose Metabolism Correlates Inversely with CD8<sup>+</sup> T-cell Infiltration and Survival in Squamous Cell Carcinoma Open
Table S3. Complete list of identified modules in the SCC consensus network and their top GO Biological Process category.
View article: Figure S4 from Upregulated Glucose Metabolism Correlates Inversely with CD8<sup>+</sup> T-cell Infiltration and Survival in Squamous Cell Carcinoma
Figure S4 from Upregulated Glucose Metabolism Correlates Inversely with CD8<sup>+</sup> T-cell Infiltration and Survival in Squamous Cell Carcinoma Open
Figure S4. Pathway and survival analysis of genes negatively associated with the leukocyte module (M1) eigengene. (A) Each module whose eigengene inversely correlated with ME1 were represented as a node connected to some of the top-ranked …
View article: Supplementary Figures 1 to 6 from Head and Neck Squamous Cell Carcinomas Are Characterized by a Stable Immune Signature Within the Primary Tumor Over Time and Space
Supplementary Figures 1 to 6 from Head and Neck Squamous Cell Carcinomas Are Characterized by a Stable Immune Signature Within the Primary Tumor Over Time and Space Open
Supplementary 1. Hierarchical clustering and Principle component analysis of all cases and all sequenced genes (n=18979). Supplementary Figure 2. Comparison of minimum and maximum Euclidean distance from hierarchical clustering of tumor re…
View article: Table S1 from Upregulated Glucose Metabolism Correlates Inversely with CD8<sup>+</sup> T-cell Infiltration and Survival in Squamous Cell Carcinoma
Table S1 from Upregulated Glucose Metabolism Correlates Inversely with CD8<sup>+</sup> T-cell Infiltration and Survival in Squamous Cell Carcinoma Open
Table S1. Complete list of identified modules in the HNSC network and their top GO Biological Process category.
View article: Supplementary Legend from Head and Neck Squamous Cell Carcinomas Are Characterized by a Stable Immune Signature Within the Primary Tumor Over Time and Space
Supplementary Legend from Head and Neck Squamous Cell Carcinomas Are Characterized by a Stable Immune Signature Within the Primary Tumor Over Time and Space Open
Supplementary Legend
View article: Table S2 from Upregulated Glucose Metabolism Correlates Inversely with CD8<sup>+</sup> T-cell Infiltration and Survival in Squamous Cell Carcinoma
Table S2 from Upregulated Glucose Metabolism Correlates Inversely with CD8<sup>+</sup> T-cell Infiltration and Survival in Squamous Cell Carcinoma Open
Table S2. Excel spreadsheet of enriched GO terms (Bonferoni adj.P< 0.05) and top 20 negatively enriched MSigDB hallmark gene sets.
View article: Figure S5 from Upregulated Glucose Metabolism Correlates Inversely with CD8<sup>+</sup> T-cell Infiltration and Survival in Squamous Cell Carcinoma
Figure S5 from Upregulated Glucose Metabolism Correlates Inversely with CD8<sup>+</sup> T-cell Infiltration and Survival in Squamous Cell Carcinoma Open
Figure S5. Magnitude and breadth of T-cell response to HPV-16 E7/E6 DNA vaccine. The E7/E6 DNA vaccine (VB1025) was obtained from Agnete Fredriksen and Ole Brekke (Vaccibody, Oslo, Norway). It encodes a HPV-16 E7/E6 fusion protein, which f…
View article: Figure S2 from Upregulated Glucose Metabolism Correlates Inversely with CD8<sup>+</sup> T-cell Infiltration and Survival in Squamous Cell Carcinoma
Figure S2 from Upregulated Glucose Metabolism Correlates Inversely with CD8<sup>+</sup> T-cell Infiltration and Survival in Squamous Cell Carcinoma Open
Figure S2. Analysis of gene coexpression and eigengene relationships with overall survival. (A) Box-and-whisker plots of the Pearson correlation between a module gene's expression profile and the deviance residual, a measure of observed mi…
View article: Distinct subsets of neutrophils crosstalk with cytokines and metabolites in patients with sepsis
Distinct subsets of neutrophils crosstalk with cytokines and metabolites in patients with sepsis Open
This is the starting data and code used to generate the data from the manuscript entitled "Distinct subsets of neutrophils crosstalk with cytokines and metabolites in patients with sepsis", PMID 36756375. To replicate analyses, each folder…
View article: Impact of bacterial strain acquisition in the lung of patients with COPD: the AERIS study
Impact of bacterial strain acquisition in the lung of patients with COPD: the AERIS study Open
The results confirm that NTHi and M. catarrhalis infections are associated with AECOPD but suggest different dynamic mechanisms in triggering exacerbations.