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View article: Genetic profiling of the circulating proteome in common diseases suggests causal proteins and improves risk prediction
Genetic profiling of the circulating proteome in common diseases suggests causal proteins and improves risk prediction Open
Elucidating the genetic regulation of protein expression in specific disease states is important for understanding how genetic variation impact disease pathology. To this end, we conduct a large-scale genome-proteome-wide pQTL analysis on …
View article: Retinal nerve fiber layer thinning as a predictor of delirium in medical and surgical patients: a prospective cohort study
Retinal nerve fiber layer thinning as a predictor of delirium in medical and surgical patients: a prospective cohort study Open
Purpose Emerging evidence suggests that retinal changes may indicate brain disorders. However, the association between retinal nerve fiber layer (RNFL) thickness and delirium risk has not been investigated. This study examined whether redu…
View article: Genetic atlas of plasma metabolome across 40 human common diseases: mapping causal metabolites to disease risk
Genetic atlas of plasma metabolome across 40 human common diseases: mapping causal metabolites to disease risk Open
This study provides a comprehensive resource that delineates the genetic architecture of metabolites across diverse disease contexts, offering new insights into disease etiology and advancing precision medicine through enhanced risk predic…
View article: Genetic architecture of bone marrow fat fraction implies its involvement in osteoporosis risk
Genetic architecture of bone marrow fat fraction implies its involvement in osteoporosis risk Open
Bone marrow adipose tissue, as a distinct adipose subtype, has been implicated in the pathophysiology of skeletal, metabolic, and hematopoietic disorders. To identify its underlying genetic factors, we utilized a deep learning algorithm ca…
View article: Supplementary Figure S16 from Single-cell eQTL Mapping Reveals Cell Subtype–specific Genetic Control and Mechanism in Malignant Transformation of Colorectal Cancer
Supplementary Figure S16 from Single-cell eQTL Mapping Reveals Cell Subtype–specific Genetic Control and Mechanism in Malignant Transformation of Colorectal Cancer Open
Supplementary Figure 16 shows the expression profiles of myeloid cells in different stages of colorectal cancer development.
View article: Supplementary Figure S24 from Single-cell eQTL Mapping Reveals Cell Subtype–specific Genetic Control and Mechanism in Malignant Transformation of Colorectal Cancer
Supplementary Figure S24 from Single-cell eQTL Mapping Reveals Cell Subtype–specific Genetic Control and Mechanism in Malignant Transformation of Colorectal Cancer Open
Supplementary Figure 24 shows the number of overlapping colocalized eGenes identified in both sc-eQTL colocalization results and bulk eQTL colocalization results.
View article: Supplementary Figure S9 from Single-cell eQTL Mapping Reveals Cell Subtype–specific Genetic Control and Mechanism in Malignant Transformation of Colorectal Cancer
Supplementary Figure S9 from Single-cell eQTL Mapping Reveals Cell Subtype–specific Genetic Control and Mechanism in Malignant Transformation of Colorectal Cancer Open
Supplementary Figure 9 shows the expression profiles of fibroblasts in different stages of colorectal cancer development.
View article: Supplementary Figure S19 from Single-cell eQTL Mapping Reveals Cell Subtype–specific Genetic Control and Mechanism in Malignant Transformation of Colorectal Cancer
Supplementary Figure S19 from Single-cell eQTL Mapping Reveals Cell Subtype–specific Genetic Control and Mechanism in Malignant Transformation of Colorectal Cancer Open
Supplementary Figure 19 shows circos plots showing changes in strength of all cell-to-cell interactions between different stages.
View article: Supplementary Figure S3 from Single-cell eQTL Mapping Reveals Cell Subtype–specific Genetic Control and Mechanism in Malignant Transformation of Colorectal Cancer
Supplementary Figure S3 from Single-cell eQTL Mapping Reveals Cell Subtype–specific Genetic Control and Mechanism in Malignant Transformation of Colorectal Cancer Open
Supplementary Figure 3 shows cell markers and differential proportions of epithelial subsets.
View article: Supplementary Figure S35 from Single-cell eQTL Mapping Reveals Cell Subtype–specific Genetic Control and Mechanism in Malignant Transformation of Colorectal Cancer
Supplementary Figure S35 from Single-cell eQTL Mapping Reveals Cell Subtype–specific Genetic Control and Mechanism in Malignant Transformation of Colorectal Cancer Open
Supplementary Figure 35 shows interactions between LGALS9 and TIM3 analyzed in spatial transcriptomics data across different stages using CellChat v2.
View article: Supplementary Figure S30 from Single-cell eQTL Mapping Reveals Cell Subtype–specific Genetic Control and Mechanism in Malignant Transformation of Colorectal Cancer
Supplementary Figure S30 from Single-cell eQTL Mapping Reveals Cell Subtype–specific Genetic Control and Mechanism in Malignant Transformation of Colorectal Cancer Open
Supplementary Figure 30 shows elevated LGALS9 in epithelial cells promotes the transformation of NFs into CAFs across CRC tumorigenesis.
View article: Supplementary Figure S17 from Single-cell eQTL Mapping Reveals Cell Subtype–specific Genetic Control and Mechanism in Malignant Transformation of Colorectal Cancer
Supplementary Figure S17 from Single-cell eQTL Mapping Reveals Cell Subtype–specific Genetic Control and Mechanism in Malignant Transformation of Colorectal Cancer Open
Supplementary Figure 17 shows cell-to-cell interaction analyses in different stages of colorectal cancer development.
View article: Supplementary Figure S26 from Single-cell eQTL Mapping Reveals Cell Subtype–specific Genetic Control and Mechanism in Malignant Transformation of Colorectal Cancer
Supplementary Figure S26 from Single-cell eQTL Mapping Reveals Cell Subtype–specific Genetic Control and Mechanism in Malignant Transformation of Colorectal Cancer Open
Supplementary Figure 26 shows CRC risk prediction by PRS models derived from cell type-specific eQTLs across multi-ethnic populations.
View article: Supplementary Figure S6 from Single-cell eQTL Mapping Reveals Cell Subtype–specific Genetic Control and Mechanism in Malignant Transformation of Colorectal Cancer
Supplementary Figure S6 from Single-cell eQTL Mapping Reveals Cell Subtype–specific Genetic Control and Mechanism in Malignant Transformation of Colorectal Cancer Open
Supplementary Figure 6 shows copy number variations analyses of each epithelial cell subtypes.
View article: Supplementary Figure S20 from Single-cell eQTL Mapping Reveals Cell Subtype–specific Genetic Control and Mechanism in Malignant Transformation of Colorectal Cancer
Supplementary Figure S20 from Single-cell eQTL Mapping Reveals Cell Subtype–specific Genetic Control and Mechanism in Malignant Transformation of Colorectal Cancer Open
Supplementary Figure 20 shows characterization of sc-eQTLs across cell subtypes in colorectal cancer tissues.
View article: Supplementary Figure S36 from Single-cell eQTL Mapping Reveals Cell Subtype–specific Genetic Control and Mechanism in Malignant Transformation of Colorectal Cancer
Supplementary Figure S36 from Single-cell eQTL Mapping Reveals Cell Subtype–specific Genetic Control and Mechanism in Malignant Transformation of Colorectal Cancer Open
Supplementary Figure 36 shows targeting LGALS9 synergizes with anti-PD-1 therapy to inhibit CRC.
View article: Supplementary Figure S7 from Single-cell eQTL Mapping Reveals Cell Subtype–specific Genetic Control and Mechanism in Malignant Transformation of Colorectal Cancer
Supplementary Figure S7 from Single-cell eQTL Mapping Reveals Cell Subtype–specific Genetic Control and Mechanism in Malignant Transformation of Colorectal Cancer Open
Supplementary Figure 7 shows the expression profiles of epithelial cells in different stages of colorectal cancer development.
View article: Supplementary Figure S21 from Single-cell eQTL Mapping Reveals Cell Subtype–specific Genetic Control and Mechanism in Malignant Transformation of Colorectal Cancer
Supplementary Figure S21 from Single-cell eQTL Mapping Reveals Cell Subtype–specific Genetic Control and Mechanism in Malignant Transformation of Colorectal Cancer Open
Supplementary Figure 21 shows relationships between eQTLs identified in single-cell profiles and bulk profiles.
View article: Supplementary Figure S33 from Single-cell eQTL Mapping Reveals Cell Subtype–specific Genetic Control and Mechanism in Malignant Transformation of Colorectal Cancer
Supplementary Figure S33 from Single-cell eQTL Mapping Reveals Cell Subtype–specific Genetic Control and Mechanism in Malignant Transformation of Colorectal Cancer Open
Supplementary Figure 33 shows LGALS9 induces CD8+ T cell exhaustion to facilitate CRC growth in vitro.
View article: Supplementary Figure S34 from Single-cell eQTL Mapping Reveals Cell Subtype–specific Genetic Control and Mechanism in Malignant Transformation of Colorectal Cancer
Supplementary Figure S34 from Single-cell eQTL Mapping Reveals Cell Subtype–specific Genetic Control and Mechanism in Malignant Transformation of Colorectal Cancer Open
Supplementary Figure 34 shows LGALS9 induces CD8+ T cell exhaustion to facilitate CRC growth in vivo.
View article: Supplementary Figure S11 from Single-cell eQTL Mapping Reveals Cell Subtype–specific Genetic Control and Mechanism in Malignant Transformation of Colorectal Cancer
Supplementary Figure S11 from Single-cell eQTL Mapping Reveals Cell Subtype–specific Genetic Control and Mechanism in Malignant Transformation of Colorectal Cancer Open
Supplementary Figure 11 shows the expression profiles of endothelial cells in different stages of colorectal cancer development.
View article: Supplementary Figure S23 from Single-cell eQTL Mapping Reveals Cell Subtype–specific Genetic Control and Mechanism in Malignant Transformation of Colorectal Cancer
Supplementary Figure S23 from Single-cell eQTL Mapping Reveals Cell Subtype–specific Genetic Control and Mechanism in Malignant Transformation of Colorectal Cancer Open
Supplementary Figure 23 shows single-cell eQTL colocalization with risk loci of colorectal cancer.
View article: Supplementary Figure S12 from Single-cell eQTL Mapping Reveals Cell Subtype–specific Genetic Control and Mechanism in Malignant Transformation of Colorectal Cancer
Supplementary Figure S12 from Single-cell eQTL Mapping Reveals Cell Subtype–specific Genetic Control and Mechanism in Malignant Transformation of Colorectal Cancer Open
Supplementary Figure 12 shows cell markers of immune cell subsets.
View article: Supplementary Figure S18 from Single-cell eQTL Mapping Reveals Cell Subtype–specific Genetic Control and Mechanism in Malignant Transformation of Colorectal Cancer
Supplementary Figure S18 from Single-cell eQTL Mapping Reveals Cell Subtype–specific Genetic Control and Mechanism in Malignant Transformation of Colorectal Cancer Open
Supplementary Figure 18 shows the correlation of the expression of ligands and receptors between epithelial subsets and each cell subtype across multistage tissues.
View article: Supplementary Figure S37 from Single-cell eQTL Mapping Reveals Cell Subtype–specific Genetic Control and Mechanism in Malignant Transformation of Colorectal Cancer
Supplementary Figure S37 from Single-cell eQTL Mapping Reveals Cell Subtype–specific Genetic Control and Mechanism in Malignant Transformation of Colorectal Cancer Open
Supplementary Figure 37 shows summary of study design.
View article: Supplementary Figure S2 from Single-cell eQTL Mapping Reveals Cell Subtype–specific Genetic Control and Mechanism in Malignant Transformation of Colorectal Cancer
Supplementary Figure S2 from Single-cell eQTL Mapping Reveals Cell Subtype–specific Genetic Control and Mechanism in Malignant Transformation of Colorectal Cancer Open
Supplementary Figure 2 shows the differential proportion of each major cell type across multistage tissues.
View article: Supplementary Figure S15 from Single-cell eQTL Mapping Reveals Cell Subtype–specific Genetic Control and Mechanism in Malignant Transformation of Colorectal Cancer
Supplementary Figure S15 from Single-cell eQTL Mapping Reveals Cell Subtype–specific Genetic Control and Mechanism in Malignant Transformation of Colorectal Cancer Open
Supplementary Figure 15 shows the expression profiles of B cells in different stages of colorectal cancer development.
View article: Supplementary Figure S32 from Single-cell eQTL Mapping Reveals Cell Subtype–specific Genetic Control and Mechanism in Malignant Transformation of Colorectal Cancer
Supplementary Figure S32 from Single-cell eQTL Mapping Reveals Cell Subtype–specific Genetic Control and Mechanism in Malignant Transformation of Colorectal Cancer Open
Supplementary Figure 32 shows LGALS9 promotes myCAF activation by interacting with SLC1A5.
View article: Supplementary Tables S1-S17 from Single-cell eQTL Mapping Reveals Cell Subtype–specific Genetic Control and Mechanism in Malignant Transformation of Colorectal Cancer
Supplementary Tables S1-S17 from Single-cell eQTL Mapping Reveals Cell Subtype–specific Genetic Control and Mechanism in Malignant Transformation of Colorectal Cancer Open
Table S1. The clinical characteristics of the 142 colorectal tissues in this study. Table S2. Single cell RNA-seq quality control metrics for 130 multistage samples. Supplementary Table 3. Marker genes for major cell types. Supplementary T…
View article: Supplementary Figure S5 from Single-cell eQTL Mapping Reveals Cell Subtype–specific Genetic Control and Mechanism in Malignant Transformation of Colorectal Cancer
Supplementary Figure S5 from Single-cell eQTL Mapping Reveals Cell Subtype–specific Genetic Control and Mechanism in Malignant Transformation of Colorectal Cancer Open
Supplementary Figure 5 shows unbiased clustering of spatial transcriptomic spots and define cell types of each cluster for four stage samples.