Journal: Journal of Immunology Research

Article Title: Comprehensive Analysis of PDLIM3 Expression Profile, Prognostic Value, and Correlations with Immune Infiltrates in Gastric Cancer

doi: 10.1155/2022/2039447

Figure Lengend Snippet: PDLIM3 expression profile in multiple types of human malignancies: (a) PDLIM3 in different malignancies compared to nontumor tissues in Oncomine database; (b) PDLIM3 mRNA level in multiple carcinomas types from GEPIA database.

Article Snippet: The 15 pairs of matched tissues were utilized for detecting PDLIM3 protein expression by immunohistochemistry (IHC), using an anti-PDLIM3 antibody purchased from Bioss (Beijing, China; bs-2928R).

Techniques: Expressing

Journal: Journal of Immunology Research

Article Title: Comprehensive Analysis of PDLIM3 Expression Profile, Prognostic Value, and Correlations with Immune Infiltrates in Gastric Cancer

doi: 10.1155/2022/2039447

Figure Lengend Snippet: PDLIM3 mRNA and protein expression in gastric cancer. (a and b) PDLIM3 mRNA level in the GSE54129 and GSE118916 datasets. (c) PDLIM3 mRNA profile in GEPIA. (d) PDLIM3 protein profile in HPA database. PDLIM3 protein staining was negative in nontumor tissues (gastric normal tissue) and moderate in tumor tissues (gastric cancer). (e) PDLIM3 mRNA profile in pathological stages.

Article Snippet: The 15 pairs of matched tissues were utilized for detecting PDLIM3 protein expression by immunohistochemistry (IHC), using an anti-PDLIM3 antibody purchased from Bioss (Beijing, China; bs-2928R).

Techniques: Expressing, Staining

Journal: Journal of Immunology Research

Article Title: Comprehensive Analysis of PDLIM3 Expression Profile, Prognostic Value, and Correlations with Immune Infiltrates in Gastric Cancer

doi: 10.1155/2022/2039447

Figure Lengend Snippet: Comparison of PDLIM3 IHC staining between 15 matched tumor tissues (gastric cancer) and nontumor tissues (adjacent normal tissue): (a) IHC staining results of PDLIM3; (b) Analysis of PDLIM3 IHC results.

Article Snippet: The 15 pairs of matched tissues were utilized for detecting PDLIM3 protein expression by immunohistochemistry (IHC), using an anti-PDLIM3 antibody purchased from Bioss (Beijing, China; bs-2928R).

Techniques: Immunohistochemistry

Journal: Journal of Immunology Research

Article Title: Comprehensive Analysis of PDLIM3 Expression Profile, Prognostic Value, and Correlations with Immune Infiltrates in Gastric Cancer

doi: 10.1155/2022/2039447

Figure Lengend Snippet: The Kaplan-Meier survival curves of comparing discrepant expression of PDLIM3 in gastric cancer: (a) Overall survival (OS) curves; (b) Progression-free survival (PFS) curves.

Article Snippet: The 15 pairs of matched tissues were utilized for detecting PDLIM3 protein expression by immunohistochemistry (IHC), using an anti-PDLIM3 antibody purchased from Bioss (Beijing, China; bs-2928R).

Techniques: Expressing

Journal: Journal of Immunology Research

Article Title: Comprehensive Analysis of PDLIM3 Expression Profile, Prognostic Value, and Correlations with Immune Infiltrates in Gastric Cancer

doi: 10.1155/2022/2039447

Figure Lengend Snippet: Correlation of PDLIM3 mRNA level and clinical outcomes in gastric cancer with multiple clinicopathological factors by the Kaplan-Meier plotter.

Article Snippet: The 15 pairs of matched tissues were utilized for detecting PDLIM3 protein expression by immunohistochemistry (IHC), using an anti-PDLIM3 antibody purchased from Bioss (Beijing, China; bs-2928R).

Techniques:

Journal: Journal of Immunology Research

Article Title: Comprehensive Analysis of PDLIM3 Expression Profile, Prognostic Value, and Correlations with Immune Infiltrates in Gastric Cancer

doi: 10.1155/2022/2039447

Figure Lengend Snippet: PDLIM3 gene enrichment analysis of GEO dataset: (a) Enriched GO terms of PDLIM3-related genes in GSE54129; (b) Enriched KEGG pathways of PDLIM3-related genes in GSE54129.

Article Snippet: The 15 pairs of matched tissues were utilized for detecting PDLIM3 protein expression by immunohistochemistry (IHC), using an anti-PDLIM3 antibody purchased from Bioss (Beijing, China; bs-2928R).

Techniques:

Journal: Journal of Immunology Research

Article Title: Comprehensive Analysis of PDLIM3 Expression Profile, Prognostic Value, and Correlations with Immune Infiltrates in Gastric Cancer

doi: 10.1155/2022/2039447

Figure Lengend Snippet: Correlation of PDLIM3 with immune infiltration level in gastric cancer. PDLIM3 expression is related to infiltrating levels of CD4 + T cells, CD8 + T cells, macrophages, neutrophils, and dendritic cells.

Article Snippet: The 15 pairs of matched tissues were utilized for detecting PDLIM3 protein expression by immunohistochemistry (IHC), using an anti-PDLIM3 antibody purchased from Bioss (Beijing, China; bs-2928R).

Techniques: Expressing

Journal: Journal of Immunology Research

Article Title: Comprehensive Analysis of PDLIM3 Expression Profile, Prognostic Value, and Correlations with Immune Infiltrates in Gastric Cancer

doi: 10.1155/2022/2039447

Figure Lengend Snippet: Correlation analysis between PDLIM3 and related gene markers of immune cells in TIMER 2.0.

Article Snippet: The 15 pairs of matched tissues were utilized for detecting PDLIM3 protein expression by immunohistochemistry (IHC), using an anti-PDLIM3 antibody purchased from Bioss (Beijing, China; bs-2928R).

Techniques:

Journal: Journal of Immunology Research

Article Title: Comprehensive Analysis of PDLIM3 Expression Profile, Prognostic Value, and Correlations with Immune Infiltrates in Gastric Cancer

doi: 10.1155/2022/2039447

Figure Lengend Snippet: Correlation between PDLIM3 expression and biomarkers of macrophage, Treg, and dendritic cell in gastric cancer: (a) CCL2, CD68, and IL10 of TAM; (b) FOXP3, CCR8, STAT5B, and TGF β (TGFB1) of Treg; (c) HLA-DPB1, HLA-DQB1, HLA-DRA, HLA-DPA1, BDCA-1 (CD1C), BDCA-4 (NRP1), and CD11c (ITGAX) of dendritic cell; (d) CD163, VSIG4, and MS4A4A of M2 macrophage.

Article Snippet: The 15 pairs of matched tissues were utilized for detecting PDLIM3 protein expression by immunohistochemistry (IHC), using an anti-PDLIM3 antibody purchased from Bioss (Beijing, China; bs-2928R).

Techniques: Expressing

Journal: Journal of Immunology Research

Article Title: Comprehensive Analysis of PDLIM3 Expression Profile, Prognostic Value, and Correlations with Immune Infiltrates in Gastric Cancer

doi: 10.1155/2022/2039447

Figure Lengend Snippet: Correlation analysis between PDLIM3 and related gene markers of macrophage, dendritic cell, and Treg in GEPIA.

Article Snippet: The 15 pairs of matched tissues were utilized for detecting PDLIM3 protein expression by immunohistochemistry (IHC), using an anti-PDLIM3 antibody purchased from Bioss (Beijing, China; bs-2928R).

Techniques:

Journal: Journal of Immunology Research

Article Title: Comprehensive Analysis of PDLIM3 Expression Profile, Prognostic Value, and Correlations with Immune Infiltrates in Gastric Cancer

doi: 10.1155/2022/2039447

Figure Lengend Snippet: Correlation of PDLIM3 expression with biomarkers of enriched KEGG pathways in gastric cancer: (a) PI3K (PIK3R1), PTEN, PKB- γ (AKT3), and BRAF (PIK3CA) of PI3K/Akt pathway; (b) TGF- β (TGFB1), DLK (MAP3K12), MEK7 (MAP2K7), and P38 β (MAPK11) of p38 MAPK pathway; (c) MEK1 (MAP2K1), MEK2 (MAP2K2), ERK1 (MAPK1), and ELK1 of ERK MAPK pathway.

Article Snippet: The 15 pairs of matched tissues were utilized for detecting PDLIM3 protein expression by immunohistochemistry (IHC), using an anti-PDLIM3 antibody purchased from Bioss (Beijing, China; bs-2928R).

Techniques: Expressing

Journal: Gut Microbes

Article Title: Ultra-processed foods sourced 7-ketositosterol aggravates colitis through gut dysbiosis induced-PDLIM3 activation

doi: 10.1080/19490976.2025.2587980

Figure Lengend Snippet: KS upregulates the expression of PDLIM3 and activates the p38MAPK/NF-κB pathway. (a) GO enrichment analysis of genes significantly upregulated in colon tissues. ( n = 3). (b) Heatmap representation of RNA sequencing data from colon tissues ( n = 3). (c) Relative mRNA level of PDLIM3 ( n = 6). (d) Immunofluorescence staining for PDLIM3 (red) and nuclei by DAPI (blue) in the colon. Scale bar, 20 μm. (e) Protein levels of PDLIM3, p38, p -p38, p65, p -p65, IκBα, and p -IκBα were measured via Western blotting ( n = 6), and GAPDH was used as a loading control. (f) Immunofluorescence staining for PDLIM3 (red) and nuclei by DAPI (blue) in the colon of UC patients with low or high KS intake and correlation analysis between KS intake and fluorescence intensity ( n = 13). GO gene ontology, PDLIM3 PDZ and LIM domain 3. Data are presented as the mean ± SEM; * P < 0.05, ** P < 0.01, *** P < 0.001 by two-tailed one-way ANOVA.

Article Snippet: The membranes were subsequently incubated overnight at 4 °C with primary antibodies against CLND−3 (rabbit anti-mouse; Affinity Biosciences), ZO-1 (rabbit anti-mouse; Proteintech Group), PDLIM3 (rabbit anti-mouse; Proteintech Group), p38 (anti-mouse monoclonal antibody, Affinity Biosciences), p -p38 (rabbit anti-mouse; Affinity Biosciences), p65 (anti-mouse monoclonal antibody, Affinity Biosciences), p -p65 (rabbit anti-mouse; Affinity Biosciences), IκBα (rabbit anti-mouse; Affinity Biosciences), and p -IκBα (rabbit anti-mouse; Affinity Biosciences) and then incubated with HRP-conjugated secondary antibodies (Beyotime Biotechnology).

Techniques: Expressing, RNA Sequencing, Immunofluorescence, Staining, Western Blot, Control, Fluorescence, Two Tailed Test

Journal: Gut Microbes

Article Title: Ultra-processed foods sourced 7-ketositosterol aggravates colitis through gut dysbiosis induced-PDLIM3 activation

doi: 10.1080/19490976.2025.2587980

Figure Lengend Snippet: KS aggravates colitis in mice via the gut microbiota. (a) Schematic illustration of the experimental procedure. Abx: antibiotic cocktail. (b, c) Changes in body weight and DAI score after DSS induction ( n = 6 for the control, KS; n = 8 for the DSS, DSS + KS, and Abx + DSS + KS). (d) Colon length (cm) on day 8 after DSS induction. (e) Representative images of hematoxylin and eosin (H&E)-stained colon sections (left panel) and colon histopathological scores (right panel). ( n = 8) Scale bar, 100 μm. (f) Protein levels of PDLIM3 were measured by Western blotting, and GAPDH was used as a loading control ( n = 4). (g) Schematic illustration of the FMT procedure. Mouse feces from the KS/Control group were transplanted into recipient mice, and then DSS was administered ( n = 5). (h, i) Body weight and DAI score. (j) Colon length (cm) on day 8 after DSS induction. (k) Representative images of hematoxylin and eosin (H&E)-stained colon sections (left panel) and colon histopathological scores (right panel). Scale bar, 100 μm. (l) Protein levels of PDLIM3 were measured by Western blotting ( n = 5). KS 7-ketositosterol, DSS dextran sodium sulfate, FMT fecal microbiota transplantation, PDLIM3 PDZ and LIM domain 3. Data are presented as the mean ± SEM; * P < 0.05, ** P < 0.01, *** P < 0.001, ns not significant by two-tailed one-way ANOVA.

Article Snippet: The membranes were subsequently incubated overnight at 4 °C with primary antibodies against CLND−3 (rabbit anti-mouse; Affinity Biosciences), ZO-1 (rabbit anti-mouse; Proteintech Group), PDLIM3 (rabbit anti-mouse; Proteintech Group), p38 (anti-mouse monoclonal antibody, Affinity Biosciences), p -p38 (rabbit anti-mouse; Affinity Biosciences), p65 (anti-mouse monoclonal antibody, Affinity Biosciences), p -p65 (rabbit anti-mouse; Affinity Biosciences), IκBα (rabbit anti-mouse; Affinity Biosciences), and p -IκBα (rabbit anti-mouse; Affinity Biosciences) and then incubated with HRP-conjugated secondary antibodies (Beyotime Biotechnology).

Techniques: Control, Staining, Western Blot, Transplantation Assay, Two Tailed Test

Journal: Gut Microbes

Article Title: Ultra-processed foods sourced 7-ketositosterol aggravates colitis through gut dysbiosis induced-PDLIM3 activation

doi: 10.1080/19490976.2025.2587980

Figure Lengend Snippet: Staphylococcus lentus exacerbates DSS-induced colitis in mice through interacting with PDLIM3. (a) Experimental design. The mice were administered Staphylococcus lentus before DSS induction ( n = 5 for control, SL; n = 6 for the DSS and DSS + SL). (b, c) Changes in body weight and DAI score. (d) Colon length (cm) on day 10 after DSS induction. (e) Relative mRNA level of IL-1β, IL-6, and TNF- α in colon. (f) Representative images of hematoxylin and eosin (H&E)-stained colon sections (left panel) and colon histopathological scores (right panel). Scale bar, 100 μm. (g) Purification of PDLIM3 and immunoprecipitation analysis of PDLIM3. (h) Predicted docking mode of LPDP and PDLIM3. PDLIM3 is displayed in blue, and LPDP is displayed in green. (i) Microscale thermophoresis analysis of the interaction between PDLIM3 and LPDP. SL Staphylococcus lentus , PDLIM3 PDZ and LIM domain 3, LPDP lysin motif peptidoglycan-binding domain-containing protein, DSS dextran sodium sulfate. Data are presented as the mean ± SEM; * P < 0.05, ** P < 0.01, *** P < 0.001 by two-tailed one-way ANOVA.

Article Snippet: The membranes were subsequently incubated overnight at 4 °C with primary antibodies against CLND−3 (rabbit anti-mouse; Affinity Biosciences), ZO-1 (rabbit anti-mouse; Proteintech Group), PDLIM3 (rabbit anti-mouse; Proteintech Group), p38 (anti-mouse monoclonal antibody, Affinity Biosciences), p -p38 (rabbit anti-mouse; Affinity Biosciences), p65 (anti-mouse monoclonal antibody, Affinity Biosciences), p -p65 (rabbit anti-mouse; Affinity Biosciences), IκBα (rabbit anti-mouse; Affinity Biosciences), and p -IκBα (rabbit anti-mouse; Affinity Biosciences) and then incubated with HRP-conjugated secondary antibodies (Beyotime Biotechnology).

Techniques: Control, Staining, Purification, Immunoprecipitation, Microscale Thermophoresis, Binding Assay, Two Tailed Test

Journal: Gut Microbes

Article Title: Ultra-processed foods sourced 7-ketositosterol aggravates colitis through gut dysbiosis induced-PDLIM3 activation

doi: 10.1080/19490976.2025.2587980

Figure Lengend Snippet: Blockade of the interaction between LysM peptidoglycan-binding domain-containing protein and PDLIM3 by tubuloside B alleviates SL-induced colitis in mice. (a) Molecular docking results of high-throughput screening based on the interaction of LPDP and PDLIM3. (b) Predicted docking model of the three-dimensional structure of tubuloside B and the PDLIM3/LPDP complex. PDLIM3 is displayed in yellow, LysM peptidoglycan-binding domain-containing protein is displayed in blue, and tubuloside B is displayed in green. (c) Microscale thermophoresis results for the binding of LPDP to PDLIM3 in the presence of tubuloside B. (d) The experimental design of DSS colitis model ( n = 5 for the control and Tub B groups; n = 6 for the SL and SL + Tub B). (e, f) Body weight and DAI score. (g) Colon length (cm) on day 8 after DSS induction ( n = 4 for the control, n = 5 for Tub B; n = 4 for SL, n = 5 for SL + Tub B). (h) Representative images of hematoxylin and eosin (H&E)-stained colon sections (left panel) and colon histopathological scores (right panel). Scale bar, 100 μm. LPDP, lysin motif peptidoglycan-binding domain-containing protein; PDLIM3 PDZ and LIM domain 3, DSS dextran sodium sulfate, Tub B tubuloside B. Data are presented as the mean ± SEM; * P < 0.05, ** P < 0.01, *** P < 0.001, ns, not significant by two-tailed one-way ANOVA.

Article Snippet: The membranes were subsequently incubated overnight at 4 °C with primary antibodies against CLND−3 (rabbit anti-mouse; Affinity Biosciences), ZO-1 (rabbit anti-mouse; Proteintech Group), PDLIM3 (rabbit anti-mouse; Proteintech Group), p38 (anti-mouse monoclonal antibody, Affinity Biosciences), p -p38 (rabbit anti-mouse; Affinity Biosciences), p65 (anti-mouse monoclonal antibody, Affinity Biosciences), p -p65 (rabbit anti-mouse; Affinity Biosciences), IκBα (rabbit anti-mouse; Affinity Biosciences), and p -IκBα (rabbit anti-mouse; Affinity Biosciences) and then incubated with HRP-conjugated secondary antibodies (Beyotime Biotechnology).

Techniques: Binding Assay, High Throughput Screening Assay, Microscale Thermophoresis, Control, Staining, Two Tailed Test

Journal: Gut Microbes

Article Title: Ultra-processed foods sourced 7-ketositosterol aggravates colitis through gut dysbiosis induced-PDLIM3 activation

doi: 10.1080/19490976.2025.2587980

Figure Lengend Snippet: Schematic summary of the role of KS-induced colitis. Excessive intake of ultra-processed foods means increased exposure to KS. KS exacerbated DSS-induced colitis in a gut microbiota-dependent manner and resulted in gut dysbiosis, especially increasing the abundance of Staphylococcus lentus . Staphylococcus lentus -derived LPDP could interact with PDLIM3 and activate the p38MAPK/NF-κB signaling pathway, and the binding interfaces could be blocked by tubuloside B, a Chinese herbal extract selected by high-throughput screening, to ameliorate colitis. KS 7-ketositosterol, DSS dextran sodium sulfate, LPDP, lysin motif peptidoglycan-binding domain-containing protein, PDLIM3 PDZ and LIM Domain 3.

Article Snippet: The membranes were subsequently incubated overnight at 4 °C with primary antibodies against CLND−3 (rabbit anti-mouse; Affinity Biosciences), ZO-1 (rabbit anti-mouse; Proteintech Group), PDLIM3 (rabbit anti-mouse; Proteintech Group), p38 (anti-mouse monoclonal antibody, Affinity Biosciences), p -p38 (rabbit anti-mouse; Affinity Biosciences), p65 (anti-mouse monoclonal antibody, Affinity Biosciences), p -p65 (rabbit anti-mouse; Affinity Biosciences), IκBα (rabbit anti-mouse; Affinity Biosciences), and p -IκBα (rabbit anti-mouse; Affinity Biosciences) and then incubated with HRP-conjugated secondary antibodies (Beyotime Biotechnology).

Techniques: Derivative Assay, Binding Assay, High Throughput Screening Assay

Journal: International Journal of Molecular Sciences

Article Title: MiRNA-29b and miRNA-497 Modulate the Expression of Carboxypeptidase X Member 2, a Candidate Gene Associated with Left Ventricular Hypertrophy

doi: 10.3390/ijms23042263

Figure Lengend Snippet: Expression of CPXM2 and Pdlim3 in rat cardiomyocytes. H9C2 cells were fixed and double-labelled for confocal indirect immunofluorescence microscopy with the polyclonal ( A ) anti-CPXM2 and ( B ) anti-Pdlim3 antibodies. In the overlay image ( C ) intracellular co-localisation of CPXM2 and Pdlim3 in rat cardiomyocytes is depicted. Nuclear DNA was stained with DAPI (shown in blue). In ( D ) the CPXM2 protein expression in H9C2 as well as a positive control (human recombinant CPXM2) and negative control (empty well) are shown. Bar = 100 μm.

Article Snippet: Next, after two washings steps in 1× PBS, samples were incubated with polyclonal ALEXA FLUOR ® 594 conjugated rabbit anti-rat Pdlim3 antibodies (#bs-2928R-A594, Bioss, Woburn, MA, USA) in a 1:200 dilution for 1 h at room temperature in the dark.

Techniques: Expressing, Immunofluorescence, Microscopy, Staining, Positive Control, Recombinant, Negative Control

Journal: PeerJ

Article Title: Bioinformatical analysis identifies PDLIM3 as a potential biomarker associated with immune infiltration in patients with endometriosis

doi: 10.7717/peerj.13218

Figure Lengend Snippet: The statistical metrics for key differentially expressed genes (DEGs).

Article Snippet: The primary antibodies rabbit anti-PDLIM3 antibody (1:2,000; Servicebio) was used and rabbit anti-β-Actin (1:5,000; ABclonal) served as the internal control.

Techniques:

Journal: PeerJ

Article Title: Bioinformatical analysis identifies PDLIM3 as a potential biomarker associated with immune infiltration in patients with endometriosis

doi: 10.7717/peerj.13218

Figure Lengend Snippet: The enriched GO terms of differentially expressed genes.

Article Snippet: The primary antibodies rabbit anti-PDLIM3 antibody (1:2,000; Servicebio) was used and rabbit anti-β-Actin (1:5,000; ABclonal) served as the internal control.

Techniques: Activation Assay, Clinical Proteomics, Membrane, Binding Assay, Activity Assay

Journal: PeerJ

Article Title: Bioinformatical analysis identifies PDLIM3 as a potential biomarker associated with immune infiltration in patients with endometriosis

doi: 10.7717/peerj.13218

Figure Lengend Snippet: (A) A PPI network of DEGs. (B) A plot of biomarkers selection by LASSO regression algorithm. (C) The receiver operating characteristic (ROC) curve of FMO1, PDLIM3, FAM129A, CLDN11, C3, TMPRSS4 and DEFB1 in the metadata cohort. (D) ROC curve of FMO1, PDLIM3, FAM129A, CLDN11, C3, TMPRSS4 and DEFB1 in the GSE120103 dataset.

Article Snippet: The primary antibodies rabbit anti-PDLIM3 antibody (1:2,000; Servicebio) was used and rabbit anti-β-Actin (1:5,000; ABclonal) served as the internal control.

Techniques: Selection

Journal: PeerJ

Article Title: Bioinformatical analysis identifies PDLIM3 as a potential biomarker associated with immune infiltration in patients with endometriosis

doi: 10.7717/peerj.13218

Figure Lengend Snippet: (A) The expression level of FMO1, PDLIM3, FAM129A, CLDN11, C3, TMPRSS4 and DEFB1 in the GSE120103 dataset. (B) The mRNA expression level of PDLIM3 in endometriosis and control samples. (C) The protein expression level of PDLIM3 in endometriosis and control samples. Mean ± SD, *** P < 0.001.

Article Snippet: The primary antibodies rabbit anti-PDLIM3 antibody (1:2,000; Servicebio) was used and rabbit anti-β-Actin (1:5,000; ABclonal) served as the internal control.

Techniques: Expressing, Control

Journal: PeerJ

Article Title: Bioinformatical analysis identifies PDLIM3 as a potential biomarker associated with immune infiltration in patients with endometriosis

doi: 10.7717/peerj.13218

Figure Lengend Snippet: (A) Correlation between PDLIM3 and single type of immune cell. (B) A comprehensive correlation analysis of PDLIM3 and infiltrating immune cells in endometriosis.

Article Snippet: The primary antibodies rabbit anti-PDLIM3 antibody (1:2,000; Servicebio) was used and rabbit anti-β-Actin (1:5,000; ABclonal) served as the internal control.

Techniques: