Journal: Scientific Reports

Article Title: Evaluation of therapeutic use of a combination of pentoxifylline and vitamin E in radiation-induced renal fibrosis

doi: 10.1038/s41598-024-57850-0

Figure Lengend Snippet: The pairwise comparison of groups (Immunohistochemistry).

Article Snippet: Nonspecific binding was prevented by 5 min of UltraV block application and sections were incubated overnight at + 4 °C with primary antibodies (Fibronectin (bs-0666R, rabbit polyclonal, Bioss Inc.), TGFβ1 (bs-0086R, rabbit polyclonal, Bioss Inc.), Collagen-1 (bs-10423R, rabbit polyclonal, Bioss Inc.), Collagen-4 (bs-4595R, rabbit polyclonal, Bioss Inc.), p-SMAD3 (bs-3425R, rabbit polyclonal, Bioss Inc.), CTGF (bs-0743R, rabbit polyclonal, Bioss Inc.), αSMA (bsm-52392R, rabbit monoclonal, Bioss Inc.), VEGF (bs-1665R, rabbit polyclonal, Bioss Inc.), MMP9 (bs-0397R, rabbit polyclonal, Bioss Inc.) ve TIMP1 (bs-0415R, rabbit polyclonal, Bioss Inc.) at a 1: 200 dilution.

Techniques: Comparison, Immunohistochemistry, Control

Journal: Journal of Oncology

Article Title: Identification of Prognostic Biomarkers of Glioblastoma Based on Multidatabase Integration and Its Correlation with Immune-Infiltration Cells

doi: 10.1155/2022/3909030

Figure Lengend Snippet: The common DEGs of four gene expression profiles (adj. P value <0.05, |logFC|> 2.0).

Article Snippet: After blocking with 5% fat-free milk, incubate with primary antibodies against TIMP1 (A00561-1; Boster, China) and β -actin (Beyotime Biotechnology, China), respectively, using a dilution of 1 : 1000 for each antibody overnight at 4°C.

Techniques: Gene Expression

Journal: Journal of Oncology

Article Title: Identification of Prognostic Biomarkers of Glioblastoma Based on Multidatabase Integration and Its Correlation with Immune-Infiltration Cells

doi: 10.1155/2022/3909030

Figure Lengend Snippet: PPI network and hub genes' identification. (a) PPI network was structured by the 54 upregulated DEGs using STRING database. (b) The top 10 hub genes in the PPI network were screened ground on their connectivity degree. The genes such as CD44, COL1A1, COL1A2, COL3A1, FN1, IGFBP3, LOX, POSTN, TIMP1, and VEGFA are represented from red (high degree) to yellow (low degree). (c) Gene Ontology (GO) chord diagram of the top genes in GBM.

Article Snippet: After blocking with 5% fat-free milk, incubate with primary antibodies against TIMP1 (A00561-1; Boster, China) and β -actin (Beyotime Biotechnology, China), respectively, using a dilution of 1 : 1000 for each antibody overnight at 4°C.

Techniques:

Journal: Journal of Oncology

Article Title: Identification of Prognostic Biomarkers of Glioblastoma Based on Multidatabase Integration and Its Correlation with Immune-Infiltration Cells

doi: 10.1155/2022/3909030

Figure Lengend Snippet: Top ten hub genes with higher degree of connectivity.

Article Snippet: After blocking with 5% fat-free milk, incubate with primary antibodies against TIMP1 (A00561-1; Boster, China) and β -actin (Beyotime Biotechnology, China), respectively, using a dilution of 1 : 1000 for each antibody overnight at 4°C.

Techniques: Binding Assay

Journal: Journal of Oncology

Article Title: Identification of Prognostic Biomarkers of Glioblastoma Based on Multidatabase Integration and Its Correlation with Immune-Infiltration Cells

doi: 10.1155/2022/3909030

Figure Lengend Snippet: The AUC analysis of hub genes. AUC analysis of CD44, COL1A1, COL1A2, COL3A1, FN1, IGFBP3, LOX, POSTN, TIMP1, and VEGFA for distinguishing GBM samples from normal tissues.

Article Snippet: After blocking with 5% fat-free milk, incubate with primary antibodies against TIMP1 (A00561-1; Boster, China) and β -actin (Beyotime Biotechnology, China), respectively, using a dilution of 1 : 1000 for each antibody overnight at 4°C.

Techniques:

Journal: Journal of Oncology

Article Title: Identification of Prognostic Biomarkers of Glioblastoma Based on Multidatabase Integration and Its Correlation with Immune-Infiltration Cells

doi: 10.1155/2022/3909030

Figure Lengend Snippet: OS, DFS, and univariate and multivariate Cox analysis of the hub genes overexpressed in GBM patients. (a) OS of the hub genes overexpressed in GBM sufferers. (b) DFS of the hub genes overexpressed in GBM sufferers. (c) Univariate and multivariate Cox analysis of TIMP1 expression and other clinical pathological factors for OS. HR, hazard ratio.

Article Snippet: After blocking with 5% fat-free milk, incubate with primary antibodies against TIMP1 (A00561-1; Boster, China) and β -actin (Beyotime Biotechnology, China), respectively, using a dilution of 1 : 1000 for each antibody overnight at 4°C.

Techniques: Expressing

Journal: Journal of Oncology

Article Title: Identification of Prognostic Biomarkers of Glioblastoma Based on Multidatabase Integration and Its Correlation with Immune-Infiltration Cells

doi: 10.1155/2022/3909030

Figure Lengend Snippet: Correlation between immune infiltrates and TIMP1 expression in GBM. (a) TIMP1 expression was definitely connected with CD4+ T cell, B cell, T cell regulatory (Tregs), neutrophils, cancer-associated fibroblast, macrophage M1, and myeloid dendritic cell. (b–d) Higher infiltration of Tregs, cancer-associated fibroblast, and mast cell correlated with worse prognosis.

Article Snippet: After blocking with 5% fat-free milk, incubate with primary antibodies against TIMP1 (A00561-1; Boster, China) and β -actin (Beyotime Biotechnology, China), respectively, using a dilution of 1 : 1000 for each antibody overnight at 4°C.

Techniques: Expressing

Journal: Journal of Oncology

Article Title: Identification of Prognostic Biomarkers of Glioblastoma Based on Multidatabase Integration and Its Correlation with Immune-Infiltration Cells

doi: 10.1155/2022/3909030

Figure Lengend Snippet: Correlation analysis between TIMP1 and related genes and markers of immune cells in TIMER.

Article Snippet: After blocking with 5% fat-free milk, incubate with primary antibodies against TIMP1 (A00561-1; Boster, China) and β -actin (Beyotime Biotechnology, China), respectively, using a dilution of 1 : 1000 for each antibody overnight at 4°C.

Techniques:

Journal: Journal of Oncology

Article Title: Identification of Prognostic Biomarkers of Glioblastoma Based on Multidatabase Integration and Its Correlation with Immune-Infiltration Cells

doi: 10.1155/2022/3909030

Figure Lengend Snippet: Downregulation of TIMP1 inhibits cell proliferation, migration, and invasion in U-87 MG and U-118 MG cells. (a, b) The results of qPCR and WB showed that compared with many glioblastoma cell lines, U-87 MG and U-118 MG cell lines were selected for TIMP1 gene related function test. (c, d) qPCR and WB showed that TIMP1 expression was inhibited in U-87 MG and U-118 MG cells transfected with sh-TIMP1 compared with the NC group. (e, f) CCK-8 and colony formation assays revealed that the proliferation abilities were suppressed in U-87 MG and U-118 MG cells transfected with sh-TIMP1 compared with the NC group. (g, h) Transwell assay revealed that cell migration and invasion were suppressed in U-87 MG and U-118 MG cells transfected with sh-TIMP1 compared with the NC group. ∗ P < 0.05; ∗∗ P < 0.01; ∗∗∗ P < 0.001.

Article Snippet: After blocking with 5% fat-free milk, incubate with primary antibodies against TIMP1 (A00561-1; Boster, China) and β -actin (Beyotime Biotechnology, China), respectively, using a dilution of 1 : 1000 for each antibody overnight at 4°C.

Techniques: Migration, Expressing, Transfection, CCK-8 Assay, Transwell Assay

Journal: Nature Communications

Article Title: A hybrid sub-lineage of Listeria monocytogenes comprising hypervirulent isolates

doi: 10.1038/s41467-019-12072-1

Figure Lengend Snippet: WTA galactosylation promotes association of Ami, ActA and InlA to the surface of Lm. a Surface-associated and secreted Lm proteins extracts were obtained from XYSN, ∆1095, and ∆1095::1095. LLO protein levels were used as sample loading control. The image presented is representative of three independent experiments. b Confocal images of XYSN, Δ1095, Δ1095::1095 in Caco-2 BBe cells at 7 h-post infection. ActA was visualized with an anti-ActA monoclonal antibody and goat Anti-Mouse Alexa Fluor 488-conjugated IgG (green), the actin cytoskeleton was stained by phalloidin (red), and DNA was stained by DAPI (blue) following fixation and permeabilization of the sample. Magnification of all images: ×1000. Scale bars, 10 μm

Article Snippet: Proteins were detected using the following antibodies: mouse monoclonal antibody against LLO (3B6) and ActA (6F5) at a 1:2000 dilution, and rabbit polyclonal anti-InlA serum (CSB-PA758331HA01AAD, CUSABIO) at 1:2000 dilution and anti-Ami serum at a 1:5000 dilution – .

Techniques: Control, Infection, Staining

Journal: Journal of Personalized Medicine

Article Title: The Composition of Small Extracellular Vesicles (sEVs) in the Blood Plasma of Colorectal Cancer Patients Reflects the Presence of Metabolic Syndrome and Correlates with Angiogenesis and the Effectiveness of Thermoradiation Therapy

doi: 10.3390/jpm13040684

Figure Lengend Snippet: Flow cytometry of blood plasma sEVs. ( A ) Forward scatter area (FSC-A) versus side scatter area (SSC-A) dot plot representing sEV samples adsorbed on aldehyde–sulfate latex beads labeled anti-CD9 or anti-FABP4 antibodies; ( B ) HSP60-positive sEVs within CD9-positive sEVs in CPPs and ( C ) CRCPs; ( D ) triple-labeling with antibodies against HSP60, HSP27, and HSP90 of plasma CD9-positive sEVs of CPPs and ( E ) CRCPs; ( F ) MMP9-positive population within FABP4-positive sEVs in CRCPs; ( G ) triple-labeling with antibodies against MMP9, MMP2, and TIMP1 of blood plasma FABP4-positive sEVs of CRCPs and ( H ) CPPs.

Article Snippet: After washing the CD9 antibody-coated latex bead–sEV complexes with PBS, human BD Fc Block (BD Biosciences, Heidelberg, Germany) was used to block nonspecific binding, and then the complexes were stained with anti-TIMP1-APC (2 µL per test, FAA522Hu51, Cloud-Clone Corp., Wuhan, China), anti-MMP2-PE (2 µL per test, FAA100Hu41, Cloud-Clone Corp., Wuhan, China), and anti-MMP9- FITC antibodies (2 µL per test, FAA553Hu81, Cloud-Clone Corp., Wuhan, China).

Techniques: Flow Cytometry, Labeling

Journal: Journal of Personalized Medicine

Article Title: The Composition of Small Extracellular Vesicles (sEVs) in the Blood Plasma of Colorectal Cancer Patients Reflects the Presence of Metabolic Syndrome and Correlates with Angiogenesis and the Effectiveness of Thermoradiation Therapy

doi: 10.3390/jpm13040684

Figure Lengend Snippet: MMPs and HSPs composition on the surface of CD9-positive sEVs in blood plasma in CPPs and CRCPs, mean ± SE *.

Article Snippet: After washing the CD9 antibody-coated latex bead–sEV complexes with PBS, human BD Fc Block (BD Biosciences, Heidelberg, Germany) was used to block nonspecific binding, and then the complexes were stained with anti-TIMP1-APC (2 µL per test, FAA522Hu51, Cloud-Clone Corp., Wuhan, China), anti-MMP2-PE (2 µL per test, FAA100Hu41, Cloud-Clone Corp., Wuhan, China), and anti-MMP9- FITC antibodies (2 µL per test, FAA553Hu81, Cloud-Clone Corp., Wuhan, China).

Techniques:

Journal: Journal of Personalized Medicine

Article Title: The Composition of Small Extracellular Vesicles (sEVs) in the Blood Plasma of Colorectal Cancer Patients Reflects the Presence of Metabolic Syndrome and Correlates with Angiogenesis and the Effectiveness of Thermoradiation Therapy

doi: 10.3390/jpm13040684

Figure Lengend Snippet: MMP and HSP composition on the surface of FABP4-positive sEVs in blood plasma in CPPs and CRCPs, mean ± SE *.

Article Snippet: After washing the CD9 antibody-coated latex bead–sEV complexes with PBS, human BD Fc Block (BD Biosciences, Heidelberg, Germany) was used to block nonspecific binding, and then the complexes were stained with anti-TIMP1-APC (2 µL per test, FAA522Hu51, Cloud-Clone Corp., Wuhan, China), anti-MMP2-PE (2 µL per test, FAA100Hu41, Cloud-Clone Corp., Wuhan, China), and anti-MMP9- FITC antibodies (2 µL per test, FAA553Hu81, Cloud-Clone Corp., Wuhan, China).

Techniques:

Journal: Journal of Personalized Medicine

Article Title: The Composition of Small Extracellular Vesicles (sEVs) in the Blood Plasma of Colorectal Cancer Patients Reflects the Presence of Metabolic Syndrome and Correlates with Angiogenesis and the Effectiveness of Thermoradiation Therapy

doi: 10.3390/jpm13040684

Figure Lengend Snippet: Spearman correlation coefficients (r) between CD9-positive sEVs phenotypes and age, BMI, waist circumference, TGs, total cholesterol, and plasma high-density lipoprotein (HDL) cholesterol in CRCPs *.

Article Snippet: After washing the CD9 antibody-coated latex bead–sEV complexes with PBS, human BD Fc Block (BD Biosciences, Heidelberg, Germany) was used to block nonspecific binding, and then the complexes were stained with anti-TIMP1-APC (2 µL per test, FAA522Hu51, Cloud-Clone Corp., Wuhan, China), anti-MMP2-PE (2 µL per test, FAA100Hu41, Cloud-Clone Corp., Wuhan, China), and anti-MMP9- FITC antibodies (2 µL per test, FAA553Hu81, Cloud-Clone Corp., Wuhan, China).

Techniques:

Journal: Journal of Personalized Medicine

Article Title: The Composition of Small Extracellular Vesicles (sEVs) in the Blood Plasma of Colorectal Cancer Patients Reflects the Presence of Metabolic Syndrome and Correlates with Angiogenesis and the Effectiveness of Thermoradiation Therapy

doi: 10.3390/jpm13040684

Figure Lengend Snippet: Spearman correlation coefficients (r) between FABP4-positive sEVs phenotypes and age, BMI, waist circumference, TGs, total cholesterol, and HDL cholesterol in CRCPs.

Article Snippet: After washing the CD9 antibody-coated latex bead–sEV complexes with PBS, human BD Fc Block (BD Biosciences, Heidelberg, Germany) was used to block nonspecific binding, and then the complexes were stained with anti-TIMP1-APC (2 µL per test, FAA522Hu51, Cloud-Clone Corp., Wuhan, China), anti-MMP2-PE (2 µL per test, FAA100Hu41, Cloud-Clone Corp., Wuhan, China), and anti-MMP9- FITC antibodies (2 µL per test, FAA553Hu81, Cloud-Clone Corp., Wuhan, China).

Techniques:

Journal: Journal of Personalized Medicine

Article Title: The Composition of Small Extracellular Vesicles (sEVs) in the Blood Plasma of Colorectal Cancer Patients Reflects the Presence of Metabolic Syndrome and Correlates with Angiogenesis and the Effectiveness of Thermoradiation Therapy

doi: 10.3390/jpm13040684

Figure Lengend Snippet: Correlation of FABP4-positive plasma sEVs in CRCPs with intratumoral microvascular density (MVD). ( A ) Correlation of FABP4+MMP9+MMP2+TIMP1- ( left ) and FABP4+MMP9+MMP2-TIMP1- ( right ) plasma sEVs levels with intratumoral MVD; the photographs are from two representative CRCPs; ( B ) case 1 (pT3N0M0, stage II) exhibited low MVD in the stroma of a colorectal adenocarcinoma, and ( C ) case 2 (pT3N2M0, stage III) showed high MVD. immunohistochemistry (CD31). ×200. MDV expressed in relative units (RU) is presented as described above.

Article Snippet: After washing the CD9 antibody-coated latex bead–sEV complexes with PBS, human BD Fc Block (BD Biosciences, Heidelberg, Germany) was used to block nonspecific binding, and then the complexes were stained with anti-TIMP1-APC (2 µL per test, FAA522Hu51, Cloud-Clone Corp., Wuhan, China), anti-MMP2-PE (2 µL per test, FAA100Hu41, Cloud-Clone Corp., Wuhan, China), and anti-MMP9- FITC antibodies (2 µL per test, FAA553Hu81, Cloud-Clone Corp., Wuhan, China).

Techniques: Immunohistochemistry