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Image Search Results
Journal: Cell reports
Article Title: Single-Cell RNA-Sequencing-Based CRISPRi Screening Resolves Molecular Drivers of Early Human Endoderm Development
doi: 10.1016/j.celrep.2019.03.076
Figure Lengend Snippet: KEY RESOURCES TABLE
Article Snippet: Primary antibodies used in this study include: SOX17 antibody (1:300; R&D Systems, AF1924), OCT3/4 antibody (1:100; Santa Cruz Biotechnology, sc5279), FOXA2 antibody (1:300; Millipore EMD, 07–633), CDX2 antibody (1:300; BioGenex, MU392A-UC), HNF4A antibody (1:500; Abcam, ab41898),
Techniques: Recombinant, Staining, Transfection, DNA Library Preparation, Methylation, Software, Fluorescence, Microscopy
Journal: Cancer Research
Article Title: A Runaway PRH/HHEX-Notch3–Positive Feedback Loop Drives Cholangiocarcinoma and Determines Response to CDK4/6 Inhibition
doi: 10.1158/0008-5472.can-19-0942
Figure Lengend Snippet: Figure 2. Effects of PRH manipulation on CCA cell biology. A, Proliferation of CCLP1 cells stably transfected with PRH shRNA or scrambled control; n ¼ 3; P ¼ 0.03. B, Proliferation of CCLP1 and CCSW1 cells infected with Ad myc-PRH or empty virus control; n ¼ 3; P ¼ 0.03 (CCLP1); P ¼ 0.02 (CCSW1). C, Proliferation of AKN1 and primary BECs overexpressing GFP-PRH-myc (stable) or myc-PRH (transient, 48 hours); n ¼ 3; P ¼ 0.003 (AKN1); P ¼ 0.006 (BEC). D, Morphology of CCLP1 cells stably transfected with PRH shRNA or scrambled control. E, Western blot showing increased expression of E-cadherin protein and decreased expression of vimentin protein after PRH knockdown. Lamin A/C was used as loading control. F, Migration of CCLP1 PRH knockdown cells through transwell filters in a 10% serum gradient; n ¼ 3; P ¼ 0.03. G, Invasion of CCLP1 cells through Matrigel; n ¼ 4; P ¼ 0.03. H, Western blotting for myc-PRH and EMT-associated proteins E-cadherin and vimentin in AKN1 cells and primary BECs. I and J, As in F and G for AKN1 cells and primary BECs. K, Morphology of equal numbers of AKN1 cells stably transfected with plasmids expressing GFP (control) or a GFP-PRH-Myc–tagged fusion protein (GFP-PRH-Myc). Scale bars, 50 mm in length. , P < 0.05.
Article Snippet: Stable cell lines were generated by transfecting
Techniques: Stable Transfection, Transfection, shRNA, Control, Infection, Virus, Western Blot, Expressing, Knockdown, Migration
Journal: Cancer Research
Article Title: A Runaway PRH/HHEX-Notch3–Positive Feedback Loop Drives Cholangiocarcinoma and Determines Response to CDK4/6 Inhibition
doi: 10.1158/0008-5472.can-19-0942
Figure Lengend Snippet: Figure 4. Notch3 expression is regulated by PRH. A, Western blot showing Notch3 ICD protein expression in PRH knockdown CCLP1 cells. B, NOTCH3 gene expression in CCLP1 and CCSW1 cells infected with Ad myc-PRH, Ad myc-PRH DNA-binding deficient N187A mutant, or empty virus control. C, Western blot for CCLP1 samples in B. D, Notch3 ICD rotein expression correlates with PRH protein expression in four human CCA cell lines, two human primary BEC isolates, and an immortalized BEC line. E, Western blot showing elevated expression of Notch3 ICD upon PRH overexpression in both AKN1 cells and primary BECs. F, Western blot showing increased expression of E-cadherin and reduced expression of PRH proteins after Notch3 knockdown. Lamin A/C was used as loading control. G, Proliferation of CCLP1 cells stably transfected with Notch3 shRNA or scrambled control; n ¼ 3; P ¼ 0.04. H, Morphology of CCLP1 cells stably transfected with Notch3 shRNA or scrambled control. I, DEGs detected in Notch3 KD compared with PRH KD experiments. Hypergeometric test, P ¼ 10229 for upregulated genes and P ¼ 1031 for downregulated genes. J, Hallmark GSEA of genes differentially expressed after Notch3 KD. Red bars, gene sets that are also enriched after PRH knockdown. , P < 0.05.
Article Snippet: Stable cell lines were generated by transfecting
Techniques: Expressing, Western Blot, Knockdown, Gene Expression, Infection, Binding Assay, Mutagenesis, Virus, Control, Over Expression, Stable Transfection, Transfection, shRNA
Journal: Cancer Research
Article Title: A Runaway PRH/HHEX-Notch3–Positive Feedback Loop Drives Cholangiocarcinoma and Determines Response to CDK4/6 Inhibition
doi: 10.1158/0008-5472.can-19-0942
Figure Lengend Snippet: Figure 5. Notch3- and PRH-correlated gene sets. A, qRT-PCR analysis of genes from CCLP1 cells overexpressing PRH in the presence or absence of Notch3 shRNA identifying PRH and Notch3-correlated expression signatures. B, Western blot analysis of EMT proteins E-cadherin and vimentin and cyclin D2 in CCLP1 cells overexpressing myc-PRH in the presence of absence of Notch3 shRNA. C, Proliferation of CCLP1 cells overexpressing myc-PRH in the presence or absence of Notch3 shRNA. , P < 0.05 after Bonferroni correction, compared with nontargeting shRNA/empty virus control. #, no statistically significant difference in the comparison indicated. D, Hallmark GSEA of Notch3-correlated and PRH-correlated gene sets identified from analysis of RNA-seq data. Red bars, gene sets enriched in both PRH- and Notch3-correlated sets. E, Overlap of genes with PRH-binding sites determined by ChIP-seq and genes that are differentially expressed after PRH overexpression determined by RNA-seq in CCLP1 cells. F, Comparison of the primary motif underlying PRH ChIP-seq peaks identified using HOMER with the PRH SELEX motif (derived from ref. 38). G, RNA-seq and ChIP-seq tracks of putative direct PRH target DKK1. Red tracks, myc-PRH overexpression. H, RNA-seq and ChIP-seq tracks of putative direct PRH target WNT11. Red tracks, myc-PRH overexpression.
Article Snippet: Stable cell lines were generated by transfecting
Techniques: Quantitative RT-PCR, shRNA, Expressing, Western Blot, Virus, Control, Comparison, RNA Sequencing, Binding Assay, ChIP-sequencing, Over Expression, Derivative Assay