Journal: Cancers

Article Title: SBFI Inhibitors Reprogram Transcriptomic Landscape of Prostate Cancer Cells Leading to Cell Death

doi: 10.3390/cancers17233723

Figure Lengend Snippet: Functional enrichment of activated and suppressed genes and pathways upon SBFI-103 and SBFI-1143 treatment of PC-3 cells. ( A ) The top 10 activated and suppressed pathways were identified using gene ontology analysis using a cluster profiler. ( B – G ) Gene Set Enrichment Analysis (GSEA) individual gene set enrichment plots of selected three highly downregulated ( B – D ) and three highly upregulated ( E – G ) pathways in SBFI-treated samples compared to DMSO-treated. NES–normalized enrichment score. ( H ) Enhanced Volcano plot showing five downregulated transcripts of CDK1 , CDK2 , CCNA2 , CCNB1 , and CCND1 . Red circles represent genes with |log 2 FC| ≥ 1 and adjusted p < 0.05, blue represents genes with adjusted p < 0.05 only, and gray represents genes that were neither eligible in conditions of adjusted p -value nor |log 2 FC|. Original western blots are presented in .

Article Snippet: TaqMan primers used were as follows: CDK1 (ID: Hs00938777_m1, 4453320), CDK2 (ID: Hs01548894_m1, 4453320), CCNA2 (ID: Hs00996788_m1, 4453320), CCNB1 (ID: Hs01030099_m1, 4453320), CCND1 (ID: Hs00765553_m1, 4453320), CENPA (ID: Hs00156455_m1, 4453320), ZNF695 (ID: Hs00737185_m1, 4448892), ZNF367 (ID: Hs01572698_m1, 4448892), E2F7 (ID: Hs00987777_m1, 4448892), FOXM1 (ID: Hs01073586_m1, 4453320), Cdk1 (ID: Mm00772472_m1, 4453320), Cdk2 (ID: Mm00443947_m1, 4453320), Ccna2 (ID: Mm00438063_m1, 4453320), Ccnb1 (ID: Mm00838401_g1, 4453320), Ccnd1 (ID: Mm00432359_m1, 4453320), Cenpa (ID: Mm00483253_g1, 4448892), Zpf367 (ID: Mm00615562_m1, 4448892), E2f7 (ID: Mm00618098_m1, 4448892), and Foxm1 (ID: Mm00514924_m1, 4453320).

Techniques: Functional Assay, Western Blot

Journal: Cancers

Article Title: SBFI Inhibitors Reprogram Transcriptomic Landscape of Prostate Cancer Cells Leading to Cell Death

doi: 10.3390/cancers17233723

Figure Lengend Snippet: SBFIs decrease the expression of essential genes and proteins in cell cycle progression. PC-3, DU 145, and RCaP cells were treated with DMSO (control) and 15 μmol/L of SBFI-103 or SBFI-1143 for 24 h, and RNA and protein were collected for analysis. ( A – C ) qRT-PCR analysis of genes involved in cell cycle progression: CDK1 , CDK2 , CCNA2 , CCNB1 , and CCND1 of PC-3, DU 145, and RCaP cells, respectively. ( D – I ) Immunoblotting and densitometry analysis of five essential cell cycle proteins CDK1, CDK2, Cyclin A1, Cyclin B1, and Cyclin D1. ( D , G )—PC-3, ( E , H )—DU 145, and ( F , I )—RCaP. Data are represented as mean ± SD (N = 3). One-way ANOVA with Tukey’s multiple range test significance is shown as * p < 0.05; ** p < 0.01; *** p < 0.001; **** p < 0.0001.

Article Snippet: TaqMan primers used were as follows: CDK1 (ID: Hs00938777_m1, 4453320), CDK2 (ID: Hs01548894_m1, 4453320), CCNA2 (ID: Hs00996788_m1, 4453320), CCNB1 (ID: Hs01030099_m1, 4453320), CCND1 (ID: Hs00765553_m1, 4453320), CENPA (ID: Hs00156455_m1, 4453320), ZNF695 (ID: Hs00737185_m1, 4448892), ZNF367 (ID: Hs01572698_m1, 4448892), E2F7 (ID: Hs00987777_m1, 4448892), FOXM1 (ID: Hs01073586_m1, 4453320), Cdk1 (ID: Mm00772472_m1, 4453320), Cdk2 (ID: Mm00443947_m1, 4453320), Ccna2 (ID: Mm00438063_m1, 4453320), Ccnb1 (ID: Mm00838401_g1, 4453320), Ccnd1 (ID: Mm00432359_m1, 4453320), Cenpa (ID: Mm00483253_g1, 4448892), Zpf367 (ID: Mm00615562_m1, 4448892), E2f7 (ID: Mm00618098_m1, 4448892), and Foxm1 (ID: Mm00514924_m1, 4453320).

Techniques: Expressing, Control, Quantitative RT-PCR, Western Blot

Journal: Cancers

Article Title: SBFI Inhibitors Reprogram Transcriptomic Landscape of Prostate Cancer Cells Leading to Cell Death

doi: 10.3390/cancers17233723

Figure Lengend Snippet: Functional enrichment of activated and suppressed genes and pathways upon SBFI-1143 over two-day treatment in PC-3 PCa cells. ( A ) The top 10 activated and suppressed pathways were identified using gene ontology analysis using a cluster profiler. ( B – G ) Gene Set Enrichment Analysis (GSEA) individual gene set enrichment plots of selected three highly downregulated ( B – D ) and three highly upregulated ( E – G ) pathways in SBFI-1143-treated samples compared to DMSO-treated. NES–normalized enrichment score. ( H ) Enhanced Volcano plot showing five downregulated transcripts of CDK1 , CDK2 , CCNA2 , CCNB1 , and CCND1 . Red circles represent genes with |log 2 FC| ≥ 1 and adjusted p < 0.05, blue represents genes with adjusted p < 0.05 only, and gray represents genes that were neither eligible in conditions of adjusted p -value nor |log 2 FC|.

Article Snippet: TaqMan primers used were as follows: CDK1 (ID: Hs00938777_m1, 4453320), CDK2 (ID: Hs01548894_m1, 4453320), CCNA2 (ID: Hs00996788_m1, 4453320), CCNB1 (ID: Hs01030099_m1, 4453320), CCND1 (ID: Hs00765553_m1, 4453320), CENPA (ID: Hs00156455_m1, 4453320), ZNF695 (ID: Hs00737185_m1, 4448892), ZNF367 (ID: Hs01572698_m1, 4448892), E2F7 (ID: Hs00987777_m1, 4448892), FOXM1 (ID: Hs01073586_m1, 4453320), Cdk1 (ID: Mm00772472_m1, 4453320), Cdk2 (ID: Mm00443947_m1, 4453320), Ccna2 (ID: Mm00438063_m1, 4453320), Ccnb1 (ID: Mm00838401_g1, 4453320), Ccnd1 (ID: Mm00432359_m1, 4453320), Cenpa (ID: Mm00483253_g1, 4448892), Zpf367 (ID: Mm00615562_m1, 4448892), E2f7 (ID: Mm00618098_m1, 4448892), and Foxm1 (ID: Mm00514924_m1, 4453320).

Techniques: Functional Assay

Journal: Scientific Reports

Article Title: Elevated SGO2 expression in lung adenocarcinoma promotes migration and invasion via MAD2 and correlates with poor prognosis

doi: 10.1038/s41598-025-10993-0

Figure Lengend Snippet: Knockdown of SGO2 affected the cell cycle in LUAD cells. ( A ) Flow cytometry analysis of cell cycle distribution (G1, S, G2/M phases) in si-SGO2 and si-NC groups. (n = 3, two-way ANOVA with Sidak’s test). ( B ) Western blot of cell cycle proteins (Cyclin B1, Cyclin D1). \documentclass[12pt]{minimal} \usepackage{amsmath} \usepackage{wasysym} \usepackage{amsfonts} \usepackage{amssymb} \usepackage{amsbsy} \usepackage{mathrsfs} \usepackage{upgreek} \setlength{\oddsidemargin}{-69pt} \begin{document}$$\beta$$\end{document} -actin served as control (n = 3, Student’s t-test). Original blots are shown in Fig. . (*p < 0.05, **p < 0.01, ***p < 0.001, ****p < 0.0001).

Article Snippet: Cyclin B1 antibody , 1:2000 , 55004-1-AP , Proteintech.

Techniques: Knockdown, Flow Cytometry, Western Blot, Control

Journal: bioRxiv

Article Title: A truncated form of the p27 CDK inhibitor translated from pre-mRNA causes cell cycle arrest at G2 phase

doi: 10.1101/2022.01.12.476115

Figure Lengend Snippet: (A-D) Two hours after release from a double thymidine block (DTB), synchronized HeLa S3 cells were treated with MeOH or the indicated concentrations of Pla-B. Black triangles indicate the time points of cell harvest and sample preparation (A). Cell cycle was analyzed at the indicated time points by cytometry (B). Morphology of the cells was observed under a microscope and round cells were counted at the indicated time points (C). Protein samples were prepared at the indicated time points. The protein levels of indicated proteins and phosphorylation status of Cdk1 were analysed by immunoblotting. Protein levels of α-tubulin were analysed as an internal control (D). Error bars indicate s.d. (n = 3).

Article Snippet: The in vitro kinase assay was performed using the Cyclin A2/Cdk1 Kinase Enzyme System (Promega, Madison, WI, USA), recombinant Cyclin B1/Cdk1 (SignalChem Biotech Inc., Richmond, BC, Canada), and ADP-Glo kinase assay (Promega), according to the manufacturers’ instructions.

Techniques: Blocking Assay, Sample Prep, Cytometry, Microscopy, Western Blot

Journal: bioRxiv

Article Title: A truncated form of the p27 CDK inhibitor translated from pre-mRNA causes cell cycle arrest at G2 phase

doi: 10.1101/2022.01.12.476115

Figure Lengend Snippet: (A) Cells expressing Flag-p27* under the control of tetracycline were synchronized by a double thymidine block. The cells were treated with 1 μg/ml DOX at the same time as release from the double thymidine block. The cells were harvested at 8 h after release from the double thymidine block (G2/M phase) and then immunoprecipitation was performed using anti-DDDDK (Flag) antibodies. Flag-tagged and coimmunoprecipitated proteins were analysed by immunoblotting. (B, C) Purified Flag-tagged proteins were applied to an in vitro kinase assay reaction and kinase activities of Cyclin A2/Cdk1 (B) and Cyclin B1/Cdk1 (C) were measured. Statistical significance was assessed by the one-way ANOVA and Dunnett’s test (*: P < 0.05; **: P < 0.01; ***: P < 0.01). Error bars indicate s.d. (n = 3).

Article Snippet: The in vitro kinase assay was performed using the Cyclin A2/Cdk1 Kinase Enzyme System (Promega, Madison, WI, USA), recombinant Cyclin B1/Cdk1 (SignalChem Biotech Inc., Richmond, BC, Canada), and ADP-Glo kinase assay (Promega), according to the manufacturers’ instructions.

Techniques: Expressing, Blocking Assay, Immunoprecipitation, Western Blot, Purification, In Vitro, Kinase Assay

Journal: Oncotarget

Article Title: Anti-EGFR monoclonal antibodies and EGFR tyrosine kinase inhibitors as combination therapy for triple-negative breast cancer

doi: 10.18632/oncotarget.12037

Figure Lengend Snippet: List of selected gene expression assays used for configuring the Taqman low-density array cards

Article Snippet: CCNB1 , Hs99999188_m1 , cyclin B1.

Techniques: Gene Expression, TLDA Assay, Protein-Protein interactions, Control

Journal: Oncotarget

Article Title: Anti-EGFR monoclonal antibodies and EGFR tyrosine kinase inhibitors as combination therapy for triple-negative breast cancer

doi: 10.18632/oncotarget.12037

Figure Lengend Snippet: Relative quantification (RQ) of differentially expressed genes using biological significance (> or < 1.5-fold: RQ > 1.5 or RQ < 0.6 respectively)

Article Snippet: CCNB1 , Hs99999188_m1 , cyclin B1.

Techniques: Quantitative Proteomics, Protein-Protein interactions