Gene silencing
View article: Cell-Type-Specific Transcriptomic Signatures in Prefrontal Cortex Reveal lncRNA-mediated Gene Silencing and Enhancer Activities Contributing to the Pathophysiology of Major Depressive Disorder
Cell-Type-Specific Transcriptomic Signatures in Prefrontal Cortex Reveal lncRNA-mediated Gene Silencing and Enhancer Activities Contributing to the Pathophysiology of Major Depressive Disorder Open
Table S1: lncRNA microarray expression data. Table S2: mRNA microarray expression data. Table S3: lncRNA Differential expression. Table S4: mRNA differential expression. Table S5: Inhibitory regulation of lncRNAs on mRNAs. Table S6: Cellul…
View article: Cell-Type-Specific Transcriptomic Signatures in Prefrontal Cortex Reveal lncRNA-mediated Gene Silencing and Enhancer Activities Contributing to the Pathophysiology of Major Depressive Disorder
Cell-Type-Specific Transcriptomic Signatures in Prefrontal Cortex Reveal lncRNA-mediated Gene Silencing and Enhancer Activities Contributing to the Pathophysiology of Major Depressive Disorder Open
Table S1: lncRNA microarray expression data. Table S2: mRNA microarray expression data. Table S3: lncRNA Differential expression. Tab…
View article: Figure S5 from Scaffolding Protein Connector Enhancer of Kinase Suppressor of Ras 1 (CNKSR1) Regulates MAPK Inhibition Responsiveness in Pancreas Cancer via Crosstalk with AKT Signaling
Figure S5 from Scaffolding Protein Connector Enhancer of Kinase Suppressor of Ras 1 (CNKSR1) Regulates MAPK Inhibition Responsiveness in Pancreas Cancer via Crosstalk with AKT Signaling Open
Selumetinib fails to recruit CNKSR1 and p-AKT to the plasma membrane in CNKSR1 low cell lines; Proximal ligation of CNKSR1 and p-AKT in CNKSR1 low cell lines treated with vehicle vs selumetinib;CNKSR1 p-AKT PLA signal after treatment with …
View article: Evolutionary divergence and characterization of aquaporins in salt tolerance and fiber development in tetraploid cotton
Evolutionary divergence and characterization of aquaporins in salt tolerance and fiber development in tetraploid cotton Open
Background Aquaporins (AQPs) are integral membrane proteins belonging to the major intrinsic protein (MIP) family, playing a crucial role in water transport, cell elongation, and stress responses. However, their evolutionary dynamics and f…
View article: Figure S3 from JMJD6 Shapes a Pro-tumor Microenvironment via ANXA1-Dependent Macrophage Polarization in Breast Cancer
Figure S3 from JMJD6 Shapes a Pro-tumor Microenvironment via ANXA1-Dependent Macrophage Polarization in Breast Cancer Open
Effect of Jmjd6 silencing in PyMT41C-cells. A) Real-Time PCR showing the levels of Jmjd6 in PyMT-41C cells transfected with non-targeting siRNA (siCtr) or specific for Jmjd6. Graph is the average of two independent experiments. Two-tailed …
View article: Table S3 from HCK Promotes High-Grade Serous Ovarian Cancer Tumorigenesis through CD44 and NOTCH3 Signaling
Table S3 from HCK Promotes High-Grade Serous Ovarian Cancer Tumorigenesis through CD44 and NOTCH3 Signaling Open
Summary of differentially expressed proteins (RPPA analysis) following HCK silencing in CAOV3 cells
View article: Supplementary Figures and Legends, Supplementary Tables from Downregulation of BASP1 Promotes Temozolomide Resistance in Gliomas via Epigenetic Activation of the FBXO32/NF-κB/MGMT Axis
Supplementary Figures and Legends, Supplementary Tables from Downregulation of BASP1 Promotes Temozolomide Resistance in Gliomas via Epigenetic Activation of the FBXO32/NF-κB/MGMT Axis Open
S1. BASP1 downregulation is associated with poor prognosis in glioma patients.S2. Low expression of BASP1 is associated with poor prognosis in CGGA dataset.S3. Dysregulation of BASP1 alters chemoresistance of glioma cells to TMZ treatment …
View article: Supplementary Figures S1-S9 and Tables S1-S4. from MUC1-C Dictates PBRM1-Mediated Chronic Induction of Interferon Signaling, DNA Damage Resistance, and Immunosuppression in Triple-Negative Breast Cancer
Supplementary Figures S1-S9 and Tables S1-S4. from MUC1-C Dictates PBRM1-Mediated Chronic Induction of Interferon Signaling, DNA Damage Resistance, and Immunosuppression in Triple-Negative Breast Cancer Open
S1. Silencing MUC1-C downregulates IRF1 expression in TNBC cells. S2. Effects of silencing MUC1-C on TNBC cells. S3. MUC1-C is necessary for PBRM1 expression A and B. S4. MUC1-C forms a direct complex with IRF1 that activates type I and II…
View article: Paramylon isolated from Euglena gracilis EOD-1 extends lifespan through activation of DAF-16-mediated antioxidant pathway via clec-196 in Caenorhabditis elegans
Paramylon isolated from Euglena gracilis EOD-1 extends lifespan through activation of DAF-16-mediated antioxidant pathway via clec-196 in Caenorhabditis elegans Open
Paramylon (PM), an insoluble β-1,3-glucan produced by Euglena gracilis , reportedly possesses immunomodulatory and metabolic regulatory effects. However, its effect on longevity remains unclear. For this study, using Caenorhabditis elegans…
View article: Monitoring the stability of transgene expression in lettuce using the RUBY reporter
Monitoring the stability of transgene expression in lettuce using the RUBY reporter Open
Key message The RUBY reporter enabled the evaluation of different transgene expression constructs in lettuce, revealing that the lettuce ubiquitin promoter and terminator had strong expression that was stable over multiple generations. Abs…
View article: Scientific achievements of the Department of Molecular Biology in understanding stress-dependent mechanisms of glioma growth
Scientific achievements of the Department of Molecular Biology in understanding stress-dependent mechanisms of glioma growth Open
Since 2005, the Department of Molecular Biology has initiated research aimed at solving key problems in biochemistry and molecular biology, with an emphasis on elucidating the molecular basis of malignant tumor growth and the mechanisms of…
View article: Silencing of lncRNA TFAP2A‑AS1 attenuates the development of acute coronary syndrome by inhibiting TFAP2A expression
Silencing of lncRNA TFAP2A‑AS1 attenuates the development of acute coronary syndrome by inhibiting TFAP2A expression Open
View article: Particulate Matter Increases Bone Morphogenetic Protein 2 in Lung Fibroblasts
Particulate Matter Increases Bone Morphogenetic Protein 2 in Lung Fibroblasts Open
Particulate matter less than 2.5 μm (PM 2.5 ) contributes to many chronic respiratory disorders, but the mechanisms for this are not fully understood. The actions of PM 2.5 on lung epithelial cells have been well studied, but their effect …
View article: Single-cell transcriptomics identifies FOSL1-regulated IGFBP3+ melanoma subtype as a neuro-immunoregulatory signaling hub facilitating tumor progression
Single-cell transcriptomics identifies FOSL1-regulated IGFBP3+ melanoma subtype as a neuro-immunoregulatory signaling hub facilitating tumor progression Open
Background The most aggressive type of skin cancer, melanoma, has a high prevalence of metastases and a poor prognosis. Despite advancements in treatment, drug resistance and tumor microenvironment heterogeneity, especially involving neuro…
View article: The GPCR A35 regulates fecundity of Nilaparvata lugens Stål via juvenile hormone signaling
The GPCR A35 regulates fecundity of Nilaparvata lugens Stål via juvenile hormone signaling Open
The brown planthopper, Nilaparvata lugens is a major rice pest in Asia, with its high fecundity contributing to recurrent outbreaks. G protein-coupled receptors (GPCRs) are a critical class of transmembrane proteins in insects that sense d…
View article: MicroRNA identification and expression analysis of wheat thermo-sensitive male sterile line BNS366 for fertility transformation
MicroRNA identification and expression analysis of wheat thermo-sensitive male sterile line BNS366 for fertility transformation Open
Introduction Thermo-sensitive male sterile lines are the key element in the two-line hybrid system of wheat; some specific microRNAs (miRNAs) are involved in the development of anthers in plants, being an important cause of male sterility.…
View article: A flexible Janus head: molecular determinants of a viral protein's RNAi suppressor and capsid forming activities
A flexible Janus head: molecular determinants of a viral protein's RNAi suppressor and capsid forming activities Open
Viral suppressors of RNA silencing (RNAi) expressed by plant viruses, VSRs, are exceptional proteins. Although not conserved, even within virus families, most VSRs bind small interfering RNAs, siRNAs, thereby blocking antiviral RNAi. Turni…
View article: ATRX Loss Predicts Poor Outcomes and Reveals a Therapeutic Vulnerability to TEAD Inhibition in Soft Tissue Sarcomas
ATRX Loss Predicts Poor Outcomes and Reveals a Therapeutic Vulnerability to TEAD Inhibition in Soft Tissue Sarcomas Open
ATRX is one of the most frequently altered genes in sarcoma and encodes an ATP-dependent chromatin remodeler implicated in maintaining heterochromatin. However, ATRX alterations have not been leveraged for sarcoma treatment. We observed lo…
View article: WSSV-induced reversal of the malate-aspartate shuttle facilitates viral replication in shrimp hemocytes
WSSV-induced reversal of the malate-aspartate shuttle facilitates viral replication in shrimp hemocytes Open
Background White spot syndrome virus (WSSV), one of the most devastating pathogens in global shrimp aquaculture, has been shown to hijack and reprogram host metabolic pathways to support its replication. Among the various host metabolic ci…
View article: Myeloid-specific tristetraprolin mitigates postsurgical incisional pain by suppressing proinflammatory responses
Myeloid-specific tristetraprolin mitigates postsurgical incisional pain by suppressing proinflammatory responses Open
Background Proinflammatory mediators including COX-2, IL-1β, IL-6, and TNF-α, play major roles in the initiation of postsurgical pain. Produced primarily by activated macrophages and microglia, these mediators drive hyperexcitation of noci…
View article: Chronic IL-1 Exposure Attenuates RELA- and STAT3-Dependent Synergistic Cytokine Signaling in Prostate Cancer Cell Lines
Chronic IL-1 Exposure Attenuates RELA- and STAT3-Dependent Synergistic Cytokine Signaling in Prostate Cancer Cell Lines Open
Background/Objectives: The milieu of inflammatory cytokines present in the prostate cancer (PCa) tumor microenvironment exerts various effects on cancer progression. Chronic exposure to the inflammatory cytokine interleukin-1 (IL-1) has be…
View article: Reviewer #2 (Public review): SMC5/6-mediated plasmid silencing is directed by SIMC1–SLF2 and antagonized by the SV40 large T antigen
Reviewer #2 (Public review): SMC5/6-mediated plasmid silencing is directed by SIMC1–SLF2 and antagonized by the SV40 large T antigen Open
View article: Peptide-functionalized periodic mesoporous silica nanoparticles for monocyte-specific TET3 Silencing enhance cardiac repair after acute myocardial infarction
Peptide-functionalized periodic mesoporous silica nanoparticles for monocyte-specific TET3 Silencing enhance cardiac repair after acute myocardial infarction Open
Modulating the balance between pro- and anti-inflammatory monocyte subsets holds therapeutic promise in acute myocardial infarction (AMI); however, effective and selective strategies are still lacking. In this study, we are the first to id…
View article: HIF-1α modulates β-catenin pathway to enhance the survival and angiogenesis of PBMSCs under hypoxia environment
HIF-1α modulates β-catenin pathway to enhance the survival and angiogenesis of PBMSCs under hypoxia environment Open
BACKGROUND Stem cell therapy has been recognized as a promising strategy for enhancing cardiac function after myocardial infarction. Nonetheless, its clinical benefits are frequently limited by the poor survival and differentiation rates o…
View article: MerTK and the Role of Phagoptosis in Neonatal Hypoxia-Ischemia
MerTK and the Role of Phagoptosis in Neonatal Hypoxia-Ischemia Open
Brain damage caused by hypoxia-ischemia is a serious complication for a newborn with possible life-long sequelae. To develop targeted neuroprotective strategies, it is essential to understand the mechanisms of injury, particularly the role…
View article: SMC5/6-mediated plasmid silencing is directed by SIMC1–SLF2 and antagonized by the SV40 large T antigen
SMC5/6-mediated plasmid silencing is directed by SIMC1–SLF2 and antagonized by the SV40 large T antigen Open
SMC5/6 is unique among the Structural Maintenance of Chromosomes (SMC) complexes in its ability to repress transcription from extrachromosomal circular DNA (ecDNA), including viral genomes and plasmids. Previously, we showed that human SMC…
View article: FNDC10 tolerizes to self at the cell surface.
FNDC10 tolerizes to self at the cell surface. Open
We describe identification of a receptor, FNDC10, whose expression is significantly activated in metastasis to the brain in humans with cancer. Selective receptor activation suggested FNDC10 silenced an endogenous anti-tumor response, with…
View article: Reviewer #1 (Public review): SMC5/6-mediated plasmid silencing is directed by SIMC1–SLF2 and antagonized by the SV40 large T antigen
Reviewer #1 (Public review): SMC5/6-mediated plasmid silencing is directed by SIMC1–SLF2 and antagonized by the SV40 large T antigen Open
View article: EZH2 expression in hepatocellular carcinoma and its relationship with circadian rhythm-related genes
EZH2 expression in hepatocellular carcinoma and its relationship with circadian rhythm-related genes Open
Hepatocellular carcinoma (HCC) is the most prevalent liver malignancy, with increasing incidence and high mortality, primarily associated with hepatitis virus infection and cirrhosis. Herein, we explored the association between enhancer of…
View article: Tobacco rattle virus infection alters Arabidopsis gene expression via virus-derived SiRNAs and host MiRNA network disruption
Tobacco rattle virus infection alters Arabidopsis gene expression via virus-derived SiRNAs and host MiRNA network disruption Open