Project description:Supercritical rosemary extract (containing 16.90% carnosic acid, 1.90% carnosol and 13.59% volatile compounds) showed antitumor activity on colon cancer cells in vitro. We treated colon cancer cells with the extract and we employed whole genome microarray expression profiling to identify genes potentially involved in its antitumor mechanism of action.
Project description:Chronic Inflammation has a key role in the development of insulin resistance and type 2 diabetes. Previously, we demonstrated that OBE100, a natural extract from the leaves of Eucalyptus tereticornis, has anti-inflammatory properties. Three pentacyclic triterpenoids, ursolic acid, oleanolic acid, and ursolic acid lactone are the major compounds present in OBE100. These molecules have shown multiple biological activities. In this study we analyzed how the compounds of OBE100 modify adipocyte gene expression using RNA sequencing. Triterpenoids regulate the inflammatory program in differentiated adipocytes, inhibiting the expression of many cytokines, chemokines, and inflammatory mediators. However, the OBE100 extract has a more powerful immunomodulatory effect than the triterpene mixture increasing the number of genes regulated, both in mouse and human models. Our study shows that OBE100 is a promising extract for the treatment of diabetes that can break the link between inflammation and insulin resistance.
Project description:Chronic Inflammation has a key role in the development of insulin resistance and type 2 diabetes. Previously, we demonstrated that OBE100, a natural extract from the leaves of Eucalyptus tereticornis, has anti-inflammatory properties. Three pentacyclic triterpenoids, ursolic acid, oleanolic acid, and ursolic acid lactone are the major compounds present in OBE100. These molecules have shown multiple biological activities. In this study we analyzed how the compounds of OBE100 modify macrophage gene expression using RNA sequencing. Triterpenoids regulate the inflammatory program in activated macrophages inhibiting the expression of many cytokines, chemokines, and inflammatory mediators. However, the OBE100 extract has a more powerful immunomodulatory effect than the triterpene mixture increasing the number of genes regulated, both in mouse and human models. Our study shows that OBE100 is a promising extract for the treatment of diabetes that can break the link between inflammation and insulin resistance.
Project description:Hypericum perforatum extracts have been used as dietary supplements to treat conditions including mild-moderate depression and inflammation. A group of four bioactive constituents were identified from an active fraction of the extract. In order to identify the mechanism for the potential anti-inflammatory activity of the identified compounds, we used Affymatrix microarray to study the gene expression profile impacteded by these compounds, as well as the active fraction in LPS-stimulated mouse macrophages. We treated RAW264.7 mouse macrophages with DMSO control, active fraction from Hypericum perforaum extract, and a combination of the 4 putative bioactive compounds, called the 4-component system, all with and without LPS induction. A total of six treatment combinations were included in the final gene expression analysis using microarray.
Project description:SYBA uses a fragment-based approach to classify whether a molecule is easy or hard to synthesize, and it can also be used to analyze the contribution of individual fragments to the total synthetic accessibility. The easy-to-synthesize dataset is an extract of the ZINC purchasable compounds, and the hard-to-synthesize dataset is generated using a Nonpher approach (introducing small molecular perturbations to transform molecules into more complex compounds). The fragments are calculated with ECFP8 descriptors, and independence between fragments is assumed.
Model Type: Predictive machine learning model.
Model Relevance: Prediction of synthetic accessibility
Model Encoded by: Miquel Duran-Frigola (Ersilia)
Metadata Submitted in BioModels by: Zainab Ashimiyu-Abdusalam
Implementation of this model code by Ersilia is available here:
https://github.com/ersilia-os/eos7pw8
Project description:The black soldier fly, Hermetia illucens, is a promising source for sustainable production of proteins, lipids and bioactive substances. Feeding on a variety of decomposing organic substrates which are typically inhabited by a range of different microorganisms like bacteria and fungi, H. illucens larvae is expected to be able to strongly produce antimicrobial peptides (AMPs) and other substances possessing antibiotic activity. It has been shown that H. illucens larvae extract exhibits antimicrobial activity against some microorganisms, such as Escherichia coli and Staphylococcus aureus, and antimicrobial effect on bacterial biofilm. Numbers of AMPs produced by H. illucens larvae have also been identified so far. Moreover, H. illucens larvae extract was recently observed with significant induction of cell envelop stress response (CESR) in B. subtilis, indicative of potential production of antimicrobial compounds. B. subtilis as a well-established Gram‑positive model strain is widely used in scientific research and an arguably robust platform to investigate antimicrobial compounds at the respect of, such as the mode of reaction of and the stress response elicited by corresponding compounds. In this study, we aimed to characterize the stress responses in B. subtilis induced by H. illucens larvae extract by employing transcriptomic study via RNA sequencing technique. With transcriptional profiling, we are expecting to be able to give some hints of potential antimicrobial compounds produced by H. illucens larvae by referring to the transcriptomic researches on well-studied antimicrobial substances.
Project description:Hypericum perforatum extracts have been used as dietary supplements to treat conditions including mild-moderate depression and inflammation. A group of four bioactive constituents were identified from an active fraction of the extract. In order to identify the mechanism for the potential anti-inflammatory activity of the identified compounds, we used Affymatrix microarray to study the gene expression profile impacteded by these compounds, as well as the active fraction in LPS-stimulated mouse macrophages.
Project description:Transcriptomic analyses with the parasitic nematode Ascaris suum indicated that Biochanin A exerts its antiparasitic effect by interfering with membrane fluidity, while other compounds within the pulp extract may suppress its metabolism and expulsion, thereby generating a synergistic effect with potential to mitigate anthelmintic resistance
Project description:Neuropathic pain (NP) is a chronic condition caused by complex molecular mechanisms. Due to the challenges in NP treatment, it is crucial to develop novel targeting strategies that can help elucidate its molecular mechanisms. Jakyakgamcho-tang (JGT) has significant therapeutic potential; however, its precise mechanism of action remains unclear. In this study, we systematically investigated the key transcription factors and mechanisms of action of water/ethanol extract of JGT (WJGT/EJGT) and their compounds using transcriptome analysis. We identified key transcription factor involved in NP pathogenesis by profiling transcriptome and histone ChIP-seq from NP model. We analyzed gene expression changes in PC12 cells treated with JGT extract to determine its key mechanisms and transcriptional regulators. To further validation the novel mechanisms and targets of JGT and its key compounds, we conducted in vitro experiments. The PDGFRB pathway was significantly downregulated by JGT extracts, with Fos identified as a key transcription factor regulating JGT-induced target gene expression. Furthermore, we identified key compounds among seven compounds that were regulated by the PDGFRB pathway and Fos expression. Notably, the targets modulated by JGT extracts and its key compounds were associated with inflammation. Our findings suggest that targeting the PDGFRB pathway and its key transcription factor, Fos, is a potential therapeutic strategy for NP. This study provides novel insights into the mechanism and transcriptional regulator underlying JGT and its key compounds in NP treatment.
Project description:Centella asiatica extract is widely used in skincare and medicinal products due to its bioactive compounds, particularly triterpenoids, and their associated biological activities. Given the increasing demand for high-quality C. asiatica, it is worthwhile to investigate factors that can enhance the accumulation of these bioactive compounds and their bioactivities.