Project description:To test this hypothesis and explore the mechanism by which the JMJD6-H2A.XY39ph axis induces transcriptional regulation of ATG genes, a genome-wide analysis of the distribution of H2A.XY39ph in SUM159 that overexpressed JMJD6 was then carried out via chromatin immunoprecipitation sequencing (ChIP-Seq).
Project description:The neonatal mammalian heart is able to regenerate after injury by inducing cardiomyocyte proliferation. However, this regenerative capacity is virtually lost in the adult mammalian heart. Extracellular vesicles (EVs) have been shown to play an important cardioprotective role in heart repair. Here, we performed proteomic analysis of EVs from neonatal mouse heart tissues (Neo-EVs), EVs regenerated from neonatal heart tissues after apicoectomy (AR-Neo-EVs), and EVs from adult mouse hearts (Adu-EVs), to compare the differential changes in proteins among them.
Project description:Foodcrusts are often discovered inside archaeological pottery and other containers. They can provide abundant information about vessel function, diet, cuisine activities and human subsistence strategies. Lipid analysis has been used for decades to characterize foodcrusts, indicating their compositions and biological sources. Recently, proteomics has also been applied to foodcrusts, providing more specific information about the tissues and species origins. In this study, lipid and proteomic analysis were combined to analyze foodcrusts in pottery from the Xiawan site of the Taihu Lake region, East China. These pottery sherds are mainly attributed to the Songze cultural period (ca. 5800-5300 BP). The results show that these foodcrusts contain interpretable concentrations of lipid compounds, including a series of common medium- and long-chain fatty acids, dicarboxylic acids, aliphatic alcohols, sterols and their derivatives, isoprenoid fatty acids and long-chain ketones, as well as proteins of terrestrial mammals and aquatic products. This study provides direct evidence for the function of pottery and the exploitation of animal and plant resources at that time, especially freshwater products, marine fish, rice and millet. In addition, as an indicator of high-temperature heating, long-chain ketones may have the potential to be used for prescreening the preservation of ancient proteins in foodcrusts. Therefore, the combination of lipid and proteomic analysis has great potential in organic residue analysis for foodcrusts.
Project description:Foodcrusts are often discovered inside archaeological pottery and other containers. They can provide abundant information about vessel function, diet, cuisine activities and human subsistence strategies. Lipid analysis has been used for decades to characterize foodcrusts, indicating their compositions and biological sources. Recently, proteomics has also been applied to foodcrusts, providing more specific information about the tissues and species origins. In this study, lipid and proteomic analysis were combined to analyze foodcrusts in pottery from the Xiawan site of the Taihu Lake region, East China. These pottery sherds are mainly attributed to the Songze cultural period (ca. 5800-5300 BP). The results show that these foodcrusts contain interpretable concentrations of lipid compounds, including a series of common medium- and long-chain fatty acids, dicarboxylic acids, aliphatic alcohols, sterols and their derivatives, isoprenoid fatty acids and long-chain ketones, as well as proteins of terrestrial mammals and aquatic products. This study provides direct evidence for the function of pottery and the exploitation of animal and plant resources at that time, especially freshwater products, marine fish, rice and millet. Therefore, the combination of lipid and proteomic analysis has great potential in organic residue analysis for foodcrusts.
Project description:Liquid chromatography-tandem mass spectrometry (LC-MS/MS) was employed to profile the proteomes of Control and Palbociclib-treated HeLa cells. For protein identification and quantification, mass spectrometry data from fractionated samples (data-dependent acquisition, DDA; 6 fractions) and single-shot samples (data-independent acquisition, DIA) were utilized to construct a DDA library and a direct-DIA library, respectively. These libraries were computationally merged into a hybrid spectral library using Spectronaut software (Biognosys). Subsequent functional annotation was performed through Gene Ontology (GO) and InterPro (IPR) analyses using the InterProScan-5 tool against the non-redundant protein database. Additionally, protein family and pathway analyses were carried out using the Clusters of Orthologous Groups (COG) and the Kyoto Encyclopedia of Genes and Genomes (KEGG) databases.
Project description:Liquid Chromatography with tandem mass spectrometry (LC-MS/MS) identification of phosphorylation of control and Palbociclib-treated HeLa cells. For identification and quantification of protein, the single-shot subject samples (DIA MS data) were used to generate a direct-DIA library and computationally merged into a hybrid library in the Spectronaut software (Biognosys). For subsequent data analysis, Gene Ontology (GO) and InterPro (IPR) analysis were conducted using the InterProScan-5 program against the non-redundant protein database, and the databases COG (Clusters of Orthologous Groups) and KEGG (Kyoto Encyclopedia of Genes and Genomes) were used to analyze the protein family and pathway.