BACKGROUND Pancreatic cancer is a highly invasive malignant tumor. Expression levels of the autophagy-related protein microtubule-associated protein 1 A/1 B-light chain 3(LC3) and perineural invasion(PNI) are closely ...BACKGROUND Pancreatic cancer is a highly invasive malignant tumor. Expression levels of the autophagy-related protein microtubule-associated protein 1 A/1 B-light chain 3(LC3) and perineural invasion(PNI) are closely related to its occurrence and development. Our previous results showed that the high expression of LC3 was positively correlated with PNI in the patients with pancreatic cancer. In this study, we further searched for differential genes involved in autophagy of pancreatic cancer by gene expression profiling and analyzed their biological functions in pancreatic cancer, which provides a theoretical basis for elucidating the pathophysiological mechanism of autophagy in pancreatic cancer and PNI.AIM To identify differentially expressed genes involved in pancreatic cancer autophagy and explore the pathogenesis at the molecular level.METHODS Two sets of gene expression profiles of pancreatic cancer/normal tissue(GSE16515 and GSE15471) were collected from the Gene Expression Omnibus.Significance analysis of microarrays algorithm was used to screen differentially expressed genes related to pancreatic cancer. Gene Ontology(GO) analysis and Kyoto Encyclopedia of Genes and Genomes(KEGG) pathway analysis were used to analyze the functional enrichment of the differentially expressed genes. Protein interaction data containing only differentially expressed genes was downloaded from String database and screened. Module mining was carried out by Cytoscape software and ClusterOne plug-in. The interaction relationship between the modules was analyzed and the pivot nodes between the functional modules were determined according to the information of the functional modules and the data of reliable protein interaction network.RESULTS Based on the above two data sets of pancreatic tissue total gene expression, 6098 and 12928 differentially expressed genes were obtained by analysis of genes with higher phenotypic correlation. After extracting the intersection of the two differential gene sets, 4870 genes were determined. GO analysis showed that 14 significant functional items including negative regulation of protein ubiquitination were closely related to autophagy. A total of 986 differentially expressed genes were enriched in these functional items. After eliminating the autophagy related genes of human cancer cells which had been defined, 347 differentially expressed genes were obtained. KEGG pathway analysis showed that the pathways hsa04144 and hsa04020 were related to autophagy. In addition,65 clustering modules were screened after the protein interaction network was constructed based on String database, and module 32 contains the LC3 gene,which interacts with multiple autophagy-related genes. Moreover, ubiquitin C acts as a pivot node in functional modules to connect multiple modules related to pancreatic cancer and autophagy.CONCLUSION Three hundred and forty-seven genes associated with autophagy in human pancreatic cancer were concentrated, and a key gene ubiquitin C which is closely related to the occurrence of PNI was determined, suggesting that LC3 may influence the PNI and prognosis of pancreatic cancer through ubiquitin C.展开更多
We explored the potential of the environment and disaster monitoring and forecasting small satellite constellations (HJ-1A/1B satellites) charge-coupled device (CCD) imagery (spatial resolution of 30 m, revisit time o...We explored the potential of the environment and disaster monitoring and forecasting small satellite constellations (HJ-1A/1B satellites) charge-coupled device (CCD) imagery (spatial resolution of 30 m, revisit time of 2 days) in the monitoring of total suspended sediment (TSS) concentrations in dynamic water bodies using Poyang Lake, the largest freshwater lake in China, as an example. Field surveys conducted during October 17-26, 2009 showed a wide range of TSS concentration (3-524 mg/L). Atmospheric correction was implemented using the Fast Line-of-sight Atmospheric Analysis of Spectral Hypercubes (FLAASH) module in ENVI with the aid of aerosol information retrieved from concurrent Terra/Moderate Resolution Imaging Spectroradiometer (MODIS) surveys, which worked well at the CCD bands with relatively high reflectance. A practical exponential retrieval algorithm was created between satellite remote sensing reflectance and in-situ measured TSS concentration. The retrieved results for the whole water area matched the in-situ data well at most stations. The retrieval errors may be related to the problem of scale matching and mixed pixel. In three selected subregions of Poyang Lake, the distribution trend of retrieved TSS was consistent with that of the field investigation. It was shown that HJ-1A/1B CCD imagery can be used to estimate TSS concentrations in Poyang Lake over synoptic scales after applying an appropriate atmospheric correction method and retrieval algorithm.展开更多
基金Supported by the National Natural Science Foundation of China,No.U1504815 and No.U1504808
文摘BACKGROUND Pancreatic cancer is a highly invasive malignant tumor. Expression levels of the autophagy-related protein microtubule-associated protein 1 A/1 B-light chain 3(LC3) and perineural invasion(PNI) are closely related to its occurrence and development. Our previous results showed that the high expression of LC3 was positively correlated with PNI in the patients with pancreatic cancer. In this study, we further searched for differential genes involved in autophagy of pancreatic cancer by gene expression profiling and analyzed their biological functions in pancreatic cancer, which provides a theoretical basis for elucidating the pathophysiological mechanism of autophagy in pancreatic cancer and PNI.AIM To identify differentially expressed genes involved in pancreatic cancer autophagy and explore the pathogenesis at the molecular level.METHODS Two sets of gene expression profiles of pancreatic cancer/normal tissue(GSE16515 and GSE15471) were collected from the Gene Expression Omnibus.Significance analysis of microarrays algorithm was used to screen differentially expressed genes related to pancreatic cancer. Gene Ontology(GO) analysis and Kyoto Encyclopedia of Genes and Genomes(KEGG) pathway analysis were used to analyze the functional enrichment of the differentially expressed genes. Protein interaction data containing only differentially expressed genes was downloaded from String database and screened. Module mining was carried out by Cytoscape software and ClusterOne plug-in. The interaction relationship between the modules was analyzed and the pivot nodes between the functional modules were determined according to the information of the functional modules and the data of reliable protein interaction network.RESULTS Based on the above two data sets of pancreatic tissue total gene expression, 6098 and 12928 differentially expressed genes were obtained by analysis of genes with higher phenotypic correlation. After extracting the intersection of the two differential gene sets, 4870 genes were determined. GO analysis showed that 14 significant functional items including negative regulation of protein ubiquitination were closely related to autophagy. A total of 986 differentially expressed genes were enriched in these functional items. After eliminating the autophagy related genes of human cancer cells which had been defined, 347 differentially expressed genes were obtained. KEGG pathway analysis showed that the pathways hsa04144 and hsa04020 were related to autophagy. In addition,65 clustering modules were screened after the protein interaction network was constructed based on String database, and module 32 contains the LC3 gene,which interacts with multiple autophagy-related genes. Moreover, ubiquitin C acts as a pivot node in functional modules to connect multiple modules related to pancreatic cancer and autophagy.CONCLUSION Three hundred and forty-seven genes associated with autophagy in human pancreatic cancer were concentrated, and a key gene ubiquitin C which is closely related to the occurrence of PNI was determined, suggesting that LC3 may influence the PNI and prognosis of pancreatic cancer through ubiquitin C.
基金Supported by the National Basic Research Program of China(973Program)(No.2011CB707106)the National Natural Science Foundation of China(Nos.41071261,41023001,41021061,40906092,40971193,41101415)+3 种基金the Opening Foundation of Institute of Remote Sensing and Earth Sciences,Hangzhou Normal University(No.PDKF2010YG06)the Fundamental Research Funds for the Central Universities,the China Postdoctoral Science Foundation(No.20100480861)LIESMARS Special Research Funding,the Natural Science Foundation of Hubei Province,China(No.2009CDB107)the Natural Science Foundation of Zhejiang Province,China(No.Y5090143)
文摘We explored the potential of the environment and disaster monitoring and forecasting small satellite constellations (HJ-1A/1B satellites) charge-coupled device (CCD) imagery (spatial resolution of 30 m, revisit time of 2 days) in the monitoring of total suspended sediment (TSS) concentrations in dynamic water bodies using Poyang Lake, the largest freshwater lake in China, as an example. Field surveys conducted during October 17-26, 2009 showed a wide range of TSS concentration (3-524 mg/L). Atmospheric correction was implemented using the Fast Line-of-sight Atmospheric Analysis of Spectral Hypercubes (FLAASH) module in ENVI with the aid of aerosol information retrieved from concurrent Terra/Moderate Resolution Imaging Spectroradiometer (MODIS) surveys, which worked well at the CCD bands with relatively high reflectance. A practical exponential retrieval algorithm was created between satellite remote sensing reflectance and in-situ measured TSS concentration. The retrieved results for the whole water area matched the in-situ data well at most stations. The retrieval errors may be related to the problem of scale matching and mixed pixel. In three selected subregions of Poyang Lake, the distribution trend of retrieved TSS was consistent with that of the field investigation. It was shown that HJ-1A/1B CCD imagery can be used to estimate TSS concentrations in Poyang Lake over synoptic scales after applying an appropriate atmospheric correction method and retrieval algorithm.
