AIM: To probe into the genetic susceptibility of HLA-DRB1 alleles to esophageal carcinoma in Han Chinese in Hubei Province.METHODS: HLA-DRB1 allele polymorphisms were typed by polymerase chain reaction with sequence-s...AIM: To probe into the genetic susceptibility of HLA-DRB1 alleles to esophageal carcinoma in Han Chinese in Hubei Province.METHODS: HLA-DRB1 allele polymorphisms were typed by polymerase chain reaction with sequence-specific primers (PCR-SSP) in 42 unrelated patients with esophageal cancer and 136 unrelated normal control subjects and the associated HLA-DRB1 allele was measured by nucleotide sequence analysis with PCR.SAS software was used in statistics.RESULTS: Allele frequency (AF) of HLA-DRB1·0901 was significantly higher in esophageal carcinoma patients than that in the normal controls (0.2500 vs0.1397, P=0.028, the odds ratio 2.053, etiologic fraction 0.1282). After analyzed the allele nucleotide sequence of HLA-DRB1·0901 which approachs to the corresponded exon 2 sequence of the allele in genebank. There was no association between patients and controls in the rested HLA-DRB1 alleles.CONCLUSION: HLA-DRB1·0901 allele is more common in the patients with esophageal carcinoma than in the healthy controls, which is positively associated with the patients of Hubei Han Chinese. Individuals carrying HLA-DRB1·0901may be susceptible to esophageal carcinoma.展开更多
Expressed Sequence Tag(EST)analysis has pioneered genome-wide gene discovery and expression profiling.In order to establish a gene expression index in the rice cultivar indica,we sequenced and analyzed 86,136 ESTs fro...Expressed Sequence Tag(EST)analysis has pioneered genome-wide gene discovery and expression profiling.In order to establish a gene expression index in the rice cultivar indica,we sequenced and analyzed 86,136 ESTs from nine rice cDNA libraries from the super hybrid cultivar LYP9 and its parental cultivars.We assembled these ESTs into 13,232 contigs and leave 8,976 singletons.Overall,7,497 sequences were found similar to the existing sequences in GenBank and 14,711 are novel.These sequences are classified by molecular function,biological process and pathways according to the Gene Ontology.We compared our sequenced ESTs with the publicly available 95,000 ESTs from japonica,and found little sequence variation,despite the large difference between genome sequences,We then assembled the combined 173,000 rice ESTs for further analysis.Using the pooled ESTs,we compared gene expression in metabolism pathway between rice and Arabidopsis according to KEGG.We further profiled gene expression patterns in different tissues,developmental stages,and in a conditional sterile mutant,after checking the libraries are comparable by means of sequence coverage.We also identified some possible library specific genes and a number of enzymes and transcription factors that contribute to rice development.展开更多
To obtain a primary overview of gene diversity and expression pattern in Lycoris longituba, 4,992 ESTs (Expressed Sequence Tags) from L. Longituba bud were sequenced and 4,687 cleaned ESTs were used for gene expressio...To obtain a primary overview of gene diversity and expression pattern in Lycoris longituba, 4,992 ESTs (Expressed Sequence Tags) from L. Longituba bud were sequenced and 4,687 cleaned ESTs were used for gene expression analysis. Clustered by the PHRAP program, 967 contigs and 1,343 singlets were obtained. Blast search showed that 179 contigs and 227 singlets (totally 1,066 ESTs) had homologues in GenBank and 3,621 ESTs were novel.展开更多
There is a large gap between the number of membrane protein (MP) sequences and that of their decoded 3D structures, especially high-resolution structures, due to difficulties in crystal preparation of MPs. However, de...There is a large gap between the number of membrane protein (MP) sequences and that of their decoded 3D structures, especially high-resolution structures, due to difficulties in crystal preparation of MPs. However, detailed knowledge of the 3D structure is required for the fundamental understanding of the function of an MP and the interactions between the protein and its inhibitors or activators. In this paper, some computational approaches that have been used to predict MP structures are discussed and compared.展开更多
文摘AIM: To probe into the genetic susceptibility of HLA-DRB1 alleles to esophageal carcinoma in Han Chinese in Hubei Province.METHODS: HLA-DRB1 allele polymorphisms were typed by polymerase chain reaction with sequence-specific primers (PCR-SSP) in 42 unrelated patients with esophageal cancer and 136 unrelated normal control subjects and the associated HLA-DRB1 allele was measured by nucleotide sequence analysis with PCR.SAS software was used in statistics.RESULTS: Allele frequency (AF) of HLA-DRB1·0901 was significantly higher in esophageal carcinoma patients than that in the normal controls (0.2500 vs0.1397, P=0.028, the odds ratio 2.053, etiologic fraction 0.1282). After analyzed the allele nucleotide sequence of HLA-DRB1·0901 which approachs to the corresponded exon 2 sequence of the allele in genebank. There was no association between patients and controls in the rested HLA-DRB1 alleles.CONCLUSION: HLA-DRB1·0901 allele is more common in the patients with esophageal carcinoma than in the healthy controls, which is positively associated with the patients of Hubei Han Chinese. Individuals carrying HLA-DRB1·0901may be susceptible to esophageal carcinoma.
文摘Expressed Sequence Tag(EST)analysis has pioneered genome-wide gene discovery and expression profiling.In order to establish a gene expression index in the rice cultivar indica,we sequenced and analyzed 86,136 ESTs from nine rice cDNA libraries from the super hybrid cultivar LYP9 and its parental cultivars.We assembled these ESTs into 13,232 contigs and leave 8,976 singletons.Overall,7,497 sequences were found similar to the existing sequences in GenBank and 14,711 are novel.These sequences are classified by molecular function,biological process and pathways according to the Gene Ontology.We compared our sequenced ESTs with the publicly available 95,000 ESTs from japonica,and found little sequence variation,despite the large difference between genome sequences,We then assembled the combined 173,000 rice ESTs for further analysis.Using the pooled ESTs,we compared gene expression in metabolism pathway between rice and Arabidopsis according to KEGG.We further profiled gene expression patterns in different tissues,developmental stages,and in a conditional sterile mutant,after checking the libraries are comparable by means of sequence coverage.We also identified some possible library specific genes and a number of enzymes and transcription factors that contribute to rice development.
基金Hi-tech Research &Development Program of China (863 Program, No. 2002AA241051) and Science & Technology Program for Agriculture Development of Shanghai.
文摘To obtain a primary overview of gene diversity and expression pattern in Lycoris longituba, 4,992 ESTs (Expressed Sequence Tags) from L. Longituba bud were sequenced and 4,687 cleaned ESTs were used for gene expression analysis. Clustered by the PHRAP program, 967 contigs and 1,343 singlets were obtained. Blast search showed that 179 contigs and 227 singlets (totally 1,066 ESTs) had homologues in GenBank and 3,621 ESTs were novel.
文摘There is a large gap between the number of membrane protein (MP) sequences and that of their decoded 3D structures, especially high-resolution structures, due to difficulties in crystal preparation of MPs. However, detailed knowledge of the 3D structure is required for the fundamental understanding of the function of an MP and the interactions between the protein and its inhibitors or activators. In this paper, some computational approaches that have been used to predict MP structures are discussed and compared.
