Pub Date : 2019-08-15DOI: 10.1186/s41065-019-0105-9
Yuanyuan Sun, Nan Miao, Tao Sun
{"title":"Detect accessible chromatin using ATAC-sequencing, from principle to applications","authors":"Yuanyuan Sun, Nan Miao, Tao Sun","doi":"10.1186/s41065-019-0105-9","DOIUrl":"https://doi.org/10.1186/s41065-019-0105-9","url":null,"abstract":"","PeriodicalId":55057,"journal":{"name":"Hereditas","volume":" ","pages":""},"PeriodicalIF":2.7,"publicationDate":"2019-08-15","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://sci-hub-pdf.com/10.1186/s41065-019-0105-9","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"48358122","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":3,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
Pub Date : 2019-08-13DOI: 10.1186/s41065-019-0104-x
Nan Liu, Jiajun Chen, Chuan Xu, Tianji Shi, Jia Li
{"title":"Hereditary spastic paraplegia associated with a rare IFIH1 mutation: a case report and literature review","authors":"Nan Liu, Jiajun Chen, Chuan Xu, Tianji Shi, Jia Li","doi":"10.1186/s41065-019-0104-x","DOIUrl":"https://doi.org/10.1186/s41065-019-0104-x","url":null,"abstract":"","PeriodicalId":55057,"journal":{"name":"Hereditas","volume":" ","pages":""},"PeriodicalIF":2.7,"publicationDate":"2019-08-13","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://sci-hub-pdf.com/10.1186/s41065-019-0104-x","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"46711856","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":3,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
Pub Date : 2019-07-24DOI: 10.1186/s41065-019-0103-y
Keke Zhang, Changgui Li
{"title":"ABCG2 gene polymorphism rs2231142 is associated with gout comorbidities but not allopurinol response in primary gout patients of a Chinese Han male population","authors":"Keke Zhang, Changgui Li","doi":"10.1186/s41065-019-0103-y","DOIUrl":"https://doi.org/10.1186/s41065-019-0103-y","url":null,"abstract":"","PeriodicalId":55057,"journal":{"name":"Hereditas","volume":" ","pages":""},"PeriodicalIF":2.7,"publicationDate":"2019-07-24","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://sci-hub-pdf.com/10.1186/s41065-019-0103-y","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"49559888","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":3,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
Pub Date : 2019-07-24DOI: 10.1186/s41065-019-0102-z
Lihong Zhai, F. Teng, Kangpeng Zheng, Juan Xiao, W. Deng, Wei Sun
{"title":"Expression analysis of Argonaute genes in maize (Zea mays L.) in response to abiotic stress","authors":"Lihong Zhai, F. Teng, Kangpeng Zheng, Juan Xiao, W. Deng, Wei Sun","doi":"10.1186/s41065-019-0102-z","DOIUrl":"https://doi.org/10.1186/s41065-019-0102-z","url":null,"abstract":"","PeriodicalId":55057,"journal":{"name":"Hereditas","volume":" ","pages":""},"PeriodicalIF":2.7,"publicationDate":"2019-07-24","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://sci-hub-pdf.com/10.1186/s41065-019-0102-z","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"49233086","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":3,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
Pub Date : 2019-07-16DOI: 10.1186/s41065-019-0101-0
Tingting Yan, F. Ding, Yan Zhao
{"title":"Integrated identification of key genes and pathways in Alzheimer’s disease via comprehensive bioinformatical analyses","authors":"Tingting Yan, F. Ding, Yan Zhao","doi":"10.1186/s41065-019-0101-0","DOIUrl":"https://doi.org/10.1186/s41065-019-0101-0","url":null,"abstract":"","PeriodicalId":55057,"journal":{"name":"Hereditas","volume":" ","pages":""},"PeriodicalIF":2.7,"publicationDate":"2019-07-16","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://sci-hub-pdf.com/10.1186/s41065-019-0101-0","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"46236670","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":3,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
Pub Date : 2019-07-09DOI: 10.1186/s41065-019-0100-1
Zihao Chen, Guojun Liu, A. Hossain, I. Danilova, M. Bolkov, Guoqing Liu, I. Tuzankina, W. Tan
{"title":"A co-expression network for differentially expressed genes in bladder cancer and a risk score model for predicting survival","authors":"Zihao Chen, Guojun Liu, A. Hossain, I. Danilova, M. Bolkov, Guoqing Liu, I. Tuzankina, W. Tan","doi":"10.1186/s41065-019-0100-1","DOIUrl":"https://doi.org/10.1186/s41065-019-0100-1","url":null,"abstract":"","PeriodicalId":55057,"journal":{"name":"Hereditas","volume":" ","pages":""},"PeriodicalIF":2.7,"publicationDate":"2019-07-09","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://sci-hub-pdf.com/10.1186/s41065-019-0100-1","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"42113314","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":3,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
Xinrui Wang, Weiyi Song, G. Ji, Yining Song, Xiaolei Liu, Xue-nong Luo, Mingyuan Liu, Shumin Sun
Background The life cycle of Taenia solium is characterized by different stages of development, requiring various kinds of hosts that can appropriately harbor the eggs (proglottids), the oncospheres, the larvae and the adults. Similar to other metazoan pathogens, T. solium undergoes transcriptional and developmental regulation via epigenetics during its complex lifecycle and host interactions. Result In the present study, we integrated whole-genome bisulfite sequencing and RNA-seq technologies to characterize the genome-wide DNA methylation and its effect on transcription of Cysticercus cellulosae of T. solium . We confirm that the T. solium genome in the cysticercus stage is epigenetically modified by DNA methylation in a pattern similar to that of other invertebrate genomes, i.e., sparsely or moderately methylated. We also observed an enrichment of non-CpG methylation in defined genetic elements of the T. solium genome. Furthermore, an integrative analysis of both the transcriptome and the DNA methylome indicated a strong correlation between these two datasets, suggesting that gene expression might be tightly regulated by DNA methylation. Importantly, our data suggested that DNA methylation might play an important role in repressing key parasitism-related genes, including genes encoding excretion-secretion proteins, thereby raising the possibility of targeting DNA methylation processes as a useful strategy in therapeutics of cysticercosis.
{"title":"Regulation of DNA methylation on key parasitism genes of Cysticercus cellulosae revealed by integrative epigenomic-transcriptomic analyses","authors":"Xinrui Wang, Weiyi Song, G. Ji, Yining Song, Xiaolei Liu, Xue-nong Luo, Mingyuan Liu, Shumin Sun","doi":"10.1101/353417","DOIUrl":"https://doi.org/10.1101/353417","url":null,"abstract":"Background The life cycle of Taenia solium is characterized by different stages of development, requiring various kinds of hosts that can appropriately harbor the eggs (proglottids), the oncospheres, the larvae and the adults. Similar to other metazoan pathogens, T. solium undergoes transcriptional and developmental regulation via epigenetics during its complex lifecycle and host interactions. Result In the present study, we integrated whole-genome bisulfite sequencing and RNA-seq technologies to characterize the genome-wide DNA methylation and its effect on transcription of Cysticercus cellulosae of T. solium . We confirm that the T. solium genome in the cysticercus stage is epigenetically modified by DNA methylation in a pattern similar to that of other invertebrate genomes, i.e., sparsely or moderately methylated. We also observed an enrichment of non-CpG methylation in defined genetic elements of the T. solium genome. Furthermore, an integrative analysis of both the transcriptome and the DNA methylome indicated a strong correlation between these two datasets, suggesting that gene expression might be tightly regulated by DNA methylation. Importantly, our data suggested that DNA methylation might play an important role in repressing key parasitism-related genes, including genes encoding excretion-secretion proteins, thereby raising the possibility of targeting DNA methylation processes as a useful strategy in therapeutics of cysticercosis.","PeriodicalId":55057,"journal":{"name":"Hereditas","volume":"158 1","pages":""},"PeriodicalIF":2.7,"publicationDate":"2018-06-21","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"46106937","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":3,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
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