{"title":"对 Fischer 344 大鼠的 11 个器官、4 个年龄段和 2 种性别进行全面的 microRNA-seq 转录组分析。","authors":"Xintong Yao, Shanyue Sun, Yi Zi, Yaqing Liu, Jingcheng Yang, Luyao Ren, Guangchun Chen, Zehui Cao, Wanwan Hou, Yueqiang Song, Jun Shang, He Jiang, Zhihui Li, Haiyan Wang, Peipei Zhang, Leming Shi, Quan-Zhen Li, Ying Yu, Yuanting Zheng","doi":"10.1038/s41597-022-01285-7","DOIUrl":null,"url":null,"abstract":"<p><p>Rat is one of the most widely-used models in chemical safety evaluation and biomedical research. However, the knowledge about its microRNA (miRNA) expression patterns across multiple organs and various developmental stages is still limited. Here, we constructed a comprehensive rat miRNA expression BodyMap using a diverse collection of 320 RNA samples from 11 organs of both sexes of juvenile, adolescent, adult and aged Fischer 344 rats with four biological replicates per group. Following the Illumina TruSeq Small RNA protocol, an average of 5.1 million 50 bp single-end reads was generated per sample, yielding a total of 1.6 billion reads. The quality of the resulting miRNA-seq data was deemed to be high from raw sequences, mapped sequences, and biological reproducibility. Importantly, aliquots of the same RNA samples have previously been used to construct the mRNA BodyMap. The currently presented miRNA-seq dataset along with the existing mRNA-seq dataset from the same RNA samples provides a unique resource for studying the expression characteristics of existing and novel miRNAs, and for integrative analysis of miRNA-mRNA interactions, thereby facilitating better utilization of rats for biomarker discovery.</p>","PeriodicalId":13046,"journal":{"name":"IEEE Geoscience and Remote Sensing Letters","volume":"17 1","pages":"201"},"PeriodicalIF":4.0000,"publicationDate":"2022-05-12","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC9098487/pdf/","citationCount":"0","resultStr":"{\"title\":\"Comprehensive microRNA-seq transcriptomic profiling across 11 organs, 4 ages, and 2 sexes of Fischer 344 rats.\",\"authors\":\"Xintong Yao, Shanyue Sun, Yi Zi, Yaqing Liu, Jingcheng Yang, Luyao Ren, Guangchun Chen, Zehui Cao, Wanwan Hou, Yueqiang Song, Jun Shang, He Jiang, Zhihui Li, Haiyan Wang, Peipei Zhang, Leming Shi, Quan-Zhen Li, Ying Yu, Yuanting Zheng\",\"doi\":\"10.1038/s41597-022-01285-7\",\"DOIUrl\":null,\"url\":null,\"abstract\":\"<p><p>Rat is one of the most widely-used models in chemical safety evaluation and biomedical research. However, the knowledge about its microRNA (miRNA) expression patterns across multiple organs and various developmental stages is still limited. Here, we constructed a comprehensive rat miRNA expression BodyMap using a diverse collection of 320 RNA samples from 11 organs of both sexes of juvenile, adolescent, adult and aged Fischer 344 rats with four biological replicates per group. Following the Illumina TruSeq Small RNA protocol, an average of 5.1 million 50 bp single-end reads was generated per sample, yielding a total of 1.6 billion reads. The quality of the resulting miRNA-seq data was deemed to be high from raw sequences, mapped sequences, and biological reproducibility. Importantly, aliquots of the same RNA samples have previously been used to construct the mRNA BodyMap. The currently presented miRNA-seq dataset along with the existing mRNA-seq dataset from the same RNA samples provides a unique resource for studying the expression characteristics of existing and novel miRNAs, and for integrative analysis of miRNA-mRNA interactions, thereby facilitating better utilization of rats for biomarker discovery.</p>\",\"PeriodicalId\":13046,\"journal\":{\"name\":\"IEEE Geoscience and Remote Sensing Letters\",\"volume\":\"17 1\",\"pages\":\"201\"},\"PeriodicalIF\":4.0000,\"publicationDate\":\"2022-05-12\",\"publicationTypes\":\"Journal Article\",\"fieldsOfStudy\":null,\"isOpenAccess\":false,\"openAccessPdf\":\"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC9098487/pdf/\",\"citationCount\":\"0\",\"resultStr\":null,\"platform\":\"Semanticscholar\",\"paperid\":null,\"PeriodicalName\":\"IEEE Geoscience and Remote Sensing Letters\",\"FirstCategoryId\":\"103\",\"ListUrlMain\":\"https://doi.org/10.1038/s41597-022-01285-7\",\"RegionNum\":3,\"RegionCategory\":\"地球科学\",\"ArticlePicture\":[],\"TitleCN\":null,\"AbstractTextCN\":null,\"PMCID\":null,\"EPubDate\":\"\",\"PubModel\":\"\",\"JCR\":\"Q2\",\"JCRName\":\"ENGINEERING, ELECTRICAL & ELECTRONIC\",\"Score\":null,\"Total\":0}","platform":"Semanticscholar","paperid":null,"PeriodicalName":"IEEE Geoscience and Remote Sensing Letters","FirstCategoryId":"103","ListUrlMain":"https://doi.org/10.1038/s41597-022-01285-7","RegionNum":3,"RegionCategory":"地球科学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":null,"EPubDate":"","PubModel":"","JCR":"Q2","JCRName":"ENGINEERING, ELECTRICAL & ELECTRONIC","Score":null,"Total":0}
Comprehensive microRNA-seq transcriptomic profiling across 11 organs, 4 ages, and 2 sexes of Fischer 344 rats.
Rat is one of the most widely-used models in chemical safety evaluation and biomedical research. However, the knowledge about its microRNA (miRNA) expression patterns across multiple organs and various developmental stages is still limited. Here, we constructed a comprehensive rat miRNA expression BodyMap using a diverse collection of 320 RNA samples from 11 organs of both sexes of juvenile, adolescent, adult and aged Fischer 344 rats with four biological replicates per group. Following the Illumina TruSeq Small RNA protocol, an average of 5.1 million 50 bp single-end reads was generated per sample, yielding a total of 1.6 billion reads. The quality of the resulting miRNA-seq data was deemed to be high from raw sequences, mapped sequences, and biological reproducibility. Importantly, aliquots of the same RNA samples have previously been used to construct the mRNA BodyMap. The currently presented miRNA-seq dataset along with the existing mRNA-seq dataset from the same RNA samples provides a unique resource for studying the expression characteristics of existing and novel miRNAs, and for integrative analysis of miRNA-mRNA interactions, thereby facilitating better utilization of rats for biomarker discovery.
期刊介绍:
IEEE Geoscience and Remote Sensing Letters (GRSL) is a monthly publication for short papers (maximum length 5 pages) addressing new ideas and formative concepts in remote sensing as well as important new and timely results and concepts. Papers should relate to the theory, concepts and techniques of science and engineering as applied to sensing the earth, oceans, atmosphere, and space, and the processing, interpretation, and dissemination of this information. The technical content of papers must be both new and significant. Experimental data must be complete and include sufficient description of experimental apparatus, methods, and relevant experimental conditions. GRSL encourages the incorporation of "extended objects" or "multimedia" such as animations to enhance the shorter papers.