microbioTA: an atlas of the microbiome in multiple disease tissues of Homo sapiens and Mus musculus
| Autor: | Ping Wang, Sainan Zhang, Guoyou He, Meiyu Du, Changlu Qi, Ruyue Liu, Siyuan Zhang, Liang Cheng, Lei Shi, Xue Zhang |
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| Rok vydání: | 2022 |
| Předmět: | |
| Zdroj: | Nucleic Acids Research. 51:D1345-D1352 |
| ISSN: | 1362-4962 0305-1048 |
| Popis: | microbioTA (http://bio-annotation.cn/microbiota) was constructed to provide a comprehensive, user-friendly resource for the application of microbiome data from diseased tissues, helping users improve their general knowledge and deep understanding of tissue-derived microbes. Various microbes have been found to colonize cancer tissues and play important roles in cancer diagnoses and outcomes, with many studies focusing on developing better cancer-related microbiome data. However, there are currently no independent, comprehensive open resources cataloguing cancer-related microbiome data, which limits the exploration of the relationship between these microbes and cancer progression. Given this, we propose a new strategy to re-align the existing next-generation sequencing data to facilitate the mining of hidden sequence data describing the microbiome to maximize available resources. To this end, we collected 417 publicly available datasets from 25 human and 14 mouse tissues from the Gene Expression Omnibus database and use these to develop a novel pipeline to re-align microbiome sequences facilitating in-depth analyses designed to reveal the microbial profile of various cancer tissues and their healthy controls. microbioTA is a user-friendly online platform which allows users to browse, search, visualize, and download microbial abundance data from various tissues along with corresponding analysis results, aimimg at providing a reference for cancer-related microbiome research. |
| Databáze: | OpenAIRE |
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