Parraga-Leo Antonio, Oskotsky Tomiko T, Oskotsky Boris, Wibrand Camilla, Roldan Alennie, Tang Alice, Ha Connie W Y, Wong Ronald J, Minot Samuel S, Andreoletti Gaia, Kosti Idit, Theis Kevin R, Ng Sherrianne, Lee Yun S, Diaz-Gimeno Patricia, Bennett Phillip R, MacIntyre David A, Lynch Susan V, Romero Roberto, Tarca Adi L, Stevenson David K, Aghaeepour Nima, Golob Jonathan, Sirota Marina
Bakar Computational Health Sciences Institute, University of California San Francisco, San Francisco, CA. USA.
Department of Pediatrics. University of California San Francisco, San Francisco, CA. USA.
medRxiv. 2023 Apr 5:2023.03.21.23286947. doi: 10.1101/2023.03.21.23286947.
The vaginal microbiome has been shown to be associated with pregnancy outcomes including preterm birth (PTB) risk. Here we present VMAP: Vaginal Microbiome Atlas during Pregnancy (http://vmapapp.org), an application to visualize features of 3,909 vaginal microbiome samples of 1,416 pregnant individuals from 11 studies, aggregated from raw public and newly generated sequences via an open-source tool, MaLiAmPi. Our visualization tool (http://vmapapp.org) includes microbial features such as various measures of diversity, VALENCIA community state types (CST), and composition (via phylotypes and taxonomy). This work serves as a resource for the research community to further analyze and visualize vaginal microbiome data in order to better understand both healthy term pregnancies and those associated with adverse outcomes.
阴道微生物群已被证明与包括早产（PTB）风险在内的妊娠结局有关。在此，我们展示了VMAP：孕期阴道微生物群图谱（http://vmapapp.org），这是一个用于可视化来自11项研究的1416名孕妇的3909份阴道微生物群样本特征的应用程序，这些样本通过开源工具MaLiAmPi从原始公共序列和新生成的序列中汇总而来。我们的可视化工具（http://vmapapp.org）包括微生物特征，如各种多样性指标、巴伦西亚群落状态类型（CST）和组成（通过系统发育型和分类法）。这项工作为研究界提供了一个资源，以便进一步分析和可视化阴道微生物群数据，从而更好地了解健康足月妊娠以及与不良结局相关的妊娠情况。
