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FORALL：一个交互式的闪亮/R网络门户，用于浏览儿童急性淋巴细胞白血病的多组学高通量数据。

FORALL: an interactive shiny/R web portal to navigate multi-omics high-throughput data of pediatric acute lymphoblastic leukemia.

作者信息

Aswad Luay, Jafari Rozbeh

机构信息

Clinical Proteomics Mass Spectrometry, Department of Oncology-Pathology, Karolinska Institutet, Science for Life Laboratory, 171 65 Solna, Sweden.

出版信息

Bioinform Adv. 2023 Oct 4;3(1):vbad143. doi: 10.1093/bioadv/vbad143. eCollection 2023.

DOI:10.1093/bioadv/vbad143
PMID:37860104
原文链接:https://pmc.ncbi.nlm.nih.gov/articles/PMC10582518/
Abstract

MOTIVATION

Pediatric acute lymphoblastic leukemia (ALL) is the most common cancer among children worldwide. The availability of easily accessible multi-omics data provides unprecedented resources and opportunities for discovering and refining disease biology, cancer biomarkers, and drug mechanisms of action. This has led to exponential growth of omics data available in public repositories. However, delivering the useful information and knowledge extraction from this data is one of the bottlenecks of multi-omics. Presenting, navigating, and downloading ALL omics data in a user-friendly interface provide a valuable platform for biologists and clinicians to get most of the omics data. Our in-house data provides in-depth mass spectrometry-based protein abundance data for a large panel of commercially available ALL cell lines. Providing this data to the scientific community in the form of a user-friendly web-portal allows for easy and detailed exploration of the data.

RESULTS

We have developed the Functional Omics Resource of Acute Lymphoblastic Leukemia (FORALL) web-portal. FORALL is a shiny-based web portal designed to navigate in-depth mass spectrometry-based proteomics data of 51 cell lines. The proteomics data can be navigated and visualized along with matched RNA expression data as well as drug sensitivity data of 528 investigational and approved drugs.

AVAILABILITY AND IMPLEMENTATION

FORALL is available at https://proteomics.se/forall/.

摘要

动机

小儿急性淋巴细胞白血病（ALL）是全球儿童中最常见的癌症。易于获取的多组学数据的可用性为发现和完善疾病生物学、癌症生物标志物及药物作用机制提供了前所未有的资源和机遇。这导致公共存储库中组学数据呈指数级增长。然而，从这些数据中提取有用信息和知识是多组学的瓶颈之一。以用户友好的界面呈现、浏览和下载ALL组学数据，为生物学家和临床医生充分利用组学数据提供了一个有价值的平台。我们的内部数据为大量市售ALL细胞系提供了基于质谱的深度蛋白质丰度数据。以用户友好的网络门户形式将这些数据提供给科学界，便于对数据进行轻松而详细的探索。

结果

我们开发了急性淋巴细胞白血病功能组学资源（FORALL）网络门户。FORALL是一个基于shiny的网络门户，旨在浏览51个细胞系基于质谱的深度蛋白质组学数据。蛋白质组学数据可以与匹配的RNA表达数据以及528种研究性和已批准药物的药物敏感性数据一起进行浏览和可视化。

可用性与实施

FORALL可在https://proteomics.se/forall/获取。

https://cdn.ncbi.nlm.nih.gov/pmc/blobs/0c3c/10582518/6fcb87e22303/vbad143f2.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/0c3c/10582518/caf23c81b0e2/vbad143f1.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/0c3c/10582518/6fcb87e22303/vbad143f2.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/0c3c/10582518/caf23c81b0e2/vbad143f1.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/0c3c/10582518/6fcb87e22303/vbad143f2.jpg

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