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IAMSAM：使用 Segment Anything Model 进行基于图像的分子特征分析。

IAMSAM: image-based analysis of molecular signatures using the Segment Anything Model.

机构信息

Portrai, Inc, 78-18, Dongsulla-Gil, Jongno-Gu, Seoul, 03136, Republic of Korea.

Department of Nuclear Medicine, Seoul National University Hospital, 03080, Seoul, Republic of Korea.

出版信息

Genome Biol. 2024 Nov 11;25(1):290. doi: 10.1186/s13059-024-03380-x.

DOI:10.1186/s13059-024-03380-x
PMID:39529142
原文链接:https://pmc.ncbi.nlm.nih.gov/articles/PMC11552325/
Abstract

Spatial transcriptomics is a cutting-edge technique that combines gene expression with spatial information, allowing researchers to study molecular patterns within tissue architecture. Here, we present IAMSAM, a user-friendly web-based tool for analyzing spatial transcriptomics data focusing on morphological features. IAMSAM accurately segments tissue images using the Segment Anything Model, allowing for the semi-automatic selection of regions of interest based on morphological signatures. Furthermore, IAMSAM provides downstream analysis, such as identifying differentially expressed genes, enrichment analysis, and cell type prediction within the selected regions. With its simple interface, IAMSAM empowers researchers to explore and interpret heterogeneous tissues in a streamlined manner.

摘要

空间转录组学是一种将基因表达与空间信息相结合的前沿技术，使研究人员能够在组织架构内研究分子模式。在这里，我们介绍了 IAMSAM，这是一个专注于形态特征的用于分析空间转录组学数据的用户友好型网络工具。IAMSAM 使用 Segment Anything Model 准确地分割组织图像，允许根据形态特征半自动选择感兴趣的区域。此外，IAMSAM 提供下游分析，例如在选定区域内识别差异表达基因、富集分析和细胞类型预测。凭借其简单的界面，IAMSAM 使研究人员能够以更流畅的方式探索和解释异质组织。

https://cdn.ncbi.nlm.nih.gov/pmc/blobs/2be4/11552325/c2a6b8b9dd17/13059_2024_3380_Fig5_HTML.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/2be4/11552325/65d414fad02a/13059_2024_3380_Fig1_HTML.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/2be4/11552325/c28cbc7a9b97/13059_2024_3380_Fig2_HTML.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/2be4/11552325/a76c0f57130c/13059_2024_3380_Fig3_HTML.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/2be4/11552325/ff5f216f289a/13059_2024_3380_Fig4_HTML.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/2be4/11552325/c2a6b8b9dd17/13059_2024_3380_Fig5_HTML.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/2be4/11552325/65d414fad02a/13059_2024_3380_Fig1_HTML.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/2be4/11552325/c28cbc7a9b97/13059_2024_3380_Fig2_HTML.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/2be4/11552325/a76c0f57130c/13059_2024_3380_Fig3_HTML.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/2be4/11552325/ff5f216f289a/13059_2024_3380_Fig4_HTML.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/2be4/11552325/c2a6b8b9dd17/13059_2024_3380_Fig5_HTML.jpg

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