FAIRsharing record for: Minimum Information about Tissue Imaging

This FAIRsharing record describes: The Minimum Information about Highly Multiplexed Tissue Imaging (MITI) standard applies best practices developed for genomics and for other microscopy data to highly multiplexed tissue images and traditional histology. MITI reporting guidelines comprise minimal metadata for highly multiplexed tissue images and were developed in consultation with methods developers, experts in imaging metadata (e.g., DICOM and OME) and multiple large-scale atlasing projects; they are guided by existing standards (https://data.humantumoratlas.org/standards) and accommodate most multiplexed imaging technologies and both centralized and distributed data storage. MITI covers biospecimen, reagent, data acquisition and data analysis metadata, as well as data levels for imaging with antibodies, aptamers, peptides, dyes and similar detection reagents.

MITI is available in the machine-readable YAML format (https://github.com/miti-consortium/MITI) along with other relevant information implemented in best practice (https://github.com/ncihtan/data-models). MITI uses structured metadata quality control and format relevant data levels to specify the extent of data processing, and in the case of sequencing data, whether access requires the approval of a data access committee. In common practice, data at levels 3 and up are freely shared. Primary data arising from microscopes and data acquisition instruments correspond to level 1 data. Because the raw image data acquired from one slide usually consist of separate image fields, possibly from proprietary formats, they are processed to correct for uneven illumination and other instrumentation artifacts and assembled into a single multichannel image in the OME-TIFF format (level 2 data).

本FAIRsharing记录详述如下：高度多重组织成像最低信息标准（Minimum Information about Highly Multiplexed Tissue Imaging，简称MITI）将针对基因组学及其他显微数据开发的最佳实践，应用于高度多重组织成像与传统组织学场景。MITI报告指南涵盖高度多重组织成像所需的最低限度元数据，其制定过程征询了方法开发人员、成像元数据领域专家（如DICOM与OME）以及多个大规模图谱绘制项目的意见；该指南以现有标准（https://data.humantumoratlas.org/standards）为指导，可兼容绝大多数多重成像技术，同时支持集中式与分布式数据存储。MITI涵盖生物样本、试剂、数据采集与数据分析相关元数据，以及针对抗体、适配体、多肽、染料及同类检测试剂成像的数据层级规范。

MITI以可机器读取的YAML格式提供（https://github.com/miti-consortium/MITI），同时附带最佳实践框架下的其他相关信息（https://github.com/ncihtan/data-models）。MITI采用结构化元数据质量控制机制，并通过关联数据层级规范明确数据处理程度；对于测序数据，还会标注是否需经数据访问委员会审批后方可获取。行业通用实践中，层级3及以上的数据均可免费共享。由显微镜及数据采集设备生成的原始数据对应层级1数据。由于单张切片获取的原始图像数据通常包含多个独立成像视野，且可能采用专有格式存储，因此需对其进行校正以修正光照不均及其他仪器伪影问题，并将其整合为单张多通道图像，采用OME-TIFF格式存储（对应层级2数据）。