PXD040604

PXD040604 is an original dataset announced via ProteomeXchange.

Title	Multimodal Coregistration and Fusion between Spatial Metabol-omics and Biomedical Imaging
Description	Spatial omics are increasingly "fused" with classical biomedical imaging modalities to complement them with spatially-resolved molecular profiling, enabling deeper understanding of the biochemical basis of health and diesease. Before the multimodal information can be fused, all contributing imaging data must be spatially aligned through a process called coregistration, which remains a challenge. Here we present a multimodal coregistration framework with great genericity and accuracy for spatial omics data. Specifically, an original dimension reduction algorithm "PseudoRep" is used to bridge cross-modal gaps: PseudoRep can generate a single-channel representation of the highly multiplexed molecular image from spatial omics and ensure that the resulting representation appears "pseudo-unimodal" to the image from the other modality. Then, a Deep Learning-based transformation algorithm "DeepReg" is adopted to accurately model nonlinear tissue deformations due to anatomical variations or sample manipulations. Our method demonstrated its versatility by coregistering mass spectrometry imaging-mediated spatial metabolomics data with diverse modalities (magnetic resonance imaging, brain atlas, microscopy, and spatial transcriptomics) and reduced 38\%\textemdash69\% of coregistration errors compared to existing methods. Notably, we open-source a toolbox to implement both the coregistration and its downstream tasks (co-expression analysis, anatomical annotation, and pansharpening), which is expected to greatly facilitate the democratization of multimodal fusion studies in the spatial omics community.
HostingRepository	iProX
AnnounceDate	2023-03-06
AnnouncementXML	Submission_2023-03-05_20:11:57.589.xml
DigitalObjectIdentifier
ReviewLevel	Peer-reviewed dataset
DatasetOrigin	Original dataset
RepositorySupport	Unsupported dataset by repository
PrimarySubmitter	Ang Guo
SpeciesList	scientific name: Mus musculus; NCBI TaxID: 10090;
ModificationList	No PTMs are included in the dataset
Instrument	SYNAPT G2-Si

Revision	Datetime	Status	ChangeLog Entry
0	2023-03-05 20:11:51	ID requested
⏵ 1	2023-03-05 20:11:58	announced

Dataset with its publication pending

submitter keyword: Spatial Omics, Multi-modal registration

Qian Luo
contact affiliation	Shenzhen Institute of Science and Technology, Chinese Academy of Sciences
contact email	qian.luo@siat.ac.cn
lab head
Ang Guo
contact affiliation	Shenzhen Institute of Science and Technology, Chinese Academy of Sciences
contact email	ang.guo@siat.ac.cn
dataset submitter

iProX dataset URI