Biomaterial Database

Statistical and machine learning methods for spatially resolved transcriptomics data analysis. 2022

Zexian Zeng, and Yawei Li, and Yiming Li, and Yuan Luo

Center for Quantitative Biology, Academy for Advanced Interdisciplinary Studies, Peking University, Beijing, 100084, China.

The recent advancement in spatial transcriptomics technology has enabled multiplexed profiling of cellular transcriptomes and spatial locations. As the capacity and efficiency of the experimental technologies continue to improve, there is an emerging need for the development of analytical approaches. Furthermore, with the continuous evolution of sequencing protocols, the underlying assumptions of current analytical methods need to be re-evaluated and adjusted to harness the increasing data complexity. To motivate and aid future model development, we herein review the recent development of statistical and machine learning methods in spatial transcriptomics, summarize useful resources, and highlight the challenges and opportunities ahead.

UI	MeSH Term	Description	Entries
D000069550	Machine Learning	A type of ARTIFICIAL INTELLIGENCE that enable COMPUTERS to independently initiate and execute LEARNING when exposed to new data.	Transfer Learning,Learning, Machine,Learning, Transfer
D000078332	Data Analysis	Process of systematically applying statistical and/or logical techniques to describe and illustrate, condense and recap, and evaluate data (https://ori.hhs.gov/education).	Analyses, Data,Analysis, Data,Data Analyses
D017421	Sequence Analysis	A multistage process that includes the determination of a sequence (protein, carbohydrate, etc.), its fragmentation and analysis, and the interpretation of the resulting sequence information.	Sequence Determination,Analysis, Sequence,Determination, Sequence,Determinations, Sequence,Sequence Determinations,Analyses, Sequence,Sequence Analyses
D059010	Single-Cell Analysis	Assaying the products of or monitoring various biochemical processes and reactions in an individual cell.	Analyses, Single-Cell,Analysis, Single-Cell,Single Cell Analysis,Single-Cell Analyses
D059467	Transcriptome	The pattern of GENE EXPRESSION at the level of genetic transcription in a specific organism or under specific circumstances in specific cells.	Transcriptomes,Gene Expression Profiles,Gene Expression Signatures,Transcriptome Profiles,Expression Profile, Gene,Expression Profiles, Gene,Expression Signature, Gene,Expression Signatures, Gene,Gene Expression Profile,Gene Expression Signature,Profile, Gene Expression,Profile, Transcriptome,Profiles, Gene Expression,Profiles, Transcriptome,Signature, Gene Expression,Signatures, Gene Expression,Transcriptome Profile