Spatial niche analysis in spatial transcriptomics: data, code and results

Data, analysis code, analytical tables and figures accompanying the study Spatial niche analysis in spatial transcriptomics: a bibliometric and topic-modeling study, 2016–2026.The OpenAlex snapshot was retrieved on 28 July 2026. It comprises 8,528 unique spatial-transcriptomics works and 1,225 niche-analytic works. The 2026 observation year is incomplete. The archive includes outputs from a ten-topic structural model of 1,166 documents, matching for 62 named methods, citation-association and predictive models, network analyses, sensitivity analyses, and seven main and five supplementary figures. Version 1.0.1 revised Figures 6 and 7 and the plotting code. Version 1.0.2 updates the author and correspondence information; the data, fitted statistical results and figures are unchanged from version 1.0.1. Figure 6 pairs OLS associations with descriptive SHAP importance. Figure 7 combines co-citation, publication-year counts and topic composition within the largest coupling communities. The bibliographic data and fitted statistical results are unchanged. The README describes snapshot reproduction and the limitations of refitting the historical R models.Liubo Li and Qiyi Jiang contributed equally and share first authorship. Zhengyuan Ma ([e-mail]) is the submission-contact corresponding author; Shengquan Fang ([e-mail]) is co-corresponding author. Original documentation and analytical results are licensed under CC BY 4.0; original code is licensed under MIT. Third-party material retains its source rights and terms. See LICENSE and THIRD_PARTY_NOTICES.md. No external funding supported this study.