KEY RESOURCES TABLE

RESOURCE	SOURCE	IDENTIFIER
Deposited data
Single-cell RNA sequencing	Tepe et al. 2018	GEO: GSE121891
Single-cell Spatial Transcriptomics	Eng et al. 2019	https://github.com/CaiGroup/seqFISH-PLUS
Single-cell RNA sequencing	The Tabula Sapiens Consortium and Quake, 2021	https://tabula-sapiens-portal.ds.czbiohub.org/
Single-cell RNA sequencing	Moffitt et al. 2018	GEO: GSE113576
Single-cell Spatial Transcriptomics	Moffitt et al. 2018	DOI: 10.5061/dryad.8t8s248
Spot-based Spatial Transcriptomics	(Vickovic et al., 2019)	https://portals.broadinstitute.org/single_cell/study/SCP420
Software and algorithms
STANN	This paper	DOI: 10.5281/zenodo.5227626;https://doi.org/10.5281/zenodo.5227626
Tensorflow	Abadi et al. 2016	https://github.com/tensorflow/tensorflow
Scikit-Learn	Pedregosa et al., 2011	https://github.com/scikit-learn
KS	Duong 2020	https://github.com/cran/ks
CellPhoneDB	Efremova et al. 2020	https://github.com/Teichlab/cellphonedb
SCENIC	Aibar et al. 2017	https://github.com/aertslab/pySCENIC
Scanpy	Wolf, Angerer, and Theis 2018	https://github.com/theislab/scanpy
Seurat	Butler et al. 2018	https://github.com/satijalab/seurat
scPred	Alquicira-Hernandez et al. 2019	https://github.com/powellgenomicslab/scPred
Tangram	Biancalani et al., 2021	https://github.com/broadinstitute/Tangram
Scipy	Virtanen et al., 2020	https://github.com/scipy/scipy