Integrative analysis methods for spatial transcriptomics

Affiliations

¹ Cold Spring Harbor Laboratory, Cold Spring Harbor, New York, USA.
² Cold Spring Harbor Laboratory, Cold Spring Harbor, New York, USA. JGillis@cshl.edu.

Comment

Shaina Lu et al. Nat Methods. 2021 Nov.

. 2021 Nov;18(11):1282-1283.

doi: 10.1038/s41592-021-01272-7.

¹ Cold Spring Harbor Laboratory, Cold Spring Harbor, New York, USA.
² Cold Spring Harbor Laboratory, Cold Spring Harbor, New York, USA. JGillis@cshl.edu.

No abstract available

Comment on

SpaGCN: Integrating gene expression, spatial location and histology to identify spatial domains and spatially variable genes by graph convolutional network.
Hu J, Li X, Coleman K, Schroeder A, Ma N, Irwin DJ, Lee EB, Shinohara RT, Li M. Hu J, et al. Nat Methods. 2021 Nov;18(11):1342-1351. doi: 10.1038/s41592-021-01255-8. Epub 2021 Oct 28. Nat Methods. 2021. PMID: 34711970
Deep learning and alignment of spatially resolved single-cell transcriptomes with Tangram.
Biancalani T, Scalia G, Buffoni L, Avasthi R, Lu Z, Sanger A, Tokcan N, Vanderburg CR, Segerstolpe Å, Zhang M, Avraham-Davidi I, Vickovic S, Nitzan M, Ma S, Subramanian A, Lipinski M, Buenrostro J, Brown NB, Fanelli D, Zhuang X, Macosko EZ, Regev A. Biancalani T, et al. Nat Methods. 2021 Nov;18(11):1352-1362. doi: 10.1038/s41592-021-01264-7. Epub 2021 Oct 28. Nat Methods. 2021. PMID: 34711971 Free PMC article.

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