Table 3 Representative applications utilizing spatial transcriptomics
From: Advances in spatial transcriptomics and related data analysis strategies
Application | Tissue sample | Sequencing platform | Sample number | Journal | Author | Year | References |
|---|---|---|---|---|---|---|---|
Tissue Architecture | Adult mouse brain | Illumina NextSeq | 1 | Sci Adv | Ortiz, C. et al. | 2020 | [6] |
Human postmortem DLPFC | 10 × Genomics Visium | 3 | Nat Neurosci | Maynard, K.R. et al. | 2021 | [9] | |
Wild type adult, female mouse livers | Illumina NextSeq500 | 8 | Nat Commun | Hildebrandt, F. et al. | 2021 | [7] | |
Human postmortem DRG | 10 × Genomics Visium | 8 | Sci Transl Med | Tavares-Ferreira, D. et al. | 2022 | [8] | |
Tissue Development | Human embryonic heart | Illumina NextSeq | 3 | Cell | Asp, M. et al. | 2019 | [10] |
Adult mouse and adult human testis | Illumina NovaSeq S2 | Mouse: N/A Human: 2 | Cell Rep | Chen, H. et al. | 2021 | [13] | |
Human embryonic intestine | Illumina NextSeq | 5 | Cell | Fawkner-Corbett, D. et al. | 2021 | [12] | |
Human developmental liver | Illumina Hiseq3000 | 2 | Front Cell Dev Biol | Hou, X. et al. | 2021 | [11] | |
Disease Research | Mouse spinal cord and postmortem spinal cord from ALS patient | N/A | Mouse: 67 Human: 7 | Science | Maniatis, S. et al. | 2019 | [15] |
Mouse CD45− lung cells after IAV infection and human lungs | Illumina NextSeq | Mouse: 4 Human: 3 | Nature | Boyd, D.F. et al. | 2020 | [16] | |
Human BPH specimen | 10 × Genomics Visium & Nanostring GeoMx DSP | N/A | J Pathol | Joseph, D.B. et al. | 2022 | [14] | |
Human heart | 10 × Genomics Visium | 31 | Nature | Kuppe, C. et al. | 2022 | [17] | |
Human lymph node metastases of stage III cutaneous malignant melanoma | Illumina NextSeq | 4 | Cancer Res | Thrane, K. et al. | 2018 | [21] | |
Primary PDAC tumor | Illumina NextSeq | 2 | Nat Biotechnol | Moncada, R. et al. | 2020 | [18] | |
Human cSCC | Illumina NextSeq | 6 | Cell | Ji, A.L. et al. | 2020 | [19] | |
HER2-positive breast tumor | Illumina NextSeq500 | 8 | Nat Commun | Andersson, A. et al. | 2021 | [20] | |
Fresh hepatocellular carcinomas | 10 × Genomics Visium | 8 | J Hepatol | Liu, Y. et al | 2023 | [49] | |
OSCC and CRC | 10 × Genomics Visium & Nanostring GeoMx DSP | OSCC: 1 CRC: 1 | Nature | Galeano Niño, J.L. et al. | 2022 | [50] | |
Early-stage lung cancer | Nanostring GeoMx DSP | 12 | J Immunother Cancer | Wong-Rolle, A. et al. | 2022 | [51] |