BIOMARKERS

Molecular Biopsy of Human Tumors

- a resource for Precision Medicine *

238 related articles for article (PubMed ID: 34626538)

  • 1. Cell-type modeling in spatial transcriptomics data elucidates spatially variable colocalization and communication between cell-types in mouse brain.
    Grisanti Canozo FJ; Zuo Z; Martin JF; Samee MAH
    Cell Syst; 2022 Jan; 13(1):58-70.e5. PubMed ID: 34626538
    [TBL] [Abstract][Full Text] [Related]  

  • 2. stAPAminer: Mining Spatial Patterns of Alternative Polyadenylation for Spatially Resolved Transcriptomic Studies.
    Ji G; Tang Q; Zhu S; Zhu J; Ye P; Xia S; Wu X
    Genomics Proteomics Bioinformatics; 2023 Jun; 21(3):601-618. PubMed ID: 36669641
    [TBL] [Abstract][Full Text] [Related]  

  • 3. stVAE deconvolves cell-type composition in large-scale cellular resolution spatial transcriptomics.
    Li C; Chan TF; Yang C; Lin Z
    Bioinformatics; 2023 Oct; 39(10):. PubMed ID: 37862237
    [TBL] [Abstract][Full Text] [Related]  

  • 4. SD2: spatially resolved transcriptomics deconvolution through integration of dropout and spatial information.
    Li H; Li H; Zhou J; Gao X
    Bioinformatics; 2022 Oct; 38(21):4878-4884. PubMed ID: 36063455
    [TBL] [Abstract][Full Text] [Related]  

  • 5. Probabilistic cell/domain-type assignment of spatial transcriptomics data with SpatialAnno.
    Shi X; Yang Y; Ma X; Zhou Y; Guo Z; Wang C; Liu J
    Nucleic Acids Res; 2023 Dec; 51(22):e115. PubMed ID: 37941153
    [TBL] [Abstract][Full Text] [Related]  

  • 6. Integration of spatial and single-cell transcriptomic data elucidates mouse organogenesis.
    Lohoff T; Ghazanfar S; Missarova A; Koulena N; Pierson N; Griffiths JA; Bardot ES; Eng CL; Tyser RCV; Argelaguet R; Guibentif C; Srinivas S; Briscoe J; Simons BD; Hadjantonakis AK; Göttgens B; Reik W; Nichols J; Cai L; Marioni JC
    Nat Biotechnol; 2022 Jan; 40(1):74-85. PubMed ID: 34489600
    [TBL] [Abstract][Full Text] [Related]  

  • 7. Deciphering the Spatial Modular Patterns of Tissues by Integrating Spatial and Single-Cell Transcriptomic Data.
    Shan X; Chen J; Dong K; Zhou W; Zhang S
    J Comput Biol; 2022 Jul; 29(7):650-663. PubMed ID: 35727094
    [TBL] [Abstract][Full Text] [Related]  

  • 8. HyperGCN: an effective deep representation learning framework for the integrative analysis of spatial transcriptomics data.
    Ma Y; Liu L; Zhao Y; Hang B; Zhang Y
    BMC Genomics; 2024 Jun; 25(1):566. PubMed ID: 38840049
    [TBL] [Abstract][Full Text] [Related]  

  • 9. 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
    Nat Methods; 2021 Nov; 18(11):1352-1362. PubMed ID: 34711971
    [TBL] [Abstract][Full Text] [Related]  

  • 10. Single-Cell Transcriptomics-Based Study of Transcriptional Regulatory Features in the Mouse Brain Vasculature.
    Lin WW; Xu LT; Chen YS; Go K; Sun C; Zhu YJ
    Biomed Res Int; 2021; 2021():7643209. PubMed ID: 34337051
    [TBL] [Abstract][Full Text] [Related]  

  • 11. CPPLS-MLP: a method for constructing cell-cell communication networks and identifying related highly variable genes based on single-cell sequencing and spatial transcriptomics data.
    Zhang T; Wu Z; Li L; Ren J; Zhang Z; Wang G
    Brief Bioinform; 2024 Mar; 25(3):. PubMed ID: 38678387
    [TBL] [Abstract][Full Text] [Related]  

  • 12. SPICEMIX enables integrative single-cell spatial modeling of cell identity.
    Chidester B; Zhou T; Alam S; Ma J
    Nat Genet; 2023 Jan; 55(1):78-88. PubMed ID: 36624346
    [TBL] [Abstract][Full Text] [Related]  

  • 13. Integrating spatial and single-cell transcriptomics data using deep generative models with SpatialScope.
    Wan X; Xiao J; Tam SST; Cai M; Sugimura R; Wang Y; Wan X; Lin Z; Wu AR; Yang C
    Nat Commun; 2023 Nov; 14(1):7848. PubMed ID: 38030617
    [TBL] [Abstract][Full Text] [Related]  

  • 14. scDeepSort: a pre-trained cell-type annotation method for single-cell transcriptomics using deep learning with a weighted graph neural network.
    Shao X; Yang H; Zhuang X; Liao J; Yang P; Cheng J; Lu X; Chen H; Fan X
    Nucleic Acids Res; 2021 Dec; 49(21):e122. PubMed ID: 34500471
    [TBL] [Abstract][Full Text] [Related]  

  • 15. Space: the final frontier - achieving single-cell, spatially resolved transcriptomics in plants.
    Gurazada SGR; Cox KL; Czymmek KJ; Meyers BC
    Emerg Top Life Sci; 2021 May; 5(2):179-188. PubMed ID: 33522561
    [TBL] [Abstract][Full Text] [Related]  

  • 16. De novo analysis of bulk RNA-seq data at spatially resolved single-cell resolution.
    Liao J; Qian J; Fang Y; Chen Z; Zhuang X; Zhang N; Shao X; Hu Y; Yang P; Cheng J; Hu Y; Yu L; Yang H; Zhang J; Lu X; Shao L; Wu D; Gao Y; Chen H; Fan X
    Nat Commun; 2022 Oct; 13(1):6498. PubMed ID: 36310179
    [TBL] [Abstract][Full Text] [Related]  

  • 17. STellaris: a web server for accurate spatial mapping of single cells based on spatial transcriptomics data.
    Li X; Xiao C; Qi J; Xue W; Xu X; Mu Z; Zhang J; Li CY; Ding W
    Nucleic Acids Res; 2023 Jul; 51(W1):W560-W568. PubMed ID: 37224539
    [TBL] [Abstract][Full Text] [Related]  

  • 18. Knowledge-graph-based cell-cell communication inference for spatially resolved transcriptomic data with SpaTalk.
    Shao X; Li C; Yang H; Lu X; Liao J; Qian J; Wang K; Cheng J; Yang P; Chen H; Xu X; Fan X
    Nat Commun; 2022 Jul; 13(1):4429. PubMed ID: 35908020
    [TBL] [Abstract][Full Text] [Related]  

  • 19. Tissue module discovery in single-cell-resolution spatial transcriptomics data via cell-cell interaction-aware cell embedding.
    Li Y; Zhang J; Gao X; Zhang QC
    Cell Syst; 2024 Jun; 15(6):578-592.e7. PubMed ID: 38823396
    [TBL] [Abstract][Full Text] [Related]  

  • 20. SPASCER: spatial transcriptomics annotation at single-cell resolution.
    Fan Z; Luo Y; Lu H; Wang T; Feng Y; Zhao W; Kim P; Zhou X
    Nucleic Acids Res; 2023 Jan; 51(D1):D1138-D1149. PubMed ID: 36243975
    [TBL] [Abstract][Full Text] [Related]  

    [Next]    [New Search]
    of 12.