564 related articles for article (PubMed ID: 36526371)
1. Concordance of MERFISH spatial transcriptomics with bulk and single-cell RNA sequencing.
Liu J; Tran V; Vemuri VNP; Byrne A; Borja M; Kim YJ; Agarwal S; Wang R; Awayan K; Murti A; Taychameekiatchai A; Wang B; Emanuel G; He J; Haliburton J; Oliveira Pisco A; Neff NF
Life Sci Alliance; 2023 Jan; 6(1):. PubMed ID: 36526371
[TBL] [Abstract][Full Text] [Related]
2. Spatial transcriptome profiling by MERFISH reveals subcellular RNA compartmentalization and cell cycle-dependent gene expression.
Xia C; Fan J; Emanuel G; Hao J; Zhuang X
Proc Natl Acad Sci U S A; 2019 Sep; 116(39):19490-19499. PubMed ID: 31501331
[TBL] [Abstract][Full Text] [Related]
3. Computational solutions for spatial transcriptomics.
Kleino I; Frolovaitė P; Suomi T; Elo LL
Comput Struct Biotechnol J; 2022; 20():4870-4884. PubMed ID: 36147664
[TBL] [Abstract][Full Text] [Related]
4. Reference-based cell type matching of in situ image-based spatial transcriptomics data on primary visual cortex of mouse brain.
Zhang Y; Miller JA; Park J; Lelieveldt BP; Long B; Abdelaal T; Aevermann BD; Biancalani T; Comiter C; Dzyubachyk O; Eggermont J; Langseth CM; Petukhov V; Scalia G; Vaishnav ED; Zhao Y; Lein ES; Scheuermann RH
Sci Rep; 2023 Jun; 13(1):9567. PubMed ID: 37311768
[TBL] [Abstract][Full Text] [Related]
5. Leveraging spatial transcriptomics data to recover cell locations in single-cell RNA-seq with CeLEry.
Zhang Q; Jiang S; Schroeder A; Hu J; Li K; Zhang B; Dai D; Lee EB; Xiao R; Li M
Nat Commun; 2023 Jul; 14(1):4050. PubMed ID: 37422469
[TBL] [Abstract][Full Text] [Related]
6. High-throughput single-cell gene-expression profiling with multiplexed error-robust fluorescence in situ hybridization.
Moffitt JR; Hao J; Wang G; Chen KH; Babcock HP; Zhuang X
Proc Natl Acad Sci U S A; 2016 Sep; 113(39):11046-51. PubMed ID: 27625426
[TBL] [Abstract][Full Text] [Related]
7. MERFISHing for spatial context.
Shalek AK; Satija R
Trends Immunol; 2015 Jul; 36(7):390-1. PubMed ID: 26013647
[TBL] [Abstract][Full Text] [Related]
8. RNA Imaging with Multiplexed Error-Robust Fluorescence In Situ Hybridization (MERFISH).
Moffitt JR; Zhuang X
Methods Enzymol; 2016; 572():1-49. PubMed ID: 27241748
[TBL] [Abstract][Full Text] [Related]
9. MLSpatial: A machine-learning method to reconstruct the spatial distribution of cells from scRNA-seq by extracting spatial features.
Zhu M; Li C; Lv K; Guo H; Hou R; Tian G; Yang J
Comput Biol Med; 2023 Jun; 159():106873. PubMed ID: 37105115
[TBL] [Abstract][Full Text] [Related]
10. Spatial organization of the mouse retina at single cell resolution by MERFISH.
Choi J; Li J; Ferdous S; Liang Q; Moffitt JR; Chen R
Nat Commun; 2023 Aug; 14(1):4929. PubMed ID: 37582959
[TBL] [Abstract][Full Text] [Related]
11. A high-resolution transcriptomic and spatial atlas of cell types in the whole mouse brain.
Yao Z; van Velthoven CTJ; Kunst M; Zhang M; McMillen D; Lee C; Jung W; Goldy J; Abdelhak A; Aitken M; Baker K; Baker P; Barkan E; Bertagnolli D; Bhandiwad A; Bielstein C; Bishwakarma P; Campos J; Carey D; Casper T; Chakka AB; Chakrabarty R; Chavan S; Chen M; Clark M; Close J; Crichton K; Daniel S; DiValentin P; Dolbeare T; Ellingwood L; Fiabane E; Fliss T; Gee J; Gerstenberger J; Glandon A; Gloe J; Gould J; Gray J; Guilford N; Guzman J; Hirschstein D; Ho W; Hooper M; Huang M; Hupp M; Jin K; Kroll M; Lathia K; Leon A; Li S; Long B; Madigan Z; Malloy J; Malone J; Maltzer Z; Martin N; McCue R; McGinty R; Mei N; Melchor J; Meyerdierks E; Mollenkopf T; Moonsman S; Nguyen TN; Otto S; Pham T; Rimorin C; Ruiz A; Sanchez R; Sawyer L; Shapovalova N; Shepard N; Slaughterbeck C; Sulc J; Tieu M; Torkelson A; Tung H; Valera Cuevas N; Vance S; Wadhwani K; Ward K; Levi B; Farrell C; Young R; Staats B; Wang MM; Thompson CL; Mufti S; Pagan CM; Kruse L; Dee N; Sunkin SM; Esposito L; Hawrylycz MJ; Waters J; Ng L; Smith K; Tasic B; Zhuang X; Zeng H
Nature; 2023 Dec; 624(7991):317-332. PubMed ID: 38092916
[TBL] [Abstract][Full Text] [Related]
12. SpatialPrompt: spatially aware scalable and accurate tool for spot deconvolution and domain identification in spatial transcriptomics.
Swain AK; Pandit V; Sharma J; Yadav P
Commun Biol; 2024 May; 7(1):639. PubMed ID: 38796505
[TBL] [Abstract][Full Text] [Related]
13. 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]
14. Multiplexed detection of RNA using MERFISH and branched DNA amplification.
Xia C; Babcock HP; Moffitt JR; Zhuang X
Sci Rep; 2019 May; 9(1):7721. PubMed ID: 31118500
[TBL] [Abstract][Full Text] [Related]
15. Cell segmentation in imaging-based spatial transcriptomics.
Petukhov V; Xu RJ; Soldatov RA; Cadinu P; Khodosevich K; Moffitt JR; Kharchenko PV
Nat Biotechnol; 2022 Mar; 40(3):345-354. PubMed ID: 34650268
[TBL] [Abstract][Full Text] [Related]
16. Spatially resolved cell atlas of the mouse primary motor cortex by MERFISH.
Zhang M; Eichhorn SW; Zingg B; Yao Z; Cotter K; Zeng H; Dong H; Zhuang X
Nature; 2021 Oct; 598(7879):137-143. PubMed ID: 34616063
[TBL] [Abstract][Full Text] [Related]
17. High-performance multiplexed fluorescence in situ hybridization in culture and tissue with matrix imprinting and clearing.
Moffitt JR; Hao J; Bambah-Mukku D; Lu T; Dulac C; Zhuang X
Proc Natl Acad Sci U S A; 2016 Dec; 113(50):14456-14461. PubMed ID: 27911841
[TBL] [Abstract][Full Text] [Related]
18. Characterizing spatial gene expression heterogeneity in spatially resolved single-cell transcriptomic data with nonuniform cellular densities.
Miller BF; Bambah-Mukku D; Dulac C; Zhuang X; Fan J
Genome Res; 2021 Oct; 31(10):1843-1855. PubMed ID: 34035045
[TBL] [Abstract][Full Text] [Related]
19. Accurate single-molecule spot detection for image-based spatial transcriptomics with weakly supervised deep learning.
Laubscher E; Wang X; Razin N; Dougherty T; Xu RJ; Ombelets L; Pao E; Graf W; Moffitt JR; Yue Y; Van Valen D
Cell Syst; 2024 May; 15(5):475-482.e6. PubMed ID: 38754367
[TBL] [Abstract][Full Text] [Related]
20. RNA imaging. Spatially resolved, highly multiplexed RNA profiling in single cells.
Chen KH; Boettiger AN; Moffitt JR; Wang S; Zhuang X
Science; 2015 Apr; 348(6233):aaa6090. PubMed ID: 25858977
[TBL] [Abstract][Full Text] [Related]
[Next] [New Search]
