157 related articles for article (PubMed ID: 38754367)
1. 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]
2. Accurate single-molecule spot detection for image-based spatial transcriptomics with weakly supervised deep learning.
Laubscher E; Wang XJ; Razin N; Dougherty T; Xu RJ; Ombelets L; Pao E; Graf W; Moffitt JR; Yue Y; Van Valen D
bioRxiv; 2024 Feb; ():. PubMed ID: 37732188
[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. 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]
5. 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]
6. Computer vision for image-based transcriptomics.
Stoeger T; Battich N; Herrmann MD; Yakimovich Y; Pelkmans L
Methods; 2015 Sep; 85():44-53. PubMed ID: 26014038
[TBL] [Abstract][Full Text] [Related]
7. DeepCell Kiosk: scaling deep learning-enabled cellular image analysis with Kubernetes.
Bannon D; Moen E; Schwartz M; Borba E; Kudo T; Greenwald N; Vijayakumar V; Chang B; Pao E; Osterman E; Graf W; Van Valen D
Nat Methods; 2021 Jan; 18(1):43-45. PubMed ID: 33398191
[TBL] [Abstract][Full Text] [Related]
8. Cell segmentation-free inference of cell types from in situ transcriptomics data.
Park J; Choi W; Tiesmeyer S; Long B; Borm LE; Garren E; Nguyen TN; Tasic B; Codeluppi S; Graf T; Schlesner M; Stegle O; Eils R; Ishaque N
Nat Commun; 2021 Jun; 12(1):3545. PubMed ID: 34112806
[TBL] [Abstract][Full Text] [Related]
9. 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]
10. MERFISHing for spatial context.
Shalek AK; Satija R
Trends Immunol; 2015 Jul; 36(7):390-1. PubMed ID: 26013647
[TBL] [Abstract][Full Text] [Related]
11. 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]
12. 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]
13. Optimization-based decoding of Imaging Spatial Transcriptomics data.
Bryan JP; Binan L; McCann C; Eldar YC; Farhi SL; Cleary B
Bioinformatics; 2023 Jun; 39(6):. PubMed ID: 37267161
[TBL] [Abstract][Full Text] [Related]
14. Comparative Methods for Demystifying Spatial Transcriptomics.
Sammeth M; Mudra S; Bialdiga S; Hartmannsberger B; Kramer S; Rittner H
Methods Mol Biol; 2024; 2802():515-546. PubMed ID: 38819570
[TBL] [Abstract][Full Text] [Related]
15. Subcellular spatially resolved gene neighborhood networks in single cells.
Fang Z; Ford AJ; Hu T; Zhang N; Mantalaris A; Coskun AF
Cell Rep Methods; 2023 May; 3(5):100476. PubMed ID: 37323566
[TBL] [Abstract][Full Text] [Related]
16. PyMIC: A deep learning toolkit for annotation-efficient medical image segmentation.
Wang G; Luo X; Gu R; Yang S; Qu Y; Zhai S; Zhao Q; Li K; Zhang S
Comput Methods Programs Biomed; 2023 Apr; 231():107398. PubMed ID: 36773591
[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. Starfish enterprise: finding RNA patterns in single cells.
Perkel JM
Nature; 2019 Aug; 572(7770):549-551. PubMed ID: 31427807
[No Abstract] [Full Text] [Related]
19. scBOL: a universal cell type identification framework for single-cell and spatial transcriptomics data.
Zhai Y; Chen L; Deng M
Brief Bioinform; 2024 Mar; 25(3):. PubMed ID: 38678389
[TBL] [Abstract][Full Text] [Related]
20. 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]
[Next] [New Search]
