Granted Patent
B2
US 12,718,906 · App. 17/476,400 · Granted Aug 25, 2026
Methods and systems for barcode-assisted image registration and alignment
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Assignments (1)
ASSIGNMENT OF ASSIGNOR'S INTEREST
Recorded Oct 11, 2021
From: SHAH, PREYAS
To: 10X GENOMICS, INC.
Reel/Frame 057756/0552 →
Continuity (8)
Provisional Application
63213447
· Jun 22, 2021
Provisional Application
63079007
· Sep 16, 2020
Provisional Application
63079004
· Sep 16, 2020
Provisional Application
63079029
· Sep 16, 2020
Provisional Application
63078999
· Sep 16, 2020
Provisional Application
63079035
· Sep 16, 2020
Provisional Application
63079034
· Sep 16, 2020
References Cited (38)
US 20180033256A1
· Hamidat et al.
· 2018
[cited by applicant]
US 20190095578A1
· Shum et al.
· 2019
[cited by applicant]
US 20190264270A1
· Zhuang et al.
· 2019
[cited by applicant]
US 20220084628A1
· Shah
· 2022
[cited by applicant]
US 20220084629A1
· Shah
· 2022
[cited by applicant]
WO WO2018026873
· 2018
[cited by applicant]
WO WO2019204702
· 2019
[cited by applicant]
WO 2020123742A1
· 2020
[cited by applicant]
WO 2020240025A1
· 2020
[cited by applicant]
WO 2021127019A1
· 2021
[cited by applicant]
WO WO2022060889
· 2022
[cited by applicant]
Moffitt, Jeffrey R., et al. “High-throughput single-cell gene-expression profiling with multiplexed error-robust fluorescence in situ hybridization.” Proceedings of the National Academy of Sciences 113.39 (2016): 11046-…
[cited by examiner]
Billings, Seth D., Emad M. Boctor, and Russell H. Taylor. “Iterative most-likely point registration (IMLP): A robust algorithm for computing optimal shape alignment.” PloS one 10.3 (2015): e0117688. (Year: 2015).
[cited by examiner]
Alon et al., “Expansion Sequencing: Spatially Precise In Situ Transcriptomics in Intact Biological Systems”, Science (2021) 371(6528); eaax2656 (doi:10.1126/science.aax2656.).
[cited by applicant]
Buschmann et al., “Levenshtein error-correcting barcodes for multiplexed DNA sequencing,” BMC Bioinformatics. (2013) 14: 272.
[cited by applicant]
Chen et al., “RNA imaging. Spatially resolved, highly multiplexed RNA profiling in single cells,” Science. (2015) 348 (6233): aaa6090. 36 pgs.
[cited by applicant]
Chen et al., “Spatially Resolved, Highly Multiplexed RNA Profiling in Single Cells”, Science (2015) 348(6233):412.
[cited by applicant]
Crum et al., “Non-Rigid Image Registration: Theory and Practice”, The British Journal of Radiology (2004) 77: S140-S153.
[cited by applicant]
Eng et al., “Transcriptome-scale super-resolved imaging in tissues by RNA seqFISH,” Nature. (2019) 568(7751): 235-239.
[cited by applicant]
Holden, M. “A Review of Geometric Transformations for Nonrigid Body Registration”, IEEE Transactions on Medical Imaging (2008) 27:111-128.
[cited by applicant]
Ke et al., “In situ sequencing for RNA analysis in preserved tissue and cells,” Nat Methods. (2013) 10(9):857-60.
[cited by applicant]
Lee et al., “Highly multiplexed subcellular RNA sequencing in situ”, Science. (2014) 343(6177):1360-1363. doi: 10.1126/science.1250212.
[cited by applicant]
Lubeck et al., “Single-cell in situ RNA profiling by sequential hybridization,” Nat Methods. (2014) 11(4): 360-361.
[cited by applicant]
Moffitt et al., “RNA Imaging with Multiplexed Error-Robust Fluorescence In Situ Hybridization (MERFISH),” Methods in Enzymology, (2016) 572: 1-49.
[cited by applicant]
Nelder et al., “A Simplex Method for Function Minimization,” Computer Journal. (1965) 7(4): 308-313.
[cited by applicant]
Zhu et al., “A Review of Point Set Registration: From Pairwise Registration to Groupwise Registration”, (2019) Sensors 19(5): 1191.
[cited by applicant]
Asp et al., “A Spatiotemporal Organ-Wide Gene Expression and Cell Atlas of the Developing Human Heart,” Cell (2019) 179(7):1647-1660.
[cited by applicant]
Hamady et al., “Error-Correcting Barcoded Primers for Pyrosequencing Hundreds of Samples in Multiplex,” Nature Methods (2008) 5(3):235-237.
[cited by applicant]
MiSeq System User Guide, Part #15027617 H, Illumina, Inc., Mar. 2013 (Year: 2013).
[cited by applicant]
Schober et al, Design of Short Barcodes for Next Generation Sequencing of DNA and RNA, Proceedings of the 2012 IEEE International Workshop on Genomic Signal Processing and Statistics, pp. 31-34, IEEE Xplore, Apr. 2013 (…
[cited by applicant]