computational pipeline matlab 2019b  (MathWorks Inc)

Journal: Cell

Article Title: Multimodal charting of molecular and functional cell states via in situ electro-sequencing

doi: 10.1016/j.cell.2023.03.023

Figure Lengend Snippet: (A) Schematics summarizing the in situ electro-seq method. (B) Representative photograph of flexible mesh electronics. Inset: schematic illustrates the multilayer structure of the electronics. (C) Overlapped fluorescence and bright-field (BF) image of a pair of binary E-barcodes highlighted in red box in (B). (D) Electrochemical impedance and phase from 0.1 to 10 kHz of a representative electrode. (E-F) Electrochemical impedance at 1 kHz across five different samples (E) and over two months of incubation (F). Values are mean ± SEM. (G) In situ sequencing of cell-electronics hybrid (See STAR Methods). (H) Representative images of five rounds of sequencing overlayed with E-barcode. X, unknown base; red underline, decoded sequence; Ch1 to Ch4, fluorescence channels; E-barcodes labeled with R6G.

Article Snippet: A customized computational pipeline was built with MATLAB (2019b) to decode gene identity and quantify the gene expression level of each cell from the in situ sequencing images.

Techniques: In Situ, Fluorescence, Incubation, Sequencing, Labeling

Journal: Cell

Article Title: Multimodal charting of molecular and functional cell states via in situ electro-sequencing

doi: 10.1016/j.cell.2023.03.023

Figure Lengend Snippet: KEY RESOURCES TABLE

Article Snippet: A customized computational pipeline was built with MATLAB (2019b) to decode gene identity and quantify the gene expression level of each cell from the in situ sequencing images.

Techniques: Recombinant, Microscopy, In Situ, Sequencing, Software