The regulatory landscape of 5′ UTRs in translational control during zebrafish embryogenesis
Description
The Mendeley Repository folder contains the following: - FIJI macro for automated image analysis (related to figures 2 and 7) - Excel sheets with normalized fluorescence intensity calculations (related to figures 2 and 7) - Updated DaniO5P model weights and contributions - NUPACK structure calculations - All 5' UTR sequences recovered before filtering steps (mentioned in the methods section), which includes 5' UTRs that were not assayed, for the interested reader - Files outputted by next-generation sequencing alignments (deduplicated, mapped reads), used for reporter TPM calculations - The sequence of the plasmid used for cloning the MPRA library Raw imaging data can be found in the Zenodo files: - Zenodo DOI 10.5281/zenodo.13302259 ; related to Figure 2 - Zenodo DOI 10.5281/zenodo.13304863 ; related to Figure 2 - Zenodo DOI 10.5281/zenodo.13304891 ; related to Figure 7 - Zenodo DOI 10.5281/zenodo.13304907 ; related to Figure 7
Files
Steps to reproduce
Information regarding image acquisition and analysis relative to Figures 2 and 7 is detailed in respective excel files (see sheet "info). Information regarding the additional files is provided in the STAR Methods section of the paper.
Institutions
- University of Washington
- Universitat Basel Department Biozentrum