High-Throughput Library Transgenesis in Caenorhabditis elegans via Transgenic Arrays Resulting in Diversity of Integrated Sequences (TARDIS): Online supplemental collection

Supplemental file 1: Replicate one data for array to F1 integrations

An excel document containing the array and F1 barcodes, counts, normalized frequencies, and delta frequency for replicate one.

Supplemental file 2: Replicate two data for array to F1 integrations

An excel document containing the array and F1 barcodes, counts, normalized frequencies, and delta frequency for replicate two.

Supplemental file 3: Replicate three data for array to F1 integrations

An excel document containing the array and F1 barcodes, counts, normalized frequencies, and delta frequency for replicate three.

Supplemental file 4: Replicate four data for array to F1 integrations

An excel document containing the array and F1 barcodes, counts, normalized frequencies, and delta frequency for replicate four.

Supplemental file 5: Array 1 PX816 barcode counts and sequences

An excel document containing all barcode sequences and frequencies found in array 1 PX816 across six individual worms.

Supplemental file 6: Array 2 PX817 barcode counts and sequences

An excel document containing all barcode sequences and frequencies found in array 2 PX817 across six individual worms.

Supplemental file 7: Array 3 PX818 profile 1 barcode counts and sequences

An excel document containing all barcode sequences and frequencies found in array 3 PX818 profile 1 across four individual worms.

Supplemental file 8: Array 3 PX818 profile 2 barcode counts and sequences

An excel document containing all barcode sequences and frequencies found in array 3 PX816 profile 2 across two individual worms.

Supplemental file 9: TARDIS Python Notebook #1

Notebook used for the NextSeq quality scoring, cleaning, demultiplexing, and trimming. Contains the python code used for the analysis of one individual worm from each of four TARDIS arrays (PX816, PX817, PX818 profiles 1 & 2). Contains the python code used for the analysis and visualization for all four replicates measuring the frequency from the array to the F1 integrations. Contains the python code used for the analysis and visualization of the injection mixture.

Supplemental file 10: TARDIS Python Notebook #2

Notebook used for the NovaSeq quality scoring, cleaning, demultiplexing, and trimming. Contains the python code used for the analysis and visualization of five individual worm from each of four TARDIS arrays (PX816, PX817, PX818 profiles 1 & 2). Contains the python code for the analysis and visualization for the count cut off frequency for barcode curation.

Supplemental file 11: Original images for TARDIS promoter integrations

Contains all unedited image files along with metadata, for the individual integrations and double integration lines In several cases, fluorescence was observed in multiple parts of the body, in which case the file notes the approximate location. Additionally, multiple worms were imaged per strain, which have been denoted alphanumerically.

Supplemental file 12: Plasmid sequence files

Plasmids used in this study and described in the manuscript

Supplemental file 13: Split Selection Landing Pad (SSLP) sequence files

All landing pad sequences along with limited surrounding genomic region used in this study and described in the manuscript

Sequence Read Files:

Both sequencing read files can be found at PRJNA893002: https://www.ncbi.nlm.nih.gov/bioproject/893002