Data for "High-throughput protein characterization by complementation using DNA barcoded fragment libraries"

This data is from a high-throughput complementation assay with genome fragments from 11 bacteria tested in 20 knockout strains of Escherichia coli BW25113. E. coli mutants with insert libraries were grown on agar plates with M9 minimal medium and glucose.The data was processed in R, using the steps in load.R and the functions in bobaseq.R and plots.R. The resulting R image is in htcompl2May2024.image and the key data frames are:samples: barseq sampleslibs: librariesmaps: mapped insertsprot: proteins in the source genomespsim: similarity between proteins in the source genomesp: inserts that contain proteins (or, a special row with no locus_tag for inserts that do not contain proteins)counts: reads per barcode per samplecountTime0: time0 countslr: log2 ratios (fitness values) per barcode per samplehi: statistically significant barcodes x experimentshiConf: the high-confidence subset of hihiConfAvg: averaging fitness values (log2 ratios) across near-replicates (similar experiments but with different concentrations of inducer)hcRegions: combining overlapping entries in hiConf to get one entry per hit regionThe tab-delimited files mapped_inserts.tsv, samples.tsv, and counts.tsv correspond to the maps, samples, and counts tables in the R image. libraries.tsv describes the 11 libraries of genomic inserts.The zip files contain the results of running the mapping for each library. The mapping code is available athttps://github.com/OGalOz/Boba-seqThe name for each zip file is explained in the libraries.tsv table.