Processed data for "IL-24 promotes atopic dermatitis-like inflammation through driving MRSA-induced allergic responses"

Salmon_count.csv (bulk-seq data) FASTQ files are downloaded from PRJNA975302. They are aligned with GENCODE (release M38) primary genome FASTA and basic annotation GTF by STAR (v2.7.11b), and quantified by salmon (v1.11.4), and summarized to gene counts by tximport (v1.38.2). MRSA.zip & PBS.zip (scRNA-seq data) FASTQ files are downloaded from PRJNA975496. They are aligned with the same reference genome by STAR. STARsolo code is provided below. STAR --genomeDir ../ref/mouse_m39 --runThreadN 16 \ --outSAMattributes NH CB UB --soloCellFilter EmptyDrops_CR --outFilterScoreMin 30 --soloCBmatchWLtype 1MM_multi_Nbase_pseudocounts \--soloUMIfiltering MultiGeneUMI_CR --soloUMIdedup 1MM_CR --clipAdapterType CellRanger4 \ --soloMultiMappers Unique EM --soloType CB_UMI_Simple --readFilesCommand zcat --soloBarcodeReadLength 0 \ --soloCBlen 16 --soloUMIstart 17 --soloUMIlen 12 --soloCBwhitelist ../ref/3M-february-2018.txt \ --soloFeatures GeneFull_Ex50pAS --outSAMtype BAM SortedByCoordinate \ --outSAMattrRGline 'ID:${readgroup}' 'SM:${readgroup}' 'PL:illumina' --readFilesIn ${reads2} ${reads1} --outFileNamePrefix PBS