{"database": "metadata", "table": "run_metadata", "rows": [[46217, "SRR6506181", "SRX3594765", "SRS2867192", "SRP131362", "PRJNA431371", "Next Generation Sequencing Facilitates Quantitative Analysis of Wild Type and smyd4 mutant zebrafish cardiac transcriptomes", "GSE109553", "Transcriptome Analysis", "Heart tissue mRNA profiles of  50 wild type WT and  50 homozygous smyd4 mutant zebrafish embryos  at 72 hpf created by CRISPR/Cas9 were generated by deep sequencing. Overall design: Heart mRNA profiles of 72 hpf  wild type WT and smdy4 mutant zebrafish were generated by deep sequencing using illumina", null, null, null, "smyd4", "GSM2946171", null, "source name:heart|tissue:heart|strain:Tu|age:72 hpf|genotype:homozygous smyd4 L544Efs*1", "smyd4", "Raw data raw reads of fastq format were firstly processed through in house perl scripts. In this step  clean data clean reads were obtained by removing reads containing adapter  reads containing poly N and low quality reads from raw data. All the downstream analyses were based on the clean data with high quality. Index  of  the  reference  genome  was  built  using  Bowtie  v2.0.6  and paired end clean reads were aligned to the reference genome using TopHat v2.0.9. RPKM of each gene was calculated based on the length of the gene and reads count mapped to  this  gene  considering the effect of sequencing depth and gene length for the reads count at the same time Mortazavi et al.  2008 Genome build: ftp://ftp.ensembl.org/pub/release 89/fasta/danio rerio/dna/ Supplementary files format and content: text file with RPKM", "heart", null, "zebrafish heart were collected  flash frozen on dry ice  and RNA was harvested using Trizol reagent. RNA libraries were prepared for sequencing using standard Illumina protocols", null, "tissue:heart|strain:Tu|age:72 hpf|genotype:homozygous smyd4 L544Efs*1", "GSM2946171", "GSM2946171: smyd4; Danio rerio; RNA Seq", "GSM2946171", null, "1", "zebrafish heart were collected  flash frozen on dry ice  and RNA was harvested using Trizol reagent. 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