ena-STUDY-MAX PLANCK INSTITUTE FOR EVOLUTIONARY BIOLOGY-23-08-2018-16:12:18:063-73
RNA-Seq and whole genome sequencing of the samples from three de novo gene knockout mouse lines and transfected MEFs on C57BL/6 background
The RNA-Seq samples here include 40 heads of postnatal 0.5-day Udng1 pups, 48 12.5-day Udng1 embryos, 40 heads of postnatal 0.5-day Udng2 pups, 24 oviducts of Udng3 females, and 20 transfected mouse embryonic fibroblast (MEF) lines. The unique names follow the rule: [line]_[tissue]_[sample code] or MEF_[sample code]. The whole genome sequencing samples here include the two animals of Udng3 founding pair with unique names Udng3_gDNA_Female and Udng3_gDNA_Male. Detail can be found in the annotation of each sample and the manuscript.   The FASTQ file names follow the rule: [sample information][run]_[sample code]_[ignorable information]_[lane]_[pair information]_[ignorable information].fastq.gz. For example, "1h1_1_S1_L001_R1_001.fastq.gz" means "sample information: Udng1 Head (1h), run: 1, sample code: 1, lane: 1, read pair: 1", "l1_l1_S1_L001_R1_001.fastq.gz" means "sample information: transfected MEFs (l for lacZ overexpression), run: 1, sample code: l1, lane: 1, read pair: 1", and "3g1_G04160-L1_S1_L001_R1_001.fastq.gz" means "sample information: Udng3 genomic DNA (3g), run: 1, sample code: G04160-L1 (female, and G04161-L1 for male), lane: 1, read pair: 1".
The RNA-Seq samples here include 40 heads of postnatal 0.5-day Udng1 pups, 48 12.5-day Udng1 embryos, 40 heads of postnatal 0.5-day Udng2 pups, 24 oviducts of Udng3 females, and 20 transfected mouse embryonic fibroblast (MEF) lines. The unique names follow the rule: [line]_[tissue]_[sample code] or MEF_[sample code]. The whole genome sequencing samples here include the two animals of Udng3 founding pair with unique names Udng3_gDNA_Female and Udng3_gDNA_Male. Detail can be found in the annotation of each sample and the manuscript.   The FASTQ file names follow the rule: [sample information][run]_[sample code]_[ignorable information]_[lane]_[pair information]_[ignorable information].fastq.gz. For example, "1h1_1_S1_L001_R1_001.fastq.gz" means "sample information: Udng1 Head (1h), run: 1, sample code: 1, lane: 1, read pair: 1", "l1_l1_S1_L001_R1_001.fastq.gz" means "sample information: transfected MEFs (l for lacZ overexpression), run: 1, sample code: l1, lane: 1, read pair: 1", and "3g1_G04160-L1_S1_L001_R1_001.fastq.gz" means "sample information: Udng3 genomic DNA (3g), run: 1, sample code: G04160-L1 (female, and G04161-L1 for male), lane: 1, read pair: 1".