{"database": "metadata", "table": "run_metadata", "is_view": false, "human_description_en": "where experiment.library_selection = \"RANDOM\", technology = \"unknown\" and tissue_curation_coarse = \"Sensory System\"", "rows": [[57197, "SRR11267492", "SRX7874162", "SRS6282467", "SRP252014", "PRJNA611476", "RNAseq between mutant and wild type zebrafish at different developmental stages", "PRJNA611476", "Other", null, null, null, null, null, "ME wt 3", null, "strain:Abtu|ecotype:wild type|dev stage:adult|sex:male|tissue:eye|replicate:biological replicate 3|BioSampleModel:Model organism or animal", null, null, null, null, null, null, null, null, "wild type male eyes replicate 3", "ME wt 3", "ME wt 3", "common method", null, null, "RNA-Seq", "TRANSCRIPTOMIC", "RANDOM", "PAIRED", "ILLUMINA", "Illumina HiSeq 2000", null, "SRP252014", null, null, "s-23-W3ME_RRA121665-V_2.fq.gz s-23-W3ME_RRA121665-V_1.fq.gz", "fastq fastq", 8400228000.0, 28000760.0, "s 23 W3ME RRA121665 V 1.fq.gz", "0:150 1:150", "A:2303053910;C:1920194253;G:1910340116;T:2266331748;N:307973", 150, 150, null, null, 2303053910, 1920194253, 1910340116, 2266331748, 307973, "SRX7874162", "SRS6282467", "SRA1052323", "Sun Yat-sen University|College of Life Sciences", "Sun Yat-sen University", 2, 0.93001, 0.92886, 0.11082, 0.10982, 0.68866, 0.68822, 0.48763, 0.4906, 150, 150, "B", "B", "biological fallback assumption", "illumina", "hiseq_era", "unknown", "random_priming", "unknown", "bulk", "unknown", "unknown", null, "China", "2020-03-09", "Adult", "Adult", "Eye", "Sensory System"], [57198, "SRR11267493", "SRX7874161", "SRS6282466", "SRP252014", "PRJNA611476", "RNAseq between mutant and wild type zebrafish at different developmental stages", "PRJNA611476", "Other", null, null, null, null, null, "ME wt 2", null, "strain:Abtu|ecotype:wild type|dev stage:adult|sex:male|tissue:eye|replicate:biological replicate 2|BioSampleModel:Model organism or animal", null, null, null, null, null, null, null, null, "wild type male eyes replicate 2", "ME wt 2", "ME wt 2", "common method", null, null, "RNA-Seq", "TRANSCRIPTOMIC", "RANDOM", "PAIRED", "ILLUMINA", "Illumina HiSeq 2000", null, "SRP252014", null, null, "s-19-W2ME_RRA121661-V_1.fq.gz s-19-W2ME_RRA121661-V_2.fq.gz", "fastq fastq", 6889800000.0, 22966000.0, "s 19 W2ME RRA121661 V 1.fq.gz", "0:150 1:150", "A:1880210832;C:1583780885;G:1578593218;T:1846963840;N:251225", 150, 150, null, null, 1880210832, 1583780885, 1578593218, 1846963840, 251225, "SRX7874161", "SRS6282466", "SRA1052323", "Sun Yat-sen University|College of Life Sciences", "Sun Yat-sen University", 2, 0.9279, 0.92649, 0.10311, 0.10204, 0.68532, 0.68647, 0.48037, 0.48511, 150, 150, "B", "B", "biological fallback assumption", "illumina", "hiseq_era", "unknown", "random_priming", "unknown", "bulk", "unknown", "unknown", null, "China", "2020-03-09", "Adult", "Adult", "Eye", "Sensory System"], [57199, "SRR11267494", "SRX7874160", "SRS6282464", "SRP252014", "PRJNA611476", "RNAseq between mutant and wild type zebrafish at different developmental stages", "PRJNA611476", "Other", null, null, null, null, null, "ME wt 1", null, "strain:Abtu|ecotype:wild type|dev stage:adult|sex:male|tissue:eye|replicate:biological replicate 1|BioSampleModel:Model organism or animal", null, null, null, null, null, null, null, null, "wild type male eyes replicate 1", "ME wt 1", "ME wt 1", "common method", null, null, "RNA-Seq", "TRANSCRIPTOMIC", "RANDOM", "PAIRED", "ILLUMINA", "Illumina HiSeq 2000", null, "SRP252014", null, null, "s-15-W1ME_RRA121657-V_2.fq.gz s-15-W1ME_RRA121657-V_1.fq.gz", "fastq fastq", 6969091200.0, 23230304.0, "s 15 W1ME RRA121657 V 1.fq.gz", "0:150 1:150", "A:1921340190;C:1585088835;G:1576239642;T:1886167585;N:254948", 150, 150, null, null, 1921340190, 1585088835, 1576239642, 1886167585, 254948, "SRX7874160", "SRS6282464", "SRA1052323", "Sun Yat-sen University|College of Life Sciences", "Sun Yat-sen University", 2, 0.92763, 0.92509, 0.11658, 0.11517, 0.68432, 0.68653, 0.4946, 0.49155, 150, 150, "B", "B", "biological fallback assumption", "illumina", "hiseq_era", "unknown", "random_priming", "unknown", "bulk", "unknown", "unknown", null, "China", "2020-03-09", "Adult", "Adult", "Eye", "Sensory System"], [57200, "SRR11267495", "SRX7874159", "SRS6282465", "SRP252014", "PRJNA611476", "RNAseq between mutant and wild type zebrafish at different developmental stages", "PRJNA611476", "Other", null, null, null, null, null, "ME mut 3", null, "strain:Abtu|ecotype:mutant|dev stage:adult|sex:male|tissue:eye|replicate:biological replicate 3|BioSampleModel:Model organism or animal", null, null, null, null, null, null, null, null, "mutant male eyes replicate 3", "ME mut 3", "ME mut 3", "common method", null, null, "RNA-Seq", "TRANSCRIPTOMIC", "RANDOM", "PAIRED", "ILLUMINA", "Illumina HiSeq 2000", null, "SRP252014", null, null, "s-11-MU3ME_RRA121653-V_1.fq.gz s-11-MU3ME_RRA121653-V_2.fq.gz", "fastq fastq", 6875632800.0, 22918776.0, "s 11 MU3ME RRA121653 V 1.fq.gz", "0:150 1:150", "A:1901087754;C:1556469824;G:1548197705;T:1869624741;N:252776", 150, 150, null, null, 1901087754, 1556469824, 1548197705, 1869624741, 252776, "SRX7874159", "SRS6282465", "SRA1052323", "Sun Yat-sen University|College of Life Sciences", "Sun Yat-sen University", 2, 0.92604, 0.92413, 0.11832, 0.11725, 0.67748, 0.67949, 0.49008, 0.49228, 150, 150, "B", "B", "biological fallback assumption", "illumina", "hiseq_era", "unknown", "random_priming", "unknown", "bulk", "unknown", "unknown", null, "China", "2020-03-09", "Adult", "Adult", "Eye", "Sensory System"], [57201, "SRR11267496", "SRX7874158", "SRS6282463", "SRP252014", "PRJNA611476", "RNAseq between mutant and wild type zebrafish at different developmental stages", "PRJNA611476", "Other", null, null, null, null, null, "ME mut 2", null, "strain:Abtu|ecotype:mutant|dev stage:adult|sex:male|tissue:eye|replicate:biological replicate 2|BioSampleModel:Model organism or animal", null, null, null, null, null, null, null, null, "mutant male eyes replicate 2", "ME mut 2", "ME mut 2", "common method", null, null, "RNA-Seq", "TRANSCRIPTOMIC", "RANDOM", "PAIRED", "ILLUMINA", "Illumina HiSeq 2000", null, "SRP252014", null, null, "s-7-MU2ME_RRA121649-V_1.fq.gz s-7-MU2ME_RRA121649-V_2.fq.gz", "fastq fastq", 6847404900.0, 22824683.0, "s 7 MU2ME RRA121649 V 1.fq.gz", "0:150 1:150", "A:1892928093;C:1547660086;G:1542947611;T:1863669155;N:199955", 150, 150, null, null, 1892928093, 1547660086, 1542947611, 1863669155, 199955, "SRX7874158", "SRS6282463", "SRA1052323", "Sun Yat-sen University|College of Life Sciences", "Sun Yat-sen University", 2, 0.9251, 0.92453, 0.12038, 0.11934, 0.68363, 0.68381, 0.49355, 0.49262, 150, 150, "B", "B", "biological fallback assumption", "illumina", "hiseq_era", "unknown", "random_priming", "unknown", "bulk", "unknown", "unknown", null, "China", "2020-03-09", "Adult", "Adult", "Eye", "Sensory System"], [57202, "SRR11267497", "SRX7874157", "SRS6282462", "SRP252014", "PRJNA611476", "RNAseq between mutant and wild type zebrafish at different developmental stages", "PRJNA611476", "Other", null, null, null, null, null, "ME mut 1", null, "strain:Abtu|ecotype:mutant|dev stage:adult|sex:male|tissue:eye|replicate:biological replicate 1|BioSampleModel:Model organism or animal", null, null, null, null, null, null, null, null, "mutant male eyes replicate 1", "ME mut 1", "ME mut 1", "common method", null, null, "RNA-Seq", "TRANSCRIPTOMIC", "RANDOM", "PAIRED", "ILLUMINA", "Illumina HiSeq 2000", null, "SRP252014", null, null, "s-3-MU1ME_RRA121645-V_1.fq.gz s-3-MU1ME_RRA121645-V_2.fq.gz", "fastq fastq", 6878336700.0, 22927789.0, "s 3 MU1ME RRA121645 V 1.fq.gz", "0:150 1:150", "A:1905585865;C:1552515358;G:1547182571;T:1872802386;N:250520", 150, 150, null, null, 1905585865, 1552515358, 1547182571, 1872802386, 250520, "SRX7874157", "SRS6282462", "SRA1052323", "Sun Yat-sen University|College of Life Sciences", "Sun Yat-sen University", 2, 0.92648, 0.92449, 0.12124, 0.11959, 0.68688, 0.68996, 0.48933, 0.48791, 150, 150, "B", "B", "biological fallback assumption", "illumina", "hiseq_era", "unknown", "random_priming", "unknown", "bulk", "unknown", "unknown", null, "China", "2020-03-09", "Adult", "Adult", "Eye", "Sensory System"], [57210, "SRR11267505", "SRX7874149", "SRS6282454", "SRP252014", "PRJNA611476", "RNAseq between mutant and wild type zebrafish at different developmental stages", "PRJNA611476", "Other", null, null, null, null, null, "FE wt 3", null, "strain:Abtu|ecotype:wild type|dev stage:adult|sex:female|tissue:eye|replicate:biological replicate 3|BioSampleModel:Model organism or animal", null, null, null, null, null, null, null, null, "wild type female eyes replicate 3", "FE wt 3", "FE wt 3", "common method", null, null, "RNA-Seq", "TRANSCRIPTOMIC", "RANDOM", "PAIRED", "ILLUMINA", "Illumina HiSeq 2000", null, "SRP252014", null, null, "s-21-W3FE_RRA121663-V_2.fq.gz s-21-W3FE_RRA121663-V_1.fq.gz", "fastq fastq", 7633204500.0, 25444015.0, "s 21 W3FE RRA121663 V 1.fq.gz", "0:150 1:150", "A:2091516097;C:1748144881;G:1739108541;T:2054153967;N:281014", 150, 150, null, null, 2091516097, 1748144881, 1739108541, 2054153967, 281014, "SRX7874149", "SRS6282454", "SRA1052323", "Sun Yat-sen University|College of Life Sciences", "Sun Yat-sen University", 2, 0.9346, 0.93156, 0.11275, 0.11113, 0.69027, 0.69436, 0.47761, 0.47697, 150, 150, "B", "B", "biological fallback assumption", "illumina", "hiseq_era", "unknown", "random_priming", "unknown", "bulk", "unknown", "unknown", null, "China", "2020-03-09", "Adult", "Adult", "Eye", "Sensory System"], [57211, "SRR11267506", "SRX7874148", "SRS6282453", "SRP252014", "PRJNA611476", "RNAseq between mutant and wild type zebrafish at different developmental stages", "PRJNA611476", "Other", null, null, null, null, null, "FE wt 2", null, "strain:Abtu|ecotype:wild type|dev stage:adult|sex:female|tissue:eye|replicate:biological replicate 2|BioSampleModel:Model organism or animal", null, null, null, null, null, null, null, null, "wild type female eyes replicate 2", "FE wt 2", "FE wt 2", "common method", null, null, "RNA-Seq", "TRANSCRIPTOMIC", "RANDOM", "PAIRED", "ILLUMINA", "Illumina HiSeq 2000", null, "SRP252014", null, null, "s-17-W2FE_RRA121659-V_1.fq.gz s-17-W2FE_RRA121659-V_2.fq.gz", "fastq fastq", 6558727800.0, 21862426.0, "s 17 W2FE RRA121659 V 1.fq.gz", "0:150 1:150", "A:1802562905;C:1497351051;G:1488752362;T:1769827486;N:233996", 150, 150, null, null, 1802562905, 1497351051, 1488752362, 1769827486, 233996, "SRX7874148", "SRS6282453", "SRA1052323", "Sun Yat-sen University|College of Life Sciences", "Sun Yat-sen University", 2, 0.92878, 0.92365, 0.11321, 0.11111, 0.68517, 0.68872, 0.49201, 0.48744, 150, 150, "B", "B", "biological fallback assumption", "illumina", "hiseq_era", "unknown", "random_priming", "unknown", "bulk", "unknown", "unknown", null, "China", "2020-03-09", "Adult", "Adult", "Eye", "Sensory System"], [57212, "SRR11267507", "SRX7874147", "SRS6282451", "SRP252014", "PRJNA611476", "RNAseq between mutant and wild type zebrafish at different developmental stages", "PRJNA611476", "Other", null, null, null, null, null, "FE wt 1", null, "strain:Abtu|ecotype:wild type|dev stage:adult|sex:female|tissue:eye|replicate:biological replicate 1|BioSampleModel:Model organism or animal", null, null, null, null, null, null, null, null, "wild type female eyes replicate 1", "FE wt 1", "FE wt 1", "common method", null, null, "RNA-Seq", "TRANSCRIPTOMIC", "RANDOM", "PAIRED", "ILLUMINA", "Illumina HiSeq 2000", null, "SRP252014", null, null, "s-13-W1FE_RRA121655-V_1.fq.gz s-13-W1FE_RRA121655-V_2.fq.gz", "fastq fastq", 8123083800.0, 27076946.0, "s 13 W1FE RRA121655 V 1.fq.gz", "0:150 1:150", "A:2228184139;C:1856303514;G:1847105654;T:2191192871;N:297622", 150, 150, null, null, 2228184139, 1856303514, 1847105654, 2191192871, 297622, "SRX7874147", "SRS6282451", "SRA1052323", "Sun Yat-sen University|College of Life Sciences", "Sun Yat-sen University", 2, 0.92966, 0.92938, 0.1125, 0.11144, 0.68678, 0.68777, 0.48758, 0.48653, 150, 150, "B", "B", "biological fallback assumption", "illumina", "hiseq_era", "unknown", "random_priming", "unknown", "bulk", "unknown", "unknown", null, "China", "2020-03-09", "Adult", "Adult", "Eye", "Sensory System"], [57213, "SRR11267508", "SRX7874146", "SRS6282450", "SRP252014", "PRJNA611476", "RNAseq between mutant and wild type zebrafish at different developmental stages", "PRJNA611476", "Other", null, null, null, null, null, "FE mut 3", null, "strain:Abtu|ecotype:mutant|dev stage:adult|sex:female|tissue:eye|replicate:biological replicate 3|BioSampleModel:Model organism or animal", null, null, null, null, null, null, null, null, "mutant female eyes replicate 3", "FE mut 3", "FE mut 3", "common method", null, null, "RNA-Seq", "TRANSCRIPTOMIC", "RANDOM", "PAIRED", "ILLUMINA", "Illumina HiSeq 2000", null, "SRP252014", null, null, "s-9-MU3FE_RRA121651-V_1.fq.gz s-9-MU3FE_RRA121651-V_2.fq.gz", "fastq fastq", 6656295300.0, 22187651.0, "s 9 MU3FE RRA121651 V 1.fq.gz", "0:150 1:150", "A:1847801770;C:1499187682;G:1491392362;T:1817671236;N:242250", 150, 150, null, null, 1847801770, 1499187682, 1491392362, 1817671236, 242250, "SRX7874146", "SRS6282450", "SRA1052323", "Sun Yat-sen University|College of Life Sciences", "Sun Yat-sen University", 2, 0.92627, 0.92542, 0.122, 0.12099, 0.68067, 0.68166, 0.48197, 0.48852, 150, 150, "B", "B", "biological fallback assumption", "illumina", "hiseq_era", "unknown", "random_priming", "unknown", "bulk", "unknown", "unknown", null, "China", "2020-03-09", "Adult", "Adult", "Eye", "Sensory System"], [57214, "SRR11267509", "SRX7874145", "SRS6282449", "SRP252014", "PRJNA611476", "RNAseq between mutant and wild type zebrafish at different developmental stages", "PRJNA611476", "Other", null, null, null, null, null, "FE mut 2", null, "strain:Abtu|ecotype:mutant|dev stage:adult|sex:female|tissue:eye|replicate:biological replicate 2|BioSampleModel:Model organism or animal", null, null, null, null, null, null, null, null, "mutant female eyes replicate 2", "FE mut 2", "FE mut 2", "common method", null, null, "RNA-Seq", "TRANSCRIPTOMIC", "RANDOM", "PAIRED", "ILLUMINA", "Illumina HiSeq 2000", null, "SRP252014", null, null, "s-5-MU2FE_RRA121647-V_1.fq.gz s-5-MU2FE_RRA121647-V_2.fq.gz", "fastq fastq", 7413634500.0, 24712115.0, "s 5 MU2FE RRA121647 V 1.fq.gz", "0:150 1:150", "A:2065563537;C:1663387773;G:1656105625;T:2028307360;N:270205", 150, 150, null, null, 2065563537, 1663387773, 1656105625, 2028307360, 270205, "SRX7874145", "SRS6282449", "SRA1052323", "Sun Yat-sen University|College of Life Sciences", "Sun Yat-sen University", 2, 0.92762, 0.92397, 0.12723, 0.12529, 0.68984, 0.694, 0.49347, 0.47963, 150, 150, "B", "B", "biological fallback assumption", "illumina", "hiseq_era", "unknown", "random_priming", "unknown", "bulk", "unknown", "unknown", null, "China", "2020-03-09", "Adult", "Adult", "Eye", "Sensory System"], [57215, "SRR11267510", "SRX7874144", "SRS6282452", "SRP252014", "PRJNA611476", "RNAseq between mutant and wild type zebrafish at different developmental stages", "PRJNA611476", "Other", null, null, null, null, null, "FE mut 1", null, "strain:Abtu|ecotype:mutant|dev stage:adult|sex:female|tissue:eye|replicate:biological replicate 1|BioSampleModel:Model organism or animal", null, null, null, null, null, null, null, null, "mutant female eyes replicate 1", "FE mut 1", "FE mut 1", "common method", null, null, "RNA-Seq", "TRANSCRIPTOMIC", "RANDOM", "PAIRED", "ILLUMINA", "Illumina HiSeq 2000", null, "SRP252014", null, null, "s-1-MU1FE_RRA121643-V_1.fq.gz s-1-MU1FE_RRA121643-V_2.fq.gz", "fastq fastq", 6864021300.0, 22880071.0, "s 1 MU1FE RRA121643 V 1.fq.gz", "0:150 1:150", "A:1901112450;C:1549381718;G:1544210321;T:1869066007;N:250804", 150, 150, null, null, 1901112450, 1549381718, 1544210321, 1869066007, 250804, "SRX7874144", "SRS6282452", "SRA1052323", "Sun Yat-sen University|College of Life Sciences", "Sun Yat-sen University", 2, 0.92425, 0.92283, 0.12022, 0.1186, 0.68613, 0.68716, 0.48698, 0.49353, 150, 150, "B", "B", "biological fallback assumption", "illumina", "hiseq_era", "unknown", "random_priming", "unknown", "bulk", "unknown", "unknown", null, "China", "2020-03-09", "Adult", "Adult", "Eye", "Sensory System"], [60824, "SRR12536647", "SRX9026398", "SRS7277848", "SRP279118", "PRJNA659812", "Defects in the zonule in loxl1 knock out zebrafish", "PRJNA659812", "Other", "Purposes: To investigate the roles of lysyl oxidase like 1 loxl1 in zebrafish eye development and the potency of loxl1 knock out in mimicking the ocular manifestations of Exfoliation Syndrome.Methods: CRISPR/Cas9 technology was used to generate a frameshift deletion shifting code deletion in zebrafish loxl1. Expression profiles and ocular manifestations of wildtype WT  heterozygous mutant loxl1+/  and homozygous mutant loxl1 /  zebrafish were analyzed in a range of developmental stages from whole zebrafish larvae to dissected adult zebrafish eyes using western blot  immunofluorescence  real time RT PCR and transcriptome resequencing analysis RNA seq. Scanning electron microscopy SEM was used to study the zonular structure and corneal fiber organization of adult zebrafish eyes.Results: The loxl1 mutation caused zonular bundling disorders in juvenile zebrafish and accumulation of pearl like particles adhering to the adult zebrafish zonule. SEM revealed more numerous particles  but of smaller size in loxl1 /  zebrafish compared with those in loxl1+/   although light microscopy showed that the overall staining of the zonule in loxl1+/  was darker than that in loxl1 / . Expression of transforming growth factor b tgfb pathway related proteins changed at the protein level  but not the mRNA level. The phosphorylated Smad3 pSmad3 level was locally activated in the iris side trabecular meshwork and ciliary body of loxl1 /  adults.Conclusions: Defects in the zonular bundling found in loxl1 knock out zebrafish indicate dysplasia. Compared with adult loxl1+/  zebrafish  more numerous but smaller pearl like particles adhered to the zonule in adult loxl1 /  zebrafish. loxl1 /  zebrafish is a promising animal model of XFS zonular pathology.", null, null, null, null, "6 adult loxl / ", null, "strain:AB|dev stage:1 ypf|sex:male|tissue:eye|source material id:6|BioSampleModel:Model organism or animal", null, null, null, null, null, null, null, null, "1ypf ko", "loxl1 zebrafish6", "loxl1 zebrafish6", "materials and methods", null, null, "RNA-Seq", "TRANSCRIPTOMIC", "RANDOM", "SINGLE", "ILLUMINA", "Illumina HiSeq 4000", null, "SRP279118", null, null, "adult_ko_20190906N_CATCAAGT_S103_L002_R1_001.fastq.gz adult_ko_20190906N_CATCAAGT_S103_L002_R2_001.fastq.gz", "fastq fastq", 6375468848.0, 21110824.0, "adult ko 20190906N CATCAAGT S103 L002 R1 001.fastq.gz", "0:151 1:151", "A:1747106542;C:1437833414;G:1463260029;T:1727177401;N:91462", 151, 151, null, null, 1747106542, 1437833414, 1463260029, 1727177401, 91462, "SRX9026398", "SRS7277848", "SRA1118248", "Eye and ENT Hospital of Fudan University|Ophthalmology and Vision Science", "Eye and ENT Hospital of Fudan University", 2, 0.95303, 0.94195, 0.08955, 0.0854, 0.68878, 0.69059, 0.50285, 0.51191, 151, 151, "B", "B", "biological fallback assumption", "illumina", "hiseq_era", "unknown", "random_priming", "unknown", "bulk", "unknown", "unknown", null, "China", "2020-08-27", "Adult", "Adult", "Eye", "Sensory System"], [60825, "SRR12536648", "SRX9026397", "SRS7277847", "SRP279118", "PRJNA659812", "Defects in the zonule in loxl1 knock out zebrafish", "PRJNA659812", "Other", "Purposes: To investigate the roles of lysyl oxidase like 1 loxl1 in zebrafish eye development and the potency of loxl1 knock out in mimicking the ocular manifestations of Exfoliation Syndrome.Methods: CRISPR/Cas9 technology was used to generate a frameshift deletion shifting code deletion in zebrafish loxl1. Expression profiles and ocular manifestations of wildtype WT  heterozygous mutant loxl1+/  and homozygous mutant loxl1 /  zebrafish were analyzed in a range of developmental stages from whole zebrafish larvae to dissected adult zebrafish eyes using western blot  immunofluorescence  real time RT PCR and transcriptome resequencing analysis RNA seq. Scanning electron microscopy SEM was used to study the zonular structure and corneal fiber organization of adult zebrafish eyes.Results: The loxl1 mutation caused zonular bundling disorders in juvenile zebrafish and accumulation of pearl like particles adhering to the adult zebrafish zonule. SEM revealed more numerous particles  but of smaller size in loxl1 /  zebrafish compared with those in loxl1+/   although light microscopy showed that the overall staining of the zonule in loxl1+/  was darker than that in loxl1 / . Expression of transforming growth factor b tgfb pathway related proteins changed at the protein level  but not the mRNA level. The phosphorylated Smad3 pSmad3 level was locally activated in the iris side trabecular meshwork and ciliary body of loxl1 /  adults.Conclusions: Defects in the zonular bundling found in loxl1 knock out zebrafish indicate dysplasia. Compared with adult loxl1+/  zebrafish  more numerous but smaller pearl like particles adhered to the zonule in adult loxl1 /  zebrafish. loxl1 /  zebrafish is a promising animal model of XFS zonular pathology.", null, null, null, null, "5 adult loxl1+/ ", null, "strain:AB|dev stage:1 ypf|sex:male|tissue:eye|source material id:5|BioSampleModel:Model organism or animal", null, null, null, null, null, null, null, null, "1ypf het", "loxl1 zebrafish5", "loxl1 zebrafish5", "materials and methods", null, null, "RNA-Seq", "TRANSCRIPTOMIC", "RANDOM", "SINGLE", "ILLUMINA", "Illumina HiSeq 4000", null, "SRP279118", null, null, "adult_het_20190906N_CAGATCTG_S102_L002_R1_001.fastq.gz adult_het_20190906N_CAGATCTG_S102_L002_R2_001.fastq.gz", "fastq fastq", 6391126944.0, 21162672.0, "adult het 20190906N CAGATCTG S102 L002 R1 001.fastq.gz", "0:151 1:151", "A:1751058342;C:1440125694;G:1472861826;T:1726988667;N:92415", 151, 151, null, null, 1751058342, 1440125694, 1472861826, 1726988667, 92415, "SRX9026397", "SRS7277847", "SRA1118248", "Eye and ENT Hospital of Fudan University|Ophthalmology and Vision Science", "Eye and ENT Hospital of Fudan University", 2, 0.95672, 0.94643, 0.08558, 0.08353, 0.71407, 0.71453, 0.50434, 0.50279, 151, 151, "B", "B", "biological fallback assumption", "illumina", "hiseq_era", "unknown", "random_priming", "unknown", "bulk", "unknown", "unknown", null, "China", "2020-08-27", "Adult", "Adult", "Eye", "Sensory System"], [60826, "SRR12536649", "SRX9026396", "SRS7277846", "SRP279118", "PRJNA659812", "Defects in the zonule in loxl1 knock out zebrafish", "PRJNA659812", "Other", "Purposes: To investigate the roles of lysyl oxidase like 1 loxl1 in zebrafish eye development and the potency of loxl1 knock out in mimicking the ocular manifestations of Exfoliation Syndrome.Methods: CRISPR/Cas9 technology was used to generate a frameshift deletion shifting code deletion in zebrafish loxl1. Expression profiles and ocular manifestations of wildtype WT  heterozygous mutant loxl1+/  and homozygous mutant loxl1 /  zebrafish were analyzed in a range of developmental stages from whole zebrafish larvae to dissected adult zebrafish eyes using western blot  immunofluorescence  real time RT PCR and transcriptome resequencing analysis RNA seq. Scanning electron microscopy SEM was used to study the zonular structure and corneal fiber organization of adult zebrafish eyes.Results: The loxl1 mutation caused zonular bundling disorders in juvenile zebrafish and accumulation of pearl like particles adhering to the adult zebrafish zonule. SEM revealed more numerous particles  but of smaller size in loxl1 /  zebrafish compared with those in loxl1+/   although light microscopy showed that the overall staining of the zonule in loxl1+/  was darker than that in loxl1 / . Expression of transforming growth factor b tgfb pathway related proteins changed at the protein level  but not the mRNA level. The phosphorylated Smad3 pSmad3 level was locally activated in the iris side trabecular meshwork and ciliary body of loxl1 /  adults.Conclusions: Defects in the zonular bundling found in loxl1 knock out zebrafish indicate dysplasia. Compared with adult loxl1+/  zebrafish  more numerous but smaller pearl like particles adhered to the zonule in adult loxl1 /  zebrafish. loxl1 /  zebrafish is a promising animal model of XFS zonular pathology.", null, null, null, null, "4 adult wildtype", null, "strain:AB|dev stage:1 ypf|sex:male|tissue:eye|source material id:4|BioSampleModel:Model organism or animal", null, null, null, null, null, null, null, null, "1ypf wt", "loxl1 zebrafish4", "loxl1 zebrafish4", "materials and methods", null, null, "RNA-Seq", "TRANSCRIPTOMIC", "RANDOM", "SINGLE", "ILLUMINA", "Illumina HiSeq 4000", null, "SRP279118", null, null, "adult_AB_20190906N_CGCTGATC_S104_L002_R1_001.fastq.gz adult_AB_20190906N_CGCTGATC_S104_L002_R2_001.fastq.gz", "fastq fastq", 6690909660.0, 22155330.0, "adult AB 20190906N CGCTGATC S104 L002 R1 001.fastq.gz", "0:151 1:151", "A:1830753418;C:1510385285;G:1545899899;T:1803773823;N:97235", 151, 151, null, null, 1830753418, 1510385285, 1545899899, 1803773823, 97235, "SRX9026396", "SRS7277846", "SRA1118248", "Eye and ENT Hospital of Fudan University|Ophthalmology and Vision Science", "Eye and ENT Hospital of Fudan University", 2, 0.95751, 0.94513, 0.08301, 0.08009, 0.71429, 0.71494, 0.51024, 0.49771, 151, 151, "B", "B", "biological fallback assumption", "illumina", "hiseq_era", "unknown", "random_priming", "unknown", "bulk", "unknown", "unknown", null, "China", "2020-08-27", "Adult", "Adult", "Eye", "Sensory System"], [67527, "SRR17221754", "SRX13401340", "SRS11304399", "SRP350597", "PRJNA787536", "Danio rerio Raw sequence reads", "PRJNA787536", "Other", "RNA seq data from adult retina tissue obtained from wild type and cep290 mutant zebrafish at 6 mpf.", null, null, null, null, "cep290 retina 4", null, "strain:AB/Ekwill hybrid|isolate:Single individual retina|breed:N/A|cultivar:N/A|ecotype:N/A|age:6 mpf stage:Adult|sex:unknown|tissue:Retina|birth date:2020 09 02|collected by:Sarah Grabinski|collection date:2021 04 24|genotype:cep290|Biological replicates:4|BioSampleModel:Model organism or animal", null, null, null, null, null, null, null, null, "RNA seq of 6 mpf adult zebrafish cep290 mutant retina", "GC SG 620 8", "GC SG 620 8", "RNA isolated from single retina prepared using Illumina stranded mRNA kits", null, null, "RNA-Seq", "TRANSCRIPTOMIC", "RANDOM", "PAIRED", "ILLUMINA", "Illumina NovaSeq 6000", null, "SRP350597", null, null, "GC.SG.620_8_S8_L001_R1_001.fastq.gz GC.SG.620_8_S8_L001_R2_001.fastq.gz", "fastq fastq", 38697433494.0, 128137197.0, "GC.SG.620 8 S8 L001 R1 001.fastq.gz", "0:151 1:151", "A:10897381553;C:8539501524;G:8224720333;T:11035084087;N:745997", 151, 151, null, null, 10897381553, 8539501524, 8224720333, 11035084087, 745997, "SRX13401340", "SRS11304399", "SRA1342775", "Cleveland Clinic|Ophthalmic Research", "Cleveland Clinic", 2, 0.66646, 0.66004, 0.33083, 0.32152, 0.77684, 0.77871, 0.51619, 0.52281, 151, 151, "B", "B", "biological fallback assumption", "illumina", "novaseq_era", "unknown", "random_priming", "trueseq", "bulk", "unknown", "unknown", null, "United States", "2021-12-13", "Adult", "Adult", "Eye", "Sensory System"], [67528, "SRR17221755", "SRX13401339", "SRS11304398", "SRP350597", "PRJNA787536", "Danio rerio Raw sequence reads", "PRJNA787536", "Other", "RNA seq data from adult retina tissue obtained from wild type and cep290 mutant zebrafish at 6 mpf.", null, null, null, null, "cep290 retina 3", null, "strain:AB/Ekwill hybrid|isolate:Single individual retina|breed:N/A|cultivar:N/A|ecotype:N/A|age:6 mpf stage:Adult|sex:unknown|tissue:Retina|birth date:2020 09 02|collected by:Sarah Grabinski|collection date:2021 04 24|genotype:cep290|Biological replicates:3|BioSampleModel:Model organism or animal", null, null, null, null, null, null, null, null, "RNA seq of 6 mpf adult zebrafish cep290 mutant retina", "GC SG 620 7", "GC SG 620 7", "RNA isolated from single retina prepared using Illumina stranded mRNA kits", null, null, "RNA-Seq", "TRANSCRIPTOMIC", "RANDOM", "PAIRED", "ILLUMINA", "Illumina NovaSeq 6000", null, "SRP350597", null, null, "GC.SG.620_7_S7_L001_R1_001.fastq.gz GC.SG.620_7_S7_L001_R2_001.fastq.gz", "fastq fastq", 40407223708.0, 133798754.0, "GC.SG.620 7 S7 L001 R1 001.fastq.gz", "0:151 1:151", "A:11339805352;C:9005002277;G:8600624695;T:11460947185;N:844199", 151, 151, null, null, 11339805352, 9005002277, 8600624695, 11460947185, 844199, "SRX13401339", "SRS11304398", "SRA1342775", "Cleveland Clinic|Ophthalmic Research", "Cleveland Clinic", 2, 0.65733, 0.65156, 0.33459, 0.32709, 0.77952, 0.78007, 0.53039, 0.51873, 151, 151, "B", "B", "biological fallback assumption", "illumina", "novaseq_era", "unknown", "random_priming", "trueseq", "bulk", "unknown", "unknown", null, "United States", "2021-12-13", "Adult", "Adult", "Eye", "Sensory System"], [67529, "SRR17221756", "SRX13401338", "SRS11304397", "SRP350597", "PRJNA787536", "Danio rerio Raw sequence reads", "PRJNA787536", "Other", "RNA seq data from adult retina tissue obtained from wild type and cep290 mutant zebrafish at 6 mpf.", null, null, null, null, "cep290 retina 2", null, "strain:AB/Ekwill hybrid|isolate:Single individual retina|breed:N/A|cultivar:N/A|ecotype:N/A|age:6 mpf stage:Adult|sex:unknown|tissue:Retina|birth date:2020 09 02|collected by:Sarah Grabinski|collection date:2021 04 24|genotype:cep290|Biological replicates:2|BioSampleModel:Model organism or animal", null, null, null, null, null, null, null, null, "RNA seq of 6 mpf adult zebrafish cep290 mutant retina", "GC SG 620 6", "GC SG 620 6", "RNA isolated from single retina prepared using Illumina stranded mRNA kits", null, null, "RNA-Seq", "TRANSCRIPTOMIC", "RANDOM", "PAIRED", "ILLUMINA", "Illumina NovaSeq 6000", null, "SRP350597", null, null, "GC.SG.620_6_S6_L001_R1_001.fastq.gz GC.SG.620_6_S6_L001_R2_001.fastq.gz", "fastq fastq", 35177430214.0, 116481557.0, "GC.SG.620 6 S6 L001 R1 001.fastq.gz", "0:151 1:151", "A:9864372223;C:7781916441;G:7479621981;T:10050875158;N:644411", 151, 151, null, null, 9864372223, 7781916441, 7479621981, 10050875158, 644411, "SRX13401338", "SRS11304397", "SRA1342775", "Cleveland Clinic|Ophthalmic Research", "Cleveland Clinic", 2, 0.66029, 0.65697, 0.32728, 0.32142, 0.7783, 0.77522, 0.53642, 0.5381, 151, 151, "B", "B", "biological fallback assumption", "illumina", "novaseq_era", "unknown", "random_priming", "trueseq", "bulk", "unknown", "unknown", null, "United States", "2021-12-13", "Adult", "Adult", "Eye", "Sensory System"], [67530, "SRR17221757", "SRX13401337", "SRS11304396", "SRP350597", "PRJNA787536", "Danio rerio Raw sequence reads", "PRJNA787536", "Other", "RNA seq data from adult retina tissue obtained from wild type and cep290 mutant zebrafish at 6 mpf.", null, null, null, null, "cep290 retina 1", null, "strain:AB/Ekwill hybrid|isolate:Single individual retina|breed:N/A|cultivar:N/A|ecotype:N/A|age:6 mpf stage:Adult|sex:unknown|tissue:Retina|birth date:2020 09 02|collected by:Sarah Grabinski|collection date:2021 04 24|genotype:cep290|Biological replicates:1|BioSampleModel:Model organism or animal", null, null, null, null, null, null, null, null, "RNA seq of 6 mpf adult zebrafish cep290 mutant retina", "GC SG 620 5", "GC SG 620 5", "RNA isolated from single retina prepared using Illumina stranded mRNA kits", null, null, "RNA-Seq", "TRANSCRIPTOMIC", "RANDOM", "PAIRED", "ILLUMINA", "Illumina NovaSeq 6000", null, "SRP350597", null, null, "GC.SG.620_5_S5_L001_R1_001.fastq.gz GC.SG.620_5_S5_L001_R2_001.fastq.gz", "fastq fastq", 38272092466.0, 126728783.0, "GC.SG.620 5 S5 L001 R1 001.fastq.gz", "0:151 1:151", "A:10830892004;C:8426926025;G:8067309850;T:10946162775;N:801812", 151, 151, null, null, 10830892004, 8426926025, 8067309850, 10946162775, 801812, "SRX13401337", "SRS11304396", "SRA1342775", "Cleveland Clinic|Ophthalmic Research", "Cleveland Clinic", 2, 0.65684, 0.64515, 0.33008, 0.31832, 0.78031, 0.78194, 0.53178, 0.53091, 151, 151, "B", "B", "biological fallback assumption", "illumina", "novaseq_era", "unknown", "random_priming", "trueseq", "bulk", "unknown", "unknown", null, "United States", "2021-12-13", "Adult", "Adult", "Eye", "Sensory System"], [67531, "SRR17221758", "SRX13401336", "SRS11304395", "SRP350597", "PRJNA787536", "Danio rerio Raw sequence reads", "PRJNA787536", "Other", "RNA seq data from adult retina tissue obtained from wild type and cep290 mutant zebrafish at 6 mpf.", null, null, null, null, "wild type retina 4", null, "strain:AB/Ekwill hybrid|isolate:Single individual retina|breed:N/A|cultivar:N/A|ecotype:N/A|age:6 mpf stage:Adult|sex:unknown|tissue:Retina|birth date:2020 09 02|collected by:Sarah Grabinski|collection date:2021 04 24|genotype:wild type|Biological replicates:4|BioSampleModel:Model organism or animal", null, null, null, null, null, null, null, null, "RNA seq of 6 mpf adult zebrafish wild type retina", "GC SG 620 4", "GC SG 620 4", "RNA isolated from single retina prepared using Illumina stranded mRNA kits", null, null, "RNA-Seq", "TRANSCRIPTOMIC", "RANDOM", "PAIRED", "ILLUMINA", "Illumina NovaSeq 6000", null, "SRP350597", null, null, "GC.SG.620_4_S4_L001_R1_001.fastq.gz GC.SG.620_4_S4_L001_R2_001.fastq.gz", "fastq fastq", 32602935480.0, 107956740.0, "GC.SG.620 4 S4 L001 R1 001.fastq.gz", "0:151 1:151", "A:9278245354;C:7208634191;G:6856278967;T:9259105244;N:671724", 151, 151, null, null, 9278245354, 7208634191, 6856278967, 9259105244, 671724, "SRX13401336", "SRS11304395", "SRA1342775", "Cleveland Clinic|Ophthalmic Research", "Cleveland Clinic", 2, 0.6468, 0.64033, 0.32923, 0.32003, 0.77977, 0.78299, 0.50698, 0.5109, 151, 151, "B", "B", "biological fallback assumption", "illumina", "novaseq_era", "unknown", "random_priming", "trueseq", "bulk", "unknown", "unknown", null, "United States", "2021-12-13", "Adult", "Adult", "Eye", "Sensory System"], [67532, "SRR17221759", "SRX13401335", "SRS11304394", "SRP350597", "PRJNA787536", "Danio rerio Raw sequence reads", "PRJNA787536", "Other", "RNA seq data from adult retina tissue obtained from wild type and cep290 mutant zebrafish at 6 mpf.", null, null, null, null, "wild type retina 3", null, "strain:AB/Ekwill hybrid|isolate:Single individual retina|breed:N/A|cultivar:N/A|ecotype:N/A|age:6 mpf stage:Adult|sex:unknown|tissue:Retina|birth date:2020 09 02|collected by:Sarah Grabinski|collection date:2021 04 24|genotype:wild type|Biological replicates:3|BioSampleModel:Model organism or animal", null, null, null, null, null, null, null, null, "RNA seq of 6 mpf adult zebrafish wild type retina", "GC SG 620 3", "GC SG 620 3", "RNA isolated from single retina prepared using Illumina stranded mRNA kits", null, null, "RNA-Seq", "TRANSCRIPTOMIC", "RANDOM", "PAIRED", "ILLUMINA", "Illumina NovaSeq 6000", null, "SRP350597", null, null, "GC.SG.620_3_S3_L001_R1_001.fastq.gz GC.SG.620_3_S3_L001_R2_001.fastq.gz", "fastq fastq", 33920268842.0, 112318771.0, "GC.SG.620 3 S3 L001 R1 001.fastq.gz", "0:151 1:151", "A:9639086006;C:7411263175;G:7053516817;T:9815703633;N:699211", 151, 151, null, null, 9639086006, 7411263175, 7053516817, 9815703633, 699211, "SRX13401335", "SRS11304394", "SRA1342775", "Cleveland Clinic|Ophthalmic Research", "Cleveland Clinic", 2, 0.65174, 0.64442, 0.33877, 0.32993, 0.77875, 0.78123, 0.51364, 0.52557, 151, 151, "B", "B", "biological fallback assumption", "illumina", "novaseq_era", "unknown", "random_priming", "trueseq", "bulk", "unknown", "unknown", null, "United States", "2021-12-13", "Adult", "Adult", "Eye", "Sensory System"], [67533, "SRR17221760", "SRX13401334", "SRS11304393", "SRP350597", "PRJNA787536", "Danio rerio Raw sequence reads", "PRJNA787536", "Other", "RNA seq data from adult retina tissue obtained from wild type and cep290 mutant zebrafish at 6 mpf.", null, null, null, null, "wild type retina 2", null, "strain:AB/Ekwill hybrid|isolate:Single individual retina|breed:N/A|cultivar:N/A|ecotype:N/A|age:6 mpf stage:Adult|sex:unknown|tissue:Retina|birth date:2020 09 02|collected by:Sarah Grabinski|collection date:2021 04 24|genotype:wild type|Biological replicates:2|BioSampleModel:Model organism or animal", null, null, null, null, null, null, null, null, "RNA seq of 6 mpf adult zebrafish wild type retina", "GC SG 620 2", "GC SG 620 2", "RNA isolated from single retina prepared using Illumina stranded mRNA kits", null, null, "RNA-Seq", "TRANSCRIPTOMIC", "RANDOM", "PAIRED", "ILLUMINA", "Illumina NovaSeq 6000", null, "SRP350597", null, null, "GC.SG.620_2_S2_L001_R1_001.fastq.gz GC.SG.620_2_S2_L001_R2_001.fastq.gz", "fastq fastq", 30605822768.0, 101343784.0, "GC.SG.620 2 S2 L001 R1 001.fastq.gz", "0:151 1:151", "A:8456172381;C:6948566987;G:6670164511;T:8530293907;N:624982", 151, 151, null, null, 8456172381, 6948566987, 6670164511, 8530293907, 624982, "SRX13401334", "SRS11304393", "SRA1342775", "Cleveland Clinic|Ophthalmic Research", "Cleveland Clinic", 2, 0.62585, 0.61421, 0.29606, 0.28346, 0.78508, 0.78683, 0.53231, 0.5408, 151, 151, "B", "B", "biological fallback assumption", "illumina", "novaseq_era", "unknown", "random_priming", "trueseq", "bulk", "unknown", "unknown", null, "United States", "2021-12-13", "Adult", "Adult", "Eye", "Sensory System"], [67534, "SRR17221761", "SRX13401333", "SRS11304392", "SRP350597", "PRJNA787536", "Danio rerio Raw sequence reads", "PRJNA787536", "Other", "RNA seq data from adult retina tissue obtained from wild type and cep290 mutant zebrafish at 6 mpf.", null, null, null, null, "wild type retina 1", null, "strain:AB/Ekwill hybrid|isolate:Single individual retina|breed:N/A|cultivar:N/A|ecotype:N/A|age:6 mpf stage:Adult|sex:unknown|tissue:Retina|birth date:2020 09 02|collected by:Sarah Grabinski|collection date:2021 04 24|genotype:wild type|Biological replicates:1|BioSampleModel:Model organism or animal", null, null, null, null, null, null, null, null, "RNA seq of 6 mpf adult zebrafish wild type retina", "GC SG 620 1", "GC SG 620 1", "RNA isolated from single retina prepared using Illumina stranded mRNA kits", null, null, "RNA-Seq", "TRANSCRIPTOMIC", "RANDOM", "PAIRED", "ILLUMINA", "Illumina NovaSeq 6000", null, "SRP350597", null, null, "GC.SG.620_1_S1_L001_R1_001.fastq.gz GC.SG.620_1_S1_L001_R2_001.fastq.gz", "fastq fastq", 31969773756.0, 105860178.0, "GC.SG.620 1 S1 L001 R1 001.fastq.gz", "0:151 1:151", "A:8889341732;C:7177178690;G:6928940526;T:8973631071;N:681737", 151, 151, null, null, 8889341732, 7177178690, 6928940526, 8973631071, 681737, "SRX13401333", "SRS11304392", "SRA1342775", "Cleveland Clinic|Ophthalmic Research", "Cleveland Clinic", 2, 0.67113, 0.66355, 0.32731, 0.31578, 0.78399, 0.78593, 0.53938, 0.5511, 151, 151, "B", "B", "biological fallback assumption", "illumina", "novaseq_era", "unknown", "random_priming", "trueseq", "bulk", "unknown", "unknown", null, "United States", "2021-12-13", "Adult", "Adult", "Eye", "Sensory System"], [69473, "SRR18712322", "SRX14812929", "SRS12569572", "SRP369458", "PRJNA825495", "Regulation of retina microexons by srrm3 in zebrafish", "PRJNA825495", "Other", "To investigate the role of srrm3 as a regulator of retina microexons RetMICs we have sequenced heads from WT animals at 24 hpf and enucleated eyes from 48 hpf  60 hpf  and 72 hpf larvae WT and KO for srrm3.", null, null, null, null, "Eye 72hpf WT b", null, "strain:WT|dev stage:72 hpf|sex:NA|tissue:Eye|BioSampleModel:Model organism or animal", null, null, null, null, null, null, null, null, "Eyes from 72 hpf larvae WT for the eMIC domain of srrm3.", "Eye 72hpf WT", "Eye 72hpf WT", "WT and srrm3 mutant zebrafish were grown at  28C 14h light/10h dark cycle. Extract protocol: 24 hpf WT fish heads were removed and pulled for RNA extraction using RNA RNeasy Mini kit QIAGEN. Larvae eyes were removed and from twenty to sixty eyes per genotype were pulled for RNA extraction using RNA RNeasy Micro kit QIAGENLibrary preparation: RNA libraries were prepared for sequencing using standard Illumina protocols; polyA selected stranded RNA seq", null, null, "RNA-Seq", "TRANSCRIPTOMIC", "RANDOM", "PAIRED", "ILLUMINA", "Illumina HiSeq 2500", null, "SRP369458", null, null, "Eye_72hpf_WT_b_R1-125.fq.gz Eye_72hpf_WT_b_R2-125.fq.gz", "fastq fastq", 13437032500.0, 53748130.0, "Eye 72hpf WT b R1 125.fq.gz", "0:125 1:125", "A:3455929483;C:3259662773;G:3290102413;T:3423551193;N:7786638", 125, 125, null, null, 3455929483, 3259662773, 3290102413, 3423551193, 7786638, "SRX14812929", "SRS12569572", "SRA1402039", "Centre for Genomic Regulation|Systems Biology", "Centre for Genomic Regulation|Systems Biology", 2, 0.97078, 0.97143, 0.04457, 0.04373, 0.68312, 0.68594, 0.4516, 0.45911, 125, 125, "B", "B", "biological fallback assumption", "illumina", "hiseq_era", "unknown", "random_priming", "trueseq", "bulk", "unknown", "unknown", null, "Spain", "2022-04-11", "Larval", "Larval", "Eye", "Sensory System"], [69474, "SRR18712323", "SRX14812928", "SRS12569571", "SRP369458", "PRJNA825495", "Regulation of retina microexons by srrm3 in zebrafish", "PRJNA825495", "Other", "To investigate the role of srrm3 as a regulator of retina microexons RetMICs we have sequenced heads from WT animals at 24 hpf and enucleated eyes from 48 hpf  60 hpf  and 72 hpf larvae WT and KO for srrm3.", null, null, null, null, "Eye 72hpf MUT b", null, "strain:srrm3 MUT|dev stage:72 hpf|sex:NA|tissue:Eye|BioSampleModel:Model organism or animal", null, null, null, null, null, null, null, null, "Eyes from 72 hpf larvae mutated for the eMIC domain of srrm3.", "Eye 72hpf MUT", "Eye 72hpf MUT", "WT and srrm3 mutant zebrafish were grown at  28C 14h light/10h dark cycle. Extract protocol: 24 hpf WT fish heads were removed and pulled for RNA extraction using RNA RNeasy Mini kit QIAGEN. Larvae eyes were removed and from twenty to sixty eyes per genotype were pulled for RNA extraction using RNA RNeasy Micro kit QIAGENLibrary preparation: RNA libraries were prepared for sequencing using standard Illumina protocols; polyA selected stranded RNA seq", null, null, "RNA-Seq", "TRANSCRIPTOMIC", "RANDOM", "PAIRED", "ILLUMINA", "Illumina HiSeq 2500", null, "SRP369458", null, null, "Eye_72hpf_MUT_b_R1-125.fq.gz Eye_72hpf_MUT_b_R2-125.fq.gz", "fastq fastq", 14446388500.0, 57785554.0, "Eye 72hpf MUT b R1 125.fq.gz", "0:125 1:125", "A:3747033220;C:3473175271;G:3502836837;T:3715008771;N:8334401", 125, 125, null, null, 3747033220, 3473175271, 3502836837, 3715008771, 8334401, "SRX14812928", "SRS12569571", "SRA1402039", "Centre for Genomic Regulation|Systems Biology", "Centre for Genomic Regulation|Systems Biology", 2, 0.96991, 0.97029, 0.04938, 0.04899, 0.6813, 0.68613, 0.44741, 0.44599, 125, 125, "B", "B", "biological fallback assumption", "illumina", "hiseq_era", "unknown", "random_priming", "trueseq", "bulk", "unknown", "unknown", null, "Spain", "2022-04-11", "Larval", "Larval", "Eye", "Sensory System"], [69475, "SRR18712324", "SRX14812927", "SRS12569570", "SRP369458", "PRJNA825495", "Regulation of retina microexons by srrm3 in zebrafish", "PRJNA825495", "Other", "To investigate the role of srrm3 as a regulator of retina microexons RetMICs we have sequenced heads from WT animals at 24 hpf and enucleated eyes from 48 hpf  60 hpf  and 72 hpf larvae WT and KO for srrm3.", null, null, null, null, "Eye 60hpf WT b", null, "strain:WT|dev stage:60 hpf|sex:NA|tissue:Eye|BioSampleModel:Model organism or animal", null, null, null, null, null, null, null, null, "Eyes from 60 hpf larvae WT for the eMIC domain of srrm3.", "Eye 60hpf WT", "Eye 60hpf WT", "WT and srrm3 mutant zebrafish were grown at  28C 14h light/10h dark cycle. Extract protocol: 24 hpf WT fish heads were removed and pulled for RNA extraction using RNA RNeasy Mini kit QIAGEN. Larvae eyes were removed and from twenty to sixty eyes per genotype were pulled for RNA extraction using RNA RNeasy Micro kit QIAGENLibrary preparation: RNA libraries were prepared for sequencing using standard Illumina protocols; polyA selected stranded RNA seq", null, null, "RNA-Seq", "TRANSCRIPTOMIC", "RANDOM", "PAIRED", "ILLUMINA", "Illumina HiSeq 2500", null, "SRP369458", null, null, "Eye_60hpf_WT_b_R1-125.fq.gz Eye_60hpf_WT_b_R2-125.fq.gz", "fastq fastq", 15250592500.0, 61002370.0, "Eye 60hpf WT b R1 125.fq.gz", "0:125 1:125", "A:3923837289;C:3702942025;G:3742033933;T:3872922356;N:8856897", 125, 125, null, null, 3923837289, 3702942025, 3742033933, 3872922356, 8856897, "SRX14812927", "SRS12569570", "SRA1402039", "Centre for Genomic Regulation|Systems Biology", "Centre for Genomic Regulation|Systems Biology", 2, 0.97168, 0.9731, 0.0527, 0.05258, 0.69891, 0.70041, 0.45973, 0.45381, 125, 125, "B", "B", "biological fallback assumption", "illumina", "hiseq_era", "unknown", "random_priming", "trueseq", "bulk", "unknown", "unknown", null, "Spain", "2022-04-11", "Hatching", "Embryo", "Eye", "Sensory System"], [69476, "SRR18712325", "SRX14812926", "SRS12569569", "SRP369458", "PRJNA825495", "Regulation of retina microexons by srrm3 in zebrafish", "PRJNA825495", "Other", "To investigate the role of srrm3 as a regulator of retina microexons RetMICs we have sequenced heads from WT animals at 24 hpf and enucleated eyes from 48 hpf  60 hpf  and 72 hpf larvae WT and KO for srrm3.", null, null, null, null, "Eye 60hpf MUT b", null, "strain:srrm3 MUT|dev stage:60 hpf|sex:NA|tissue:Eye|BioSampleModel:Model organism or animal", null, null, null, null, null, null, null, null, "Eyes from 60 hpf larvae mutated for the eMIC domain of srrm3.", "Eye 60hpf MUT", "Eye 60hpf MUT", "WT and srrm3 mutant zebrafish were grown at  28C 14h light/10h dark cycle. Extract protocol: 24 hpf WT fish heads were removed and pulled for RNA extraction using RNA RNeasy Mini kit QIAGEN. Larvae eyes were removed and from twenty to sixty eyes per genotype were pulled for RNA extraction using RNA RNeasy Micro kit QIAGENLibrary preparation: RNA libraries were prepared for sequencing using standard Illumina protocols; polyA selected stranded RNA seq", null, null, "RNA-Seq", "TRANSCRIPTOMIC", "RANDOM", "PAIRED", "ILLUMINA", "Illumina HiSeq 2500", null, "SRP369458", null, null, "Eye_60hpf_MUT_b_R1-125.fq.gz Eye_60hpf_MUT_b_R2-125.fq.gz", "fastq fastq", 14932544250.0, 59730177.0, "Eye 60hpf MUT b R1 125.fq.gz", "0:125 1:125", "A:3891825609;C:3575114135;G:3598083383;T:3858808039;N:8713084", 125, 125, null, null, 3891825609, 3575114135, 3598083383, 3858808039, 8713084, "SRX14812926", "SRS12569569", "SRA1402039", "Centre for Genomic Regulation|Systems Biology", "Centre for Genomic Regulation|Systems Biology", 2, 0.96985, 0.97098, 0.06006, 0.0593, 0.68939, 0.6926, 0.46001, 0.45867, 125, 125, "B", "B", "biological fallback assumption", "illumina", "hiseq_era", "unknown", "random_priming", "trueseq", "bulk", "unknown", "unknown", null, "Spain", "2022-04-11", "Hatching", "Embryo", "Eye", "Sensory System"], [69477, "SRR18712326", "SRX14812925", "SRS12569568", "SRP369458", "PRJNA825495", "Regulation of retina microexons by srrm3 in zebrafish", "PRJNA825495", "Other", "To investigate the role of srrm3 as a regulator of retina microexons RetMICs we have sequenced heads from WT animals at 24 hpf and enucleated eyes from 48 hpf  60 hpf  and 72 hpf larvae WT and KO for srrm3.", null, null, null, null, "Eye 48hpf WT b", null, "strain:WT|dev stage:48 hpf|sex:NA|tissue:Eye|BioSampleModel:Model organism or animal", null, null, null, null, null, null, null, null, "Eyes from 48 hpf larvae WT for the eMIC domain of srrm3.", "Eye 48hpf WT", "Eye 48hpf WT", "WT and srrm3 mutant zebrafish were grown at  28C 14h light/10h dark cycle. Extract protocol: 24 hpf WT fish heads were removed and pulled for RNA extraction using RNA RNeasy Mini kit QIAGEN. Larvae eyes were removed and from twenty to sixty eyes per genotype were pulled for RNA extraction using RNA RNeasy Micro kit QIAGENLibrary preparation: RNA libraries were prepared for sequencing using standard Illumina protocols; polyA selected stranded RNA seq", null, null, "RNA-Seq", "TRANSCRIPTOMIC", "RANDOM", "PAIRED", "ILLUMINA", "Illumina HiSeq 2500", null, "SRP369458", null, null, "Eye_48hpf_WT_b_R1-125.fq.gz Eye_48hpf_WT_b_R2-125.fq.gz", "fastq fastq", 15736041750.0, 62944167.0, "Eye 48hpf WT b R1 125.fq.gz", "0:125 1:125", "A:4076543478;C:3787178416;G:3834447099;T:4028745594;N:9127163", 125, 125, null, null, 4076543478, 3787178416, 3834447099, 4028745594, 9127163, "SRX14812925", "SRS12569568", "SRA1402039", "Centre for Genomic Regulation|Systems Biology", "Centre for Genomic Regulation|Systems Biology", 2, 0.97095, 0.97209, 0.05101, 0.05067, 0.69408, 0.69767, 0.47501, 0.47714, 125, 125, "B", "B", "biological fallback assumption", "illumina", "hiseq_era", "unknown", "random_priming", "trueseq", "bulk", "unknown", "unknown", null, "Spain", "2022-04-11", "Hatching", "Embryo", "Eye", "Sensory System"], [69478, "SRR18712327", "SRX14812924", "SRS12569567", "SRP369458", "PRJNA825495", "Regulation of retina microexons by srrm3 in zebrafish", "PRJNA825495", "Other", "To investigate the role of srrm3 as a regulator of retina microexons RetMICs we have sequenced heads from WT animals at 24 hpf and enucleated eyes from 48 hpf  60 hpf  and 72 hpf larvae WT and KO for srrm3.", null, null, null, null, "Eye 48hpf MUT b", null, "strain:srrm3 MUT|dev stage:48 hpf|sex:NA|tissue:Eye|BioSampleModel:Model organism or animal", null, null, null, null, null, null, null, null, "Eyes from 48 hpf larvae mutated for the eMIC domain of srrm3.", "Eye 48hpf MUT", "Eye 48hpf MUT", "WT and srrm3 mutant zebrafish were grown at  28C 14h light/10h dark cycle. Extract protocol: 24 hpf WT fish heads were removed and pulled for RNA extraction using RNA RNeasy Mini kit QIAGEN. Larvae eyes were removed and from twenty to sixty eyes per genotype were pulled for RNA extraction using RNA RNeasy Micro kit QIAGENLibrary preparation: RNA libraries were prepared for sequencing using standard Illumina protocols; polyA selected stranded RNA seq", null, null, "RNA-Seq", "TRANSCRIPTOMIC", "RANDOM", "PAIRED", "ILLUMINA", "Illumina HiSeq 2500", null, "SRP369458", null, null, "Eye_48hpf_MUT_b_R1-125.fq.gz Eye_48hpf_MUT_b_R2-125.fq.gz", "fastq fastq", 14845531750.0, 59382127.0, "Eye 48hpf MUT b R1 125.fq.gz", "0:125 1:125", "A:3879709745;C:3539390575;G:3573173326;T:3844623832;N:8634272", 125, 125, null, null, 3879709745, 3539390575, 3573173326, 3844623832, 8634272, "SRX14812924", "SRS12569567", "SRA1402039", "Centre for Genomic Regulation|Systems Biology", "Centre for Genomic Regulation|Systems Biology", 2, 0.9684, 0.97006, 0.05578, 0.05498, 0.69183, 0.69581, 0.472, 0.46674, 125, 125, "B", "B", "biological fallback assumption", "illumina", "hiseq_era", "unknown", "random_priming", "trueseq", "bulk", "unknown", "unknown", null, "Spain", "2022-04-11", "Hatching", "Embryo", "Eye", "Sensory System"], [74629, "SRR23884654", "SRX19696518", "SRS17065388", "SRP427793", "PRJNA945580", "Danio rerio strain:AB Raw sequence reads", "PRJNA945580", "Other", "The Raw sequence reads of WT and miR 184 KO zebrafish eyes", null, null, null, null, "210508906", null, "strain:AB|age:6 month|sex:pooled male and female|tissue:eyes|ID:6|BioSampleModel:Model organism or animal", null, null, null, null, null, null, null, null, "KO 3", "210508906", "210508906", "NEBNext Ultra RNA Library Prep Kit for Illumina", null, null, "RNA-Seq", "TRANSCRIPTOMIC", "RANDOM", "SINGLE", "ILLUMINA", "Illumina HiSeq 1000", null, "SRP427793", null, null, "KO_3_1.fq.gz KO_3_2.fq.gz", "fastq fastq", 6857237400.0, 22857458.0, "KO 3 1.fq.gz", "0:150 1:150", "A:1866695553;C:1583608143;G:1571628695;T:1835264420;N:40589", 150, 150, null, null, 1866695553, 1583608143, 1571628695, 1835264420, 40589, "SRX19696518", "SRS17065388", "SRA1605997", "Henan university|Joint National Laboratory for Antibody Drug Engine", "Henan university", 2, 0.93722, 0.93716, 0.1065, 0.10549, 0.69814, 0.6984, 0.46907, 0.46936, 150, 150, "B", "B", "biological fallback assumption", "illumina", "hiseq_era", "unknown", "random_priming", "nebnext", "bulk", "unknown", "unknown", null, "China", "2023-03-17", "Adult", "Adult", "Eye", "Sensory System"], [74630, "SRR23884655", "SRX19696517", "SRS17065385", "SRP427793", "PRJNA945580", "Danio rerio strain:AB Raw sequence reads", "PRJNA945580", "Other", "The Raw sequence reads of WT and miR 184 KO zebrafish eyes", null, null, null, null, "210508905", null, "strain:AB|age:5 month|sex:pooled male and female|tissue:eyes|ID:5|BioSampleModel:Model organism or animal", null, null, null, null, null, null, null, null, "KO 2", "210508905", "210508905", "NEBNext Ultra RNA Library Prep Kit for Illumina", null, null, "RNA-Seq", "TRANSCRIPTOMIC", "RANDOM", "SINGLE", "ILLUMINA", "Illumina HiSeq 1000", null, "SRP427793", null, null, "KO_2_1.fq.gz KO_2_2.fq.gz", "fastq fastq", 6768735300.0, 22562451.0, "KO 2 1.fq.gz", "0:150 1:150", "A:1838303143;C:1568759710;G:1555335081;T:1806296988;N:40378", 150, 150, null, null, 1838303143, 1568759710, 1555335081, 1806296988, 40378, "SRX19696517", "SRS17065385", "SRA1605997", "Henan university|Joint National Laboratory for Antibody Drug Engine", "Henan university", 2, 0.93649, 0.93615, 0.11337, 0.1133, 0.6913, 0.69114, 0.47445, 0.47472, 150, 150, "B", "B", "biological fallback assumption", "illumina", "hiseq_era", "unknown", "random_priming", "nebnext", "bulk", "unknown", "unknown", null, "China", "2023-03-17", "Adult", "Adult", "Eye", "Sensory System"], [74631, "SRR23884656", "SRX19696516", "SRS17065389", "SRP427793", "PRJNA945580", "Danio rerio strain:AB Raw sequence reads", "PRJNA945580", "Other", "The Raw sequence reads of WT and miR 184 KO zebrafish eyes", null, null, null, null, "210508904", null, "strain:AB|age:4 month|sex:pooled male and female|tissue:eyes|ID:4|BioSampleModel:Model organism or animal", null, null, null, null, null, null, null, null, "KO 1", "210508904", "210508904", "NEBNext Ultra RNA Library Prep Kit for Illumina", null, null, "RNA-Seq", "TRANSCRIPTOMIC", "RANDOM", "SINGLE", "ILLUMINA", "Illumina HiSeq 1000", null, "SRP427793", null, null, "KO_1_1.fq.gz KO_1_2.fq.gz", "fastq fastq", 6721766100.0, 22405887.0, "KO 1 1.fq.gz", "0:150 1:150", "A:1830356552;C:1554317013;G:1538499721;T:1798552330;N:40484", 150, 150, null, null, 1830356552, 1554317013, 1538499721, 1798552330, 40484, "SRX19696516", "SRS17065389", "SRA1605997", "Henan university|Joint National Laboratory for Antibody Drug Engine", "Henan university", 2, 0.93864, 0.93807, 0.11269, 0.11224, 0.69998, 0.69982, 0.47538, 0.47811, 150, 150, "B", "B", "biological fallback assumption", "illumina", "hiseq_era", "unknown", "random_priming", "nebnext", "bulk", "unknown", "unknown", null, "China", "2023-03-17", "Adult", "Adult", "Eye", "Sensory System"], [74632, "SRR23884657", "SRX19696515", "SRS17065386", "SRP427793", "PRJNA945580", "Danio rerio strain:AB Raw sequence reads", "PRJNA945580", "Other", "The Raw sequence reads of WT and miR 184 KO zebrafish eyes", null, null, null, null, "210508903", null, "strain:AB|age:3 month|sex:pooled male and female|tissue:eyes|ID:3|BioSampleModel:Model organism or animal", null, null, null, null, null, null, null, null, "WT 3", "210508903", "210508903", "NEBNext Ultra RNA Library Prep Kit for Illumina", null, null, "RNA-Seq", "TRANSCRIPTOMIC", "RANDOM", "SINGLE", "ILLUMINA", "Illumina HiSeq 1000", null, "SRP427793", null, null, "WT_3_1.fq.gz WT_3_2.fq.gz", "fastq fastq", 6562300200.0, 21874334.0, "WT 3 1.fq.gz", "0:150 1:150", "A:1770944612;C:1532296482;G:1519920976;T:1739094182;N:43948", 150, 150, null, null, 1770944612, 1532296482, 1519920976, 1739094182, 43948, "SRX19696515", "SRS17065386", "SRA1605997", "Henan university|Joint National Laboratory for Antibody Drug Engine", "Henan university", 2, 0.94155, 0.94127, 0.10378, 0.10336, 0.69331, 0.69424, 0.46924, 0.47393, 150, 150, "B", "B", "biological fallback assumption", "illumina", "hiseq_era", "unknown", "random_priming", "nebnext", "bulk", "unknown", "unknown", null, "China", "2023-03-17", "Adult", "Adult", "Eye", "Sensory System"], [74633, "SRR23884658", "SRX19696514", "SRS17065387", "SRP427793", "PRJNA945580", "Danio rerio strain:AB Raw sequence reads", "PRJNA945580", "Other", "The Raw sequence reads of WT and miR 184 KO zebrafish eyes", null, null, null, null, "210508902", null, "strain:AB|age:2 month|sex:pooled male and female|tissue:eyes|ID:2|BioSampleModel:Model organism or animal", null, null, null, null, null, null, null, null, "WT 2", "210508902", "210508902", "NEBNext Ultra RNA Library Prep Kit for Illumina", null, null, "RNA-Seq", "TRANSCRIPTOMIC", "RANDOM", "SINGLE", "ILLUMINA", "Illumina HiSeq 1000", null, "SRP427793", null, null, "WT_2_1.fq.gz WT_2_2.fq.gz", "fastq fastq", 6735894000.0, 22452980.0, "WT 2 1.fq.gz", "0:150 1:150", "A:1829468826;C:1562022082;G:1548721920;T:1795640273;N:40899", 150, 150, null, null, 1829468826, 1562022082, 1548721920, 1795640273, 40899, "SRX19696514", "SRS17065387", "SRA1605997", "Henan university|Joint National Laboratory for Antibody Drug Engine", "Henan university", 2, 0.94008, 0.9398, 0.10958, 0.11001, 0.69907, 0.70088, 0.46448, 0.46026, 150, 150, "B", "B", "biological fallback assumption", "illumina", "hiseq_era", "unknown", "random_priming", "nebnext", "bulk", "unknown", "unknown", null, "China", "2023-03-17", "Juvenile", "Juvenile", "Eye", "Sensory System"], [74634, "SRR23884659", "SRX19696513", "SRS17065384", "SRP427793", "PRJNA945580", "Danio rerio strain:AB Raw sequence reads", "PRJNA945580", "Other", "The Raw sequence reads of WT and miR 184 KO zebrafish eyes", null, null, null, null, "210508901", null, "strain:AB|age:1 month|sex:pooled male and female|tissue:eyes|ID:1|BioSampleModel:Model organism or animal", null, null, null, null, null, null, null, null, "WT 1", "210508901", "210508901", "NEBNext Ultra RNA Library Prep Kit for Illumina", null, null, "RNA-Seq", "TRANSCRIPTOMIC", "RANDOM", "SINGLE", "ILLUMINA", "Illumina HiSeq 1000", null, "SRP427793", null, null, "WT_1_1.fq.gz WT_1_2.fq.gz", "fastq fastq", 6733134600.0, 22443782.0, "WT 1 1.fq.gz", "0:150 1:150", "A:1819908990;C:1568144240;G:1555637420;T:1789402357;N:41593", 150, 150, null, null, 1819908990, 1568144240, 1555637420, 1789402357, 41593, "SRX19696513", "SRS17065384", "SRA1605997", "Henan university|Joint National Laboratory for Antibody Drug Engine", "Henan university", 2, 0.94058, 0.94013, 0.10559, 0.10527, 0.69676, 0.69627, 0.46962, 0.46888, 150, 150, "B", "B", "biological fallback assumption", "illumina", "hiseq_era", "unknown", "random_priming", "nebnext", "bulk", "unknown", "unknown", null, "China", "2023-03-17", "Juvenile", "Juvenile", "Eye", "Sensory System"]], "truncated": false, "filtered_table_rows_count": 35, "expanded_columns": [], "expandable_columns": [], "columns": ["rowid", "run.accession", "experiment.accession", "sample.accession", "study.accession", "bioproject", "study.title", "study.alias", "study.type", "study.abstract", "study.attributes", "study.PMIDs", "sample.description", "sample.title", "sample.alias", "sample.centername", "sample.attributes", "GEOsample.title", "GEOsample.dataprocessing", "GEOsample.source", "GEOsample.treatmentprotocol", "GEOsample.extractprotocol", "GEOsample.growthprotocol", "GEOsample.characteristics", "GEOsample.accession", "experiment.title", "experiment.alias", "experiment.library_name", "experiment.design_description", "experiment.library_construction_protocol", "experiment.attributes", "experiment.library_strategy", "experiment.library_source", "experiment.library_selection", "experiment.library_layout", "experiment.platform", "experiment.instrument_model", "experiment.spot_descriptor", "experiment.study_ref", "run.title", "run.attributes", "run.filename", "run.semantic_name", "run.total_bases", "run.total_spots", "run.alias", "run.read_lengths", "run.base_counts", "run.r1_length", "run.r2_length", "run.r3_length", "run.r4_length", "run.Acount", "run.Ccount", "run.Gcount", "run.Tcount", "run.Ncount", "run.experiment", "run.pool_member", "submission.accession", "submission.srasource", "submission.bioprojectsource", "seqdetective.n_mates", "seqdetective.mapping_rate.mate1", "seqdetective.mapping_rate.mate2", "seqdetective.nofeature_rate.mate1", "seqdetective.nofeature_rate.mate2", "seqdetective.sparsity.mate1", "seqdetective.sparsity.mate2", "seqdetective.pos_strand_rate.mate1", "seqdetective.pos_strand_rate.mate2", "seqdetective.readlen.mate1", "seqdetective.readlen.mate2", "seqdetective.judgement.mate1", "seqdetective.judgement.mate2", "seqdetective.judgement.reason", "platform_family", "instrument_generation", "read_bias", "selection_class", "prep_kit", "sc_or_bulk", "tech_class", "technology", "tech_variant", "submission.bioprojectsource.country", "earliest_date", "devstage_curation", "devstage_curation_coarse", "tissue_curation", "tissue_curation_coarse"], "primary_keys": [], "units": {}, "query": {"sql": "select rowid, [run.accession], [experiment.accession], [sample.accession], [study.accession], bioproject, [study.title], [study.alias], [study.type], [study.abstract], [study.attributes], [study.PMIDs], [sample.description], [sample.title], [sample.alias], [sample.centername], [sample.attributes], [GEOsample.title], [GEOsample.dataprocessing], [GEOsample.source], [GEOsample.treatmentprotocol], [GEOsample.extractprotocol], [GEOsample.growthprotocol], [GEOsample.characteristics], [GEOsample.accession], [experiment.title], [experiment.alias], [experiment.library_name], [experiment.design_description], [experiment.library_construction_protocol], [experiment.attributes], [experiment.library_strategy], [experiment.library_source], [experiment.library_selection], [experiment.library_layout], [experiment.platform], [experiment.instrument_model], [experiment.spot_descriptor], [experiment.study_ref], [run.title], [run.attributes], [run.filename], [run.semantic_name], [run.total_bases], [run.total_spots], [run.alias], [run.read_lengths], [run.base_counts], [run.r1_length], [run.r2_length], [run.r3_length], [run.r4_length], [run.Acount], [run.Ccount], [run.Gcount], [run.Tcount], [run.Ncount], [run.experiment], [run.pool_member], [submission.accession], [submission.srasource], [submission.bioprojectsource], [seqdetective.n_mates], [seqdetective.mapping_rate.mate1], [seqdetective.mapping_rate.mate2], [seqdetective.nofeature_rate.mate1], [seqdetective.nofeature_rate.mate2], [seqdetective.sparsity.mate1], [seqdetective.sparsity.mate2], [seqdetective.pos_strand_rate.mate1], [seqdetective.pos_strand_rate.mate2], [seqdetective.readlen.mate1], [seqdetective.readlen.mate2], [seqdetective.judgement.mate1], [seqdetective.judgement.mate2], [seqdetective.judgement.reason], platform_family, instrument_generation, read_bias, selection_class, prep_kit, sc_or_bulk, tech_class, technology, tech_variant, [submission.bioprojectsource.country], earliest_date, devstage_curation, devstage_curation_coarse, tissue_curation, tissue_curation_coarse from run_metadata where \"experiment.library_selection\" = :p0 and \"technology\" = :p1 and \"tissue_curation_coarse\" = :p2 order by rowid limit 101", "params": {"p0": "RANDOM", "p1": "unknown", "p2": "Sensory System"}}, "facet_results": {"experiment.library_strategy": {"name": "experiment.library_strategy", "type": "column", "hideable": false, "toggle_url": "/metadata/run_metadata.json?experiment.library_selection=RANDOM&technology=unknown&tissue_curation_coarse=Sensory+System", "results": [{"value": "RNA-Seq", "label": "RNA-Seq", "count": 35, "toggle_url": "http://metadata.rnaquarium.org/metadata/run_metadata.json?experiment.library_selection=RANDOM&technology=unknown&tissue_curation_coarse=Sensory+System&experiment.library_strategy=RNA-Seq", "selected": false}], "truncated": false}, "experiment.library_source": {"name": "experiment.library_source", "type": "column", "hideable": false, "toggle_url": "/metadata/run_metadata.json?experiment.library_selection=RANDOM&technology=unknown&tissue_curation_coarse=Sensory+System", "results": [{"value": "TRANSCRIPTOMIC", "label": "TRANSCRIPTOMIC", "count": 35, "toggle_url": "http://metadata.rnaquarium.org/metadata/run_metadata.json?experiment.library_selection=RANDOM&technology=unknown&tissue_curation_coarse=Sensory+System&experiment.library_source=TRANSCRIPTOMIC", "selected": false}], "truncated": false}, "experiment.library_selection": {"name": "experiment.library_selection", "type": "column", "hideable": false, "toggle_url": "/metadata/run_metadata.json?experiment.library_selection=RANDOM&technology=unknown&tissue_curation_coarse=Sensory+System", "results": [{"value": "RANDOM", "label": "RANDOM", "count": 35, "toggle_url": "http://metadata.rnaquarium.org/metadata/run_metadata.json?technology=unknown&tissue_curation_coarse=Sensory+System", "selected": true}], "truncated": false}, "experiment.library_layout": {"name": "experiment.library_layout", "type": "column", "hideable": false, "toggle_url": "/metadata/run_metadata.json?experiment.library_selection=RANDOM&technology=unknown&tissue_curation_coarse=Sensory+System", "results": [{"value": "PAIRED", "label": "PAIRED", "count": 26, "toggle_url": "http://metadata.rnaquarium.org/metadata/run_metadata.json?experiment.library_selection=RANDOM&technology=unknown&tissue_curation_coarse=Sensory+System&experiment.library_layout=PAIRED", "selected": false}, {"value": "SINGLE", "label": "SINGLE", "count": 9, "toggle_url": "http://metadata.rnaquarium.org/metadata/run_metadata.json?experiment.library_selection=RANDOM&technology=unknown&tissue_curation_coarse=Sensory+System&experiment.library_layout=SINGLE", "selected": false}], "truncated": false}, "experiment.platform": {"name": "experiment.platform", "type": "column", "hideable": false, "toggle_url": "/metadata/run_metadata.json?experiment.library_selection=RANDOM&technology=unknown&tissue_curation_coarse=Sensory+System", "results": [{"value": "ILLUMINA", "label": "ILLUMINA", "count": 35, "toggle_url": "http://metadata.rnaquarium.org/metadata/run_metadata.json?experiment.library_selection=RANDOM&technology=unknown&tissue_curation_coarse=Sensory+System&experiment.platform=ILLUMINA", "selected": false}], "truncated": false}, "devstage_curation_coarse": {"name": "devstage_curation_coarse", "type": "column", "hideable": false, "toggle_url": "/metadata/run_metadata.json?experiment.library_selection=RANDOM&technology=unknown&tissue_curation_coarse=Sensory+System", "results": [{"value": "Adult", "label": "Adult", "count": 27, "toggle_url": "http://metadata.rnaquarium.org/metadata/run_metadata.json?experiment.library_selection=RANDOM&technology=unknown&tissue_curation_coarse=Sensory+System&devstage_curation_coarse=Adult", "selected": false}, {"value": "Embryo", "label": "Embryo", "count": 4, "toggle_url": "http://metadata.rnaquarium.org/metadata/run_metadata.json?experiment.library_selection=RANDOM&technology=unknown&tissue_curation_coarse=Sensory+System&devstage_curation_coarse=Embryo", "selected": false}, {"value": "Juvenile", "label": "Juvenile", "count": 2, "toggle_url": "http://metadata.rnaquarium.org/metadata/run_metadata.json?experiment.library_selection=RANDOM&technology=unknown&tissue_curation_coarse=Sensory+System&devstage_curation_coarse=Juvenile", "selected": false}, {"value": "Larval", "label": "Larval", "count": 2, "toggle_url": "http://metadata.rnaquarium.org/metadata/run_metadata.json?experiment.library_selection=RANDOM&technology=unknown&tissue_curation_coarse=Sensory+System&devstage_curation_coarse=Larval", "selected": false}], "truncated": false}, "devstage_curation": {"name": "devstage_curation", "type": "column", "hideable": false, "toggle_url": "/metadata/run_metadata.json?experiment.library_selection=RANDOM&technology=unknown&tissue_curation_coarse=Sensory+System", "results": [{"value": "Adult", "label": "Adult", "count": 27, "toggle_url": "http://metadata.rnaquarium.org/metadata/run_metadata.json?experiment.library_selection=RANDOM&technology=unknown&tissue_curation_coarse=Sensory+System&devstage_curation=Adult", "selected": false}, {"value": "Hatching", "label": "Hatching", "count": 4, "toggle_url": "http://metadata.rnaquarium.org/metadata/run_metadata.json?experiment.library_selection=RANDOM&technology=unknown&tissue_curation_coarse=Sensory+System&devstage_curation=Hatching", "selected": false}, {"value": "Juvenile", "label": "Juvenile", "count": 2, "toggle_url": "http://metadata.rnaquarium.org/metadata/run_metadata.json?experiment.library_selection=RANDOM&technology=unknown&tissue_curation_coarse=Sensory+System&devstage_curation=Juvenile", "selected": false}, {"value": "Larval", "label": "Larval", "count": 2, "toggle_url": "http://metadata.rnaquarium.org/metadata/run_metadata.json?experiment.library_selection=RANDOM&technology=unknown&tissue_curation_coarse=Sensory+System&devstage_curation=Larval", "selected": false}], "truncated": false}, "tissue_curation_coarse": {"name": "tissue_curation_coarse", "type": "column", "hideable": false, "toggle_url": "/metadata/run_metadata.json?experiment.library_selection=RANDOM&technology=unknown&tissue_curation_coarse=Sensory+System", "results": [{"value": "Sensory System", "label": "Sensory System", "count": 35, "toggle_url": "http://metadata.rnaquarium.org/metadata/run_metadata.json?experiment.library_selection=RANDOM&technology=unknown", "selected": true}], "truncated": false}, "tissue_curation": {"name": "tissue_curation", "type": "column", "hideable": false, "toggle_url": "/metadata/run_metadata.json?experiment.library_selection=RANDOM&technology=unknown&tissue_curation_coarse=Sensory+System", "results": [{"value": "Eye", "label": "Eye", "count": 35, "toggle_url": "http://metadata.rnaquarium.org/metadata/run_metadata.json?experiment.library_selection=RANDOM&technology=unknown&tissue_curation_coarse=Sensory+System&tissue_curation=Eye", "selected": false}], "truncated": false}, "technology": {"name": "technology", "type": "column", "hideable": false, "toggle_url": "/metadata/run_metadata.json?experiment.library_selection=RANDOM&technology=unknown&tissue_curation_coarse=Sensory+System", "results": [{"value": "unknown", "label": "unknown", "count": 35, "toggle_url": "http://metadata.rnaquarium.org/metadata/run_metadata.json?experiment.library_selection=RANDOM&tissue_curation_coarse=Sensory+System", "selected": true}], "truncated": false}}, "suggested_facets": [], "next": null, "next_url": null, "private": false, "allow_execute_sql": true, "query_ms": 106.74293400006718}