run_metadata: 60685
This data as json
| 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 |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
| 60685 | SRR12464070 | SRX8958318 | SRS7214894 | SRP277864 | PRJNA657386 | Danio rerio Transcriptome or Gene expression | PRJNA657386 | Other | ZFL zebrafish liver cell line were exposed to various concentration of Copper chloride and cadmium chloride. The cells' RNA was collected and sent to RNA Seq. | Cu 4h low conc 3 | Cu04L3 | strain:not applicable|isolate:not applicable|breed:not applicable|cultivar:not applicable|ecotype:not applicable|age:not applicable|dev stage:not applicable|sex:not applicable|tissue:liver|cell line:ZFL|sample type:cell culture|metal exposure:Copper|exposure concentration:100 𝜇M|exposure time:4 hour|replicate:3|BioSampleModel:Model organism or animal | Cu 4h low conc 3 | Cu04L3 | Cu04L3 | Sequencing libraries were generated using NEBNext UltraTM RNA Library Prep Kit for Illumina NEB USA following manufacturers recommendations and index codes were added to attribute sequences to each sample | RNA-Seq | TRANSCRIPTOMIC | cDNA | SINGLE | ILLUMINA | Illumina NovaSeq 6000 | SRP277864 | Cu04L3_1.fq.gz Cu04L3_2.fq.gz | fastq fastq | 7930255200.0 | 26434184.0 | Cu04L3 1.fq.gz | 0:150 1:150 | A:2164769170;C:1823398164;G:1819510632;T:2122447886;N:129348 | 150 | 150 | 2164769170 | 1823398164 | 1819510632 | 2122447886 | 129348 | SRX8958318 | SRS7214894 | SRA1113719 | The Chinese University of Hong Kong|School of Life Science | The Chinese University of Hong Kong | 2 | 0.93484 | 0.94118 | 0.0742 | 0.0751 | 0.74353 | 0.74357 | 0.50572 | 0.50084 | 150 | 150 | B | B | biological fallback assumption | illumina | novaseq_era | unknown | cdna_unspecified | nebnext | bulk | unknown | unknown | China | 2020-08-18 | Undetermined | Undetermined | Liver | Liver and Biliary System |