run_metadata: 68693
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 |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
| 68693 | SRR18173228 | SRX14320207 | SRS12136313 | SRP361858 | PRJNA811237 | Transcriptomic and long term behavioral deficits associated with developmental 3.5 GHz radiofrequency radiation exposures in zebrafish | GSE197627 | Transcriptome Analysis | Transcriptomic data for 48 hpf and 120 hpf zebrafish embryos developmentally exposed to 3.5 GHz of radiofrequency radiation. Overall design: Two treatments Controls and RFR exposed referred to as "5G". Controls were exposed to no radiation. RFR exposed were exposed ttwo xxx.5 GHz 30 dBm radiation from 6 hpf 48 hpf. Embryos collected at 48 hpf and 120 hpf and then run through library prep and sequencing on a Beijing Genomics Institute DNBseq G50 platform with 100 bl PE. | pubmed:35434172 | 5G 48hpf Replicate 4 | GSM5924075 | source name:Zebrafish embryonic total RNA|tissue:whole embryos|developmental stage:48 hpf|treatment:5G | 5G 48hpf Replicate 4 | SOAPnuke for read filter. HISAT2 for genome mapping. Bowtie2 for reference genome map. DESeq2 for differential expression. Genome build: GCF 000002035.6 GRCz11 Supplementary files format and content: Excel files with compiled normalized count and clean read files for all samples. Supplementary files format and content: AllSamples.GeneExpression.FPKM.xlsx: FPKM normalized read counts. Supplementary files format and content: FilterSummary.xlsx: Read percentages. Supplementary files format and content: GeneExpressionSummary.xlsx: Clean read and mapping %. | Zebrafish embryonic total RNA | Zebrafish embryos were untreated or treated with 3.5 GHz RFR from 6 hpf 48 hpf. | Total RNA was isolated from zebrafish embryos at 48 hpf and 120 hpf. Library prep and sequencing were done on a Beijing Genomics Institute DNBseq G50 platform with 100 bl PE. | tissue:whole embryos|developmental stage:48 hpf|treatment:5G | GSM5924075 | GSM5924075: 5G 48hpf Replicate 4; Danio rerio; RNA Seq | GSM5924075 r1 | GSM5924075 | 1 | Total RNA was isolated from zebrafish embryos at 48 hpf and 120 hpf. Library prep and sequencing were done on a Beijing Genomics Institute DNBseq G50 platform with 100 bl PE. | RNA-Seq | TRANSCRIPTOMIC | cDNA | PAIRED | DNBSEQ | DNBSEQ-G50 | SRP361858 | 5G_48hpf_4_2.fq.gz 5G_48hpf_4_1.fq.gz | fastq fastq | 3960397600.0 | 39603976.0 | GSM5924075 r1 | 0:100 1:100 | A:1055375851;C:908722788;G:931610403;T:1063707959;N:980599 | 100 | 100 | 1055375851 | 908722788 | 931610403 | 1063707959 | 980599 | SRX14320207 | SRS12136313 | SRA1379040 | Robert L. Tanguay, Environmental & Molecular Toxicology, Oregon State University | Robert L. Tanguay, Environmental & Molecular Toxicology, Oregon State University | 1 | 0.93498 | 0.09353 | 0.6884 | 0.48205 | 100 | B | usable mapping rate | bgi | bgi | unknown | cdna_unspecified | unknown | bulk | unknown | unknown | United States | 2022-02-28 | Hatching | Embryo | Whole Organism | All anatomical structures |