run_metadata: 67034
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 |
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| 67034 | SRR16991903 | SRX13182261 | SRS11111533 | SRP347063 | PRJNA782235 | Nano Palladium free transcriptomic analysis in a non human model organism Danio rerio | PRJNA782235 | Other | The effects of free nano palladium in zebrafish Danio rerio was determined using transcriptome sequencing. The purity of mRNA from the control fishes were checked and the processed reads were mapped with the reference genome of Danio rerio. Around 67835 genes were expressed in control with respect to the total reads. The expressed genes showed no changes in their behaviour which is evident that the fishes without xxx exposure of xenobiotics caused no changes. | BUANControl | strain:AB strain Wild type|age:6 month|dev stage:adult|sex:male|tissue:Whole fish tissue|collection date:2021 03 06|store cond:Liquid Nitrogen|treatment:Nil|BioSampleModel:Model organism or animal | NP free study on Zebrafish | C1 Control NPfree Zebrafish | C1 Control NPfree Zebrafish | Palladium nanoparticles Pd NPs have been the reliable substitutes as conventional catalysts for its high efficiency and conversion of CO hydrocarbons and NO into less harmful CO2 water and nitrogen. Due to surface abrasion of converters Pd as ultrafine/nanoparticles are liberated into the environment causing possible health effects. Also Pd might reach the aquatic system through heavy precipitation and runoff. Here we aimed to profile the transcriptome of Danio rerio exposed to nano palladium at environmentally relevant concentrations with control. 500 ng of total RNA of nano Pd free fishes Control was isolated and the enriched mRNAs were reverse transcribed to form cDNA. The purified amplified cDNA library was eluted in the TE buffer. The concentrations above 2 ng/µL were used for the transcriptome analysis with the reference genome. In the control group 67835 genes were expressed which showed no changes in their behavior. | RNA-Seq | TRANSCRIPTOMIC | RT-PCR | PAIRED | ILLUMINA | Illumina HiSeq 1000 | SRP347063 | Control_R1.fastq Control_R2.fastq | fastq fastq | 4526842200.0 | 15089474.0 | Control R1.fastq | 0:150 1:150 | A:1257431594;C:1009220672;G:1028452096;T:1231606739;N:131099 | 150 | 150 | 1257431594 | 1009220672 | 1028452096 | 1231606739 | 131099 | SRX13182261 | SRS11111533 | SRA1332407 | Bharathiar University|Zoology | Bharathiar University | 2 | 0.84019 | 0.84256 | 0.12963 | 0.12905 | 0.70266 | 0.70761 | 0.54173 | 0.54265 | 150 | 150 | B | B | biological fallback assumption | illumina | hiseq_era | unknown | other | unknown | bulk | unknown | unknown | India | 2021-11-21 | Adult | Adult | Whole Organism | All anatomical structures |