{"database": "metadata", "table": "run_metadata", "rows": [[67035, "SRR17000960", "SRX13191218", "SRS11119340", "SRP347209", "PRJNA782551", "Transcriptome profiling of environmental relevant concentration 22 ng/L of nano Palladium on Danio rerio", "PRJNA782551", "Other", "The effects of nano palladium 22 ng per L in zebrafish  Danio rerio was determined using transcriptome sequencing. The purity of mRNA from the nano Pd exposed fishes were checked and the processed reads were mapped with the reference genome of Danio rerio. Around 66612 genes were expressed in Treatment I with respect to the total reads. Based on the genes expressed  the comparison of Control vs Treatment I observed of 2738 genes that were significantly expressed with 819 up regulated and 1919 down regulated genes. The up regulation and down regulation of the genes were evident that the nano Pd can affect the physiological and endocrine functions of zebrafish.", null, null, null, null, "BUANNPd22ng", null, "strain:AB strain Wild Type|age:6 mpf|dev stage:adult|sex:male|tissue:Whole fish tissue|collection date:2021 03 06|store cond:Liquid nitrogen|treatment:22 ng/L nano Palladium|BioSampleModel:Model organism or animal", null, null, null, null, null, null, null, null, "22 ng nano Pd treated zebrafish", "nano Pd22ng", "nano Pd22ng", "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 leaches to the aquatic system through heavy precipitation and runoff. Here  we aimed to profile the transcriptome of Danio rerio exposed to nano palladium at xxx ng/L environmental concentration. 500 ng of total RNA of 22 ng/L nano Pd fishes was isolated and the enriched mRNAs were reverse transcribed to form cDNA. The concentrations above 2 ng/L were used for the transcriptome analysis with the reference genome. Around 66612 genes were expressed in 22 ng/L with respect to the total reads. The comparison of Control vs Treatment I observed of 2738 DEGs  with 819 up regulated and 1919 down regulated genes. The up regulation and down regulation of the genes were evident that the nano Pd affects the physiological and endocrine functions of zebrafish at higher concentrations.", null, null, "RNA-Seq", "TRANSCRIPTOMIC", "PCR", "PAIRED", "ILLUMINA", "Illumina HiSeq 1000", null, "SRP347209", null, null, "Treated1_R1.fastq Treated1_R2.fastq", "fastq fastq", 4314727500.0, 14382425.0, "Treated1 R1.fastq", "0:150 1:150", "A:1135864123;C:1026590561;G:1043810842;T:1108320852;N:141122", 150, 150, null, null, 1135864123, 1026590561, 1043810842, 1108320852, 141122, "SRX13191218", "SRS11119340", "SRA1332819", "ANILA P ASHOKAN|BHARATHIAR UNIVERSITY ZOOLOGY DEPARTEMNT", "ANILA P ASHOKAN", 2, 0.8989, 0.90255, 0.06353, 0.06414, 0.76142, 0.76658, 0.51971, 0.5185, 150, 150, "B", "B", "biological fallback assumption", "illumina", "hiseq_era", "unknown", "random_priming", "unknown", "bulk", "unknown", "unknown", null, "Unknown", "2021-11-22", "Adult", "Adult", "Whole Organism", "All anatomical structures"]], "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": ["rowid"], "primary_key_values": ["67035"], "units": {}, "query_ms": 10.15514400205575}