{"database": "metadata", "table": "run_metadata", "rows": [[24642, "SRR25475238", "SRX21207440", "SRS18464909", "SRP452529", "PRJNA1000943", "Transcriptome analysis reveals differences in developmental neurotoxicity mechanism of methyl   ethyl   and propyl  parabens in zebrafish embryos", "GSE239773", "Transcriptome Analysis", "Limited studies on comparison of developmental neurotoxicity of parabens have been conducted and unharmonized concentrations between phenotypic observations and transcriptomic analysis hamper understanding of their differential molecular mechanism. Developmental toxicity testing was conducted with commonly used methyl  MtP  ethyl  EtP and propyl paraben PrP in zebrafish embryos. Based on benchmark dose 5% BMD5  embryonic mortality based point of departure M PoD values of three parabens were determined and changes in locomotor behavior were evaluated at concentrations of 0  M PoD/50  M PoD/10  and M PoD in which transcriptomic analysis was conducted to explore the underlying neurotoxicity mechanism. Higher long chained parabens were more toxic than short chained parabens  as determined by M PoD values of 154.1  72.6  and 24.2 \u00b5M for MtP  EtP  and PrP  respectively. While exposure to EtP resulted in hyperactivity  no behavior effect was observed by MtP and PrP. Transcriptomics analysis revealed that abnormal behaviors in EtP exposed group are associated with the distinctly enriched pathways in signal  transport  calcium ion binding  and metal binding. In contrast  exposure to MtP and PrP mainly disrupted the membrane and transmembrane  which are closely linked to abnormal embryonic development rather than neurobehavior changes. According to the changes in expression of signature mRNAs  tentative transcriptomic based PoD T PoD values for each paraben were determined as MtP 2.68 \u00b5M  EtP 3.85 \u00b5M  and PrP 1.4 \u00b5M. Overall design: Comparative gene expression profiling analysis of RNA seq data for zebrafish Danio rerio. This study was supported by Korea Environment Industry & Technology Institute KEITI through \"the Technology Development Project for Safety Management of Household Chemical Products\"  funded by Korea Ministry of Environment MOE grant number 2020002960006.", null, null, null, "Zebrafish MtP BMD5 [MtP BMD5 3]", "GSM7671211", null, "source name:Whole body|strain:AB wild type|tissue:Whole body|developmental stage:120 hpf|treatment:MtP BMD5|geo loc name:missing|collection date:missing", "Zebrafish MtP BMD5 [MtP BMD5 3]", "Filtered reads  quality >20 and length >50  were aligned to the Ensembl reference genome on Danio rerio GCA 000002035.4. Assembly: GCA 000002035.4 Supplementary files format and content: RPKM  TPM values", "Whole body", null, "The RNA extraction was conducted with RNAzol\u00ae reagent Molecular Research Center Inc.  Cincinnati  OH  USA  and appropriate amounts >200 ng of RNA were obtained. A KAPA Library Quantification Kit was used to quantify the sequencing library", null, "strain:AB wild type|tissue:Whole body|developmental stage:120 hpf|treatment:MtP BMD5", "GSM7671211", "GSM7671211: Zebrafish MtP BMD5 [MtP BMD5 3]; Danio rerio; RNA Seq", "GSM7671211 r1", "GSM7671211", "1", "The RNA extraction was conducted with RNAzol\u00ae reagent Molecular Research Center Inc.  Cincinnati  OH  USA  and appropriate amounts >200 ng of RNA were obtained. A KAPA Library Quantification Kit was used to quantify the sequencing library", null, "RNA-Seq", "TRANSCRIPTOMIC", "cDNA", "PAIRED", "ILLUMINA", "Illumina NovaSeq 6000", null, "SRP452529", null, "loader:fastq load.py", "MtP_BMD5_3_1.fq.gz MtP_BMD5_3_2.fq.gz", "fastq fastq", 4936487470.0, 16345985.0, "GSM7671211 r1", "0:151 1:151", "A:1378752654;C:1113742094;G:1158863879;T:1284972892;N:155951", 151, 151, null, null, 1378752654, 1113742094, 1158863879, 1284972892, 155951, "SRX21207440", "SRS18464909", "SRA1684601", "Seoul National University of Science and Technology", "Seoul National University of Science and Technology", 2, 0.95301, 0.95122, 0.0955, 0.0941, 0.71208, 0.71648, 0.44704, 0.44817, 151, 151, "B", "B", "biological fallback assumption", "illumina", "novaseq_era", "unknown", "cdna_unspecified", "unknown", "bulk", "unknown", "unknown", null, "South Korea", "2023-08-01", "Larval", "Larval", "Trunk", "Surface Structure"]], "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": ["24642"], "units": {}, "query_ms": 9.54575400101021}