{"database": "metadata", "table": "run_metadata", "rows": [[74615, "SRR24037111", "SRX19839674", "SRS17198396", "SRP427499", "PRJNA945049", "linc mipep and linc wrb encode micropeptides that regulate chromatin accessibility in vertebrate specific neural cells", "PRJNA945049", "Other", "Thousands of long intergenic non coding RNAs lincRNAs are transcribed throughout the vertebrate genome. A subset of lincRNAs enriched in developing brains have recently been found to contain cryptic open reading frames and are speculated to encode micropeptides. However  systematic identification and functional assessment of these transcripts have been hindered by technical challenges caused by their small size. Here we show that two putative lincRNAs linc mipep  also called lnc rps25  and linc wrb encode micropeptides with homology to the vertebrate specific chromatin architectural protein  Hmgn1  and demonstrate that they are required for development of vertebrate specific brain cell types. Specifically  we show that NMDA receptor mediated pathways are dysregulated in zebrafish lacking these micropeptides and that their loss preferentially alters the gene regulatory networks that establish cerebellar cells and oligodendrocytes   evolutionarily newer cell types that develop postnatally in humans. These findings reveal a key missing link in the evolution of vertebrate brain cell development and illustrate a genetic basis for how some neural cell types are more susceptible to chromatin disruptions  with implications for neurodevelopmental disorders and disease.", null, null, null, "linc mipep scMultiome 6d brains   Wild type linc mipep siblings scRNA seq [10x BAM]", "linc mipep scMultiome 6d brains   WT scRNA AGN002631 [10x BAM]", null, "strain:TU/AB|age:144|dev stage:Day 6|sex:pooled male and female|tissue:brain|genotype:+/+|strain maternal:linc mipep WT|strain paternal:linc mipep WT|molecule:RNA|sample ref:AGS002041|replicate ref:AGN002631|replicate order:1|project label long:linc mipep homozygous mutant vs WT siblings sc Multiome 6dpf brains|project label short:linc mipep scMultiome 6d brains|sample label short:WT RNA|replicate label short:WT scRNA|filetype:bam|BioSampleModel:Model organism or animal", null, null, null, null, null, null, null, null, "linc mipep scMultiome 6d brains   Wild type linc mipep siblings scRNA seq [10x BAM]", "AGR003365 AGR003384", "AGR003365 AGR003384", "RNA", null, null, "OTHER", "TRANSCRIPTOMIC", "unspecified", "PAIRED", "ILLUMINA", "Illumina NovaSeq 6000", null, "SRP427499", null, "assembly:GRCz11", "linc_mipep_scMultiome_6d_brains_WT_AGN002631_gex_possorted_bam.bam", "10X Genomics bam file", 17819875800.0, 197998620.0, "linc mipep scMultiome 6d brains WT AGN002631 gex possorted bam.bam", "0:90", "A:5656585750;C:3315807167;G:3546967171;T:5300024689;N:491023", 90, null, null, null, 5656585750, 3315807167, 3546967171, 5300024689, 491023, "SRX19839674", "SRS17198396", "SRA1614141", "Yale_Giraldez|Genetics", "Yale_Giraldez_Group", 1, 0.87958, null, 0.45053, null, 0.7709, null, 0.50096, null, 90, null, "B", null, "usable mapping rate", "illumina", "novaseq_era", "unknown", "unknown", "unknown", "sc", "single_cell_droplet", "10x", null, "United States", "2023-03-31", "Larval", "Larval", "Brain", "Nervous System"]], "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": ["74615"], "units": {}, "query_ms": 8.922506996896118}