run_metadata: 70700
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 |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
| 70700 | SRR21457006 | SRX17460727 | SRS15014538 | SRP385641 | PRJNA857143 | Single cell transcriptomic data of zebrafish lbw mutant | PRJNA857143 | Other | Zebrafish lbw mutant exhibits hepatized anterior intestine. To characterize the functional liver cells in lbw intestine we dissected lbw intestine at 6 dpf and carried out scRNA seq to compare its cell population clusters with wild type liver and intestine. | Hepatized intestine in lbw S1 L002 | isolate:lbw/cdx1b mutant|dev stage:6 dpf|sex:female and male|tissue:hepatized intestine|aliquot:aliquot 2|BioSampleModel:Model organism or animal | scRNA Seq of zebrafish: 6 dpf lbw mutant intestine | LG S1 L002 aliquot 2 | LG S1 L002 aliquot 2 | using Chromium Single Cell three prime GEM v3.1 Reagent Kit | RNA-Seq | TRANSCRIPTOMIC SINGLE CELL | Oligo-dT | PAIRED | ILLUMINA | Illumina NovaSeq 6000 | SRP385641 | 20200806_S1_LG_20200825NB_S1_L002_I1_001.fastq.gz 20200806_S1_LG_20200825NB_S1_L002_R1_001.fastq.gz 20200806_S1_LG_20200825NB_S1_L002_R2_001.fastq.gz | fastq fastq fastq | 14193607989.0 | 75901647.0 | 20200806 S1 LG 20200825NB S1 L002 I1 001.fastq.gz | 0:8 1:28 2:151 | A:3301648645;C:2611036971;G:2734265669;T:2814086798;N:110614 | 8 | 28 | 151 | 3301648645 | 2611036971 | 2734265669 | 2814086798 | 110614 | SRX17460727 | SRS15014538 | SRA1491985 | Southwest University|Institute of Developmental Biology and Regenerativ | Southwest University | 1 | 0.91108 | 0.11686 | 0.85557 | 0.57466 | 151 | B | usable mapping rate | illumina | novaseq_era | unknown | poly_a | unknown | sc | single_cell_droplet | 10x | China | 2022-09-11 | Larval | Larval | Gut | Digestive System |