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27 rows where experiment.library_selection = "cDNA_oligo_dT", technology = "unknown" and tissue_curation = "Brain"

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tissue_curation_coarse 1

tissue_curation 1

  • Brain · 27 ✖

technology 1

  • unknown · 27 ✖

experiment.platform 1

experiment.library_strategy 1

experiment.library_source 1

experiment.library_selection 1

  • cDNA_oligo_dT · 27 ✖

experiment.library_layout 1

devstage_curation_coarse 1

devstage_curation 1

Link 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
32107 32107 SRR29012733 SRX24539435 SRS21284312 SRP507393 PRJNA1111146 RNA seq of adult zebrafish brain following traumatic brain injury and/or ISRIB exposure PRJNA1111146 Other Here analysed gene expression changes post Traumatic Brain Injury TBI and subsequent exposure to ISRIB in the brain of adult Danio rerio. 4 groups are available: control C traumatic brain injury TBI; T ISRIB injection I TBI and ISRIB injection TI.         I3 TK13   strain:Wild type|age:5 month|collection date:2023 08 20|geo loc name:Russia|sex:NA|tissue:brain|sample type:I3 TK13|treatment:ISRIB|BioSampleModel:Model organism or animal                 Here analysed gene expression changes post Traumatic Brain Injury TBI and subsequent exposure to ISRIB in the brain of adult Danio rerio. 4 groups are available: control C traumatic brain injury TBI; T ISRIB injection I TBI and ISRIB injection TI. TK13 TK13 RNA isolation was performed using the ExtractRNA reagent following the standard protocol for TriZol mediated extraction. The RNA quality was checked by capillary electrophoresis using the QIAxcel Advanced program. Total RNA was used for isolation of polyA fraction using NEBNext PolyA mRNA Magnetic Isolation Module according to the manufacturer's recommendations. RNA was next quantified on Quntus fluorometer and used for library preparation using NEBNext UltraTM Directional RNA Library PrepKit for Illumina with NEBNext Multiplex Oligos for Illumina according to the manufacturer's recommendations. The quality of libraries was confirmed by capillary electrophoresis using the QIAxcel Advanced program. Pair end sequencing was performed using Illumina HiSeq2500 with a read length of 110 bp.     RNA-Seq TRANSCRIPTOMIC cDNA_oligo_dT PAIRED ILLUMINA Illumina HiSeq 2500   SRP507393     I3-TK13_S9_R1_001.fastq.gz I3-TK13_S9_R2_001.fastq.gz fastq fastq 1951476351.0 9046948.0 I3 TK13 S9 R1 001.fastq.gz 0:107.84 1:107.86 A:532508211;C:436986899;G:434983140;T:539541026;N:7457075 107 107     532508211 436986899 434983140 539541026 7457075 SRX24539435 SRS21284312 SRA1865594 Sirius University of Science and Technology|Genetics and Life Science Sirius University of Science and Technology                       B B biological fallback assumption illumina hiseq_era unknown poly_a nebnext bulk unknown unknown   Russia 2024-05-13 Adult Adult Brain Nervous System
32108 32108 SRR29012734 SRX24539434 SRS21284311 SRP507393 PRJNA1111146 RNA seq of adult zebrafish brain following traumatic brain injury and/or ISRIB exposure PRJNA1111146 Other Here analysed gene expression changes post Traumatic Brain Injury TBI and subsequent exposure to ISRIB in the brain of adult Danio rerio. 4 groups are available: control C traumatic brain injury TBI; T ISRIB injection I TBI and ISRIB injection TI.         I2 TK12   strain:Wild type|age:5 month|collection date:2023 08 20|geo loc name:Russia|sex:NA|tissue:brain|sample type:I2 TK12|treatment:ISRIB|BioSampleModel:Model organism or animal                 Here analysed gene expression changes post Traumatic Brain Injury TBI and subsequent exposure to ISRIB in the brain of adult Danio rerio. 4 groups are available: control C traumatic brain injury TBI; T ISRIB injection I TBI and ISRIB injection TI. TK12 TK12 RNA isolation was performed using the ExtractRNA reagent following the standard protocol for TriZol mediated extraction. The RNA quality was checked by capillary electrophoresis using the QIAxcel Advanced program. Total RNA was used for isolation of polyA fraction using NEBNext PolyA mRNA Magnetic Isolation Module according to the manufacturer's recommendations. RNA was next quantified on Quntus fluorometer and used for library preparation using NEBNext UltraTM Directional RNA Library PrepKit for Illumina with NEBNext Multiplex Oligos for Illumina according to the manufacturer's recommendations. The quality of libraries was confirmed by capillary electrophoresis using the QIAxcel Advanced program. Pair end sequencing was performed using Illumina HiSeq2500 with a read length of 110 bp.     RNA-Seq TRANSCRIPTOMIC cDNA_oligo_dT PAIRED ILLUMINA Illumina HiSeq 2500   SRP507393     I2-TK12_S8_R1_001.fastq.gz I2-TK12_S8_R2_001.fastq.gz fastq fastq 2483693754.0 11573280.0 I2 TK12 S8 R1 001.fastq.gz 0:107.28 1:107.32 A:690681797;C:542407183;G:537633561;T:698259696;N:14711517 107 107     690681797 542407183 537633561 698259696 14711517 SRX24539434 SRS21284311 SRA1865594 Sirius University of Science and Technology|Genetics and Life Science Sirius University of Science and Technology                       B B biological fallback assumption illumina hiseq_era unknown poly_a nebnext bulk unknown unknown   Russia 2024-05-13 Adult Adult Brain Nervous System
32109 32109 SRR29012735 SRX24539433 SRS21284310 SRP507393 PRJNA1111146 RNA seq of adult zebrafish brain following traumatic brain injury and/or ISRIB exposure PRJNA1111146 Other Here analysed gene expression changes post Traumatic Brain Injury TBI and subsequent exposure to ISRIB in the brain of adult Danio rerio. 4 groups are available: control C traumatic brain injury TBI; T ISRIB injection I TBI and ISRIB injection TI.         C9 TK39   strain:Wild type|age:5 month|collection date:2023 08 20|geo loc name:Russia|sex:NA|tissue:brain|sample type:C9 TK39|treatment:Control|BioSampleModel:Model organism or animal                 Here analysed gene expression changes post Traumatic Brain Injury TBI and subsequent exposure to ISRIB in the brain of adult Danio rerio. 4 groups are available: control C traumatic brain injury TBI; T ISRIB injection I TBI and ISRIB injection TI. TK39 TK39 RNA isolation was performed using the ExtractRNA reagent following the standard protocol for TriZol mediated extraction. The RNA quality was checked by capillary electrophoresis using the QIAxcel Advanced program. Total RNA was used for isolation of polyA fraction using NEBNext PolyA mRNA Magnetic Isolation Module according to the manufacturer's recommendations. RNA was next quantified on Quntus fluorometer and used for library preparation using NEBNext UltraTM Directional RNA Library PrepKit for Illumina with NEBNext Multiplex Oligos for Illumina according to the manufacturer's recommendations. The quality of libraries was confirmed by capillary electrophoresis using the QIAxcel Advanced program. Pair end sequencing was performed using Illumina HiSeq2500 with a read length of 110 bp.     RNA-Seq TRANSCRIPTOMIC cDNA_oligo_dT PAIRED ILLUMINA Illumina HiSeq 2500   SRP507393     C9-TK39_S27_R1_001.fastq.gz C9-TK39_S27_R2_001.fastq.gz fastq fastq 2370365419.0 11054395.0 C9 TK39 S27 R1 001.fastq.gz 0:107.19 1:107.24 A:638716678;C:538512113;G:535138614;T:642111655;N:15886359 107 107     638716678 538512113 535138614 642111655 15886359 SRX24539433 SRS21284310 SRA1865594 Sirius University of Science and Technology|Genetics and Life Science Sirius University of Science and Technology                       B B biological fallback assumption illumina hiseq_era unknown poly_a nebnext bulk unknown unknown   Russia 2024-05-13 Adult Adult Brain Nervous System
32110 32110 SRR29012736 SRX24539432 SRS21284309 SRP507393 PRJNA1111146 RNA seq of adult zebrafish brain following traumatic brain injury and/or ISRIB exposure PRJNA1111146 Other Here analysed gene expression changes post Traumatic Brain Injury TBI and subsequent exposure to ISRIB in the brain of adult Danio rerio. 4 groups are available: control C traumatic brain injury TBI; T ISRIB injection I TBI and ISRIB injection TI.         C8 TK38   strain:Wild type|age:5 month|collection date:2023 08 20|geo loc name:Russia|sex:NA|tissue:brain|sample type:C8 TK38|treatment:Control|BioSampleModel:Model organism or animal                 Here analysed gene expression changes post Traumatic Brain Injury TBI and subsequent exposure to ISRIB in the brain of adult Danio rerio. 4 groups are available: control C traumatic brain injury TBI; T ISRIB injection I TBI and ISRIB injection TI. TK38 TK38 RNA isolation was performed using the ExtractRNA reagent following the standard protocol for TriZol mediated extraction. The RNA quality was checked by capillary electrophoresis using the QIAxcel Advanced program. Total RNA was used for isolation of polyA fraction using NEBNext PolyA mRNA Magnetic Isolation Module according to the manufacturer's recommendations. RNA was next quantified on Quntus fluorometer and used for library preparation using NEBNext UltraTM Directional RNA Library PrepKit for Illumina with NEBNext Multiplex Oligos for Illumina according to the manufacturer's recommendations. The quality of libraries was confirmed by capillary electrophoresis using the QIAxcel Advanced program. Pair end sequencing was performed using Illumina HiSeq2500 with a read length of 110 bp.     RNA-Seq TRANSCRIPTOMIC cDNA_oligo_dT PAIRED ILLUMINA Illumina HiSeq 2500   SRP507393     C8-TK38_S26_R1_001.fastq.gz C8-TK38_S26_R2_001.fastq.gz fastq fastq 2329920345.0 10848811.0 C8 TK38 S26 R1 001.fastq.gz 0:107.36 1:107.40 A:628958466;C:528866941;G:524557104;T:634765152;N:12772682 107 107     628958466 528866941 524557104 634765152 12772682 SRX24539432 SRS21284309 SRA1865594 Sirius University of Science and Technology|Genetics and Life Science Sirius University of Science and Technology                       B B biological fallback assumption illumina hiseq_era unknown poly_a nebnext bulk unknown unknown   Russia 2024-05-13 Adult Adult Brain Nervous System
32111 32111 SRR29012737 SRX24539431 SRS21284308 SRP507393 PRJNA1111146 RNA seq of adult zebrafish brain following traumatic brain injury and/or ISRIB exposure PRJNA1111146 Other Here analysed gene expression changes post Traumatic Brain Injury TBI and subsequent exposure to ISRIB in the brain of adult Danio rerio. 4 groups are available: control C traumatic brain injury TBI; T ISRIB injection I TBI and ISRIB injection TI.         C7 TK37   strain:Wild type|age:5 month|collection date:2023 08 20|geo loc name:Russia|sex:NA|tissue:brain|sample type:C7 TK37|treatment:Control|BioSampleModel:Model organism or animal                 Here analysed gene expression changes post Traumatic Brain Injury TBI and subsequent exposure to ISRIB in the brain of adult Danio rerio. 4 groups are available: control C traumatic brain injury TBI; T ISRIB injection I TBI and ISRIB injection TI. TK37 TK37 RNA isolation was performed using the ExtractRNA reagent following the standard protocol for TriZol mediated extraction. The RNA quality was checked by capillary electrophoresis using the QIAxcel Advanced program. Total RNA was used for isolation of polyA fraction using NEBNext PolyA mRNA Magnetic Isolation Module according to the manufacturer's recommendations. RNA was next quantified on Quntus fluorometer and used for library preparation using NEBNext UltraTM Directional RNA Library PrepKit for Illumina with NEBNext Multiplex Oligos for Illumina according to the manufacturer's recommendations. The quality of libraries was confirmed by capillary electrophoresis using the QIAxcel Advanced program. Pair end sequencing was performed using Illumina HiSeq2500 with a read length of 110 bp.     RNA-Seq TRANSCRIPTOMIC cDNA_oligo_dT PAIRED ILLUMINA Illumina HiSeq 2500   SRP507393     C7-TK37_S25_R1_001.fastq.gz C7-TK37_S25_R2_001.fastq.gz fastq fastq 1536459611.0 7103135.0 C7 TK37 S25 R1 001.fastq.gz 0:108.14 1:108.16 A:423368949;C:341783029;G:338600069;T:427083273;N:5624291 108 108     423368949 341783029 338600069 427083273 5624291 SRX24539431 SRS21284308 SRA1865594 Sirius University of Science and Technology|Genetics and Life Science Sirius University of Science and Technology                       B B biological fallback assumption illumina hiseq_era unknown poly_a nebnext bulk unknown unknown   Russia 2024-05-13 Adult Adult Brain Nervous System
32112 32112 SRR29012738 SRX24539430 SRS21284307 SRP507393 PRJNA1111146 RNA seq of adult zebrafish brain following traumatic brain injury and/or ISRIB exposure PRJNA1111146 Other Here analysed gene expression changes post Traumatic Brain Injury TBI and subsequent exposure to ISRIB in the brain of adult Danio rerio. 4 groups are available: control C traumatic brain injury TBI; T ISRIB injection I TBI and ISRIB injection TI.         C5 TK35   strain:Wild type|age:5 month|collection date:2023 08 20|geo loc name:Russia|sex:NA|tissue:brain|sample type:C5 TK35|treatment:Control|BioSampleModel:Model organism or animal                 Here analysed gene expression changes post Traumatic Brain Injury TBI and subsequent exposure to ISRIB in the brain of adult Danio rerio. 4 groups are available: control C traumatic brain injury TBI; T ISRIB injection I TBI and ISRIB injection TI. TK35 TK35 RNA isolation was performed using the ExtractRNA reagent following the standard protocol for TriZol mediated extraction. The RNA quality was checked by capillary electrophoresis using the QIAxcel Advanced program. Total RNA was used for isolation of polyA fraction using NEBNext PolyA mRNA Magnetic Isolation Module according to the manufacturer's recommendations. RNA was next quantified on Quntus fluorometer and used for library preparation using NEBNext UltraTM Directional RNA Library PrepKit for Illumina with NEBNext Multiplex Oligos for Illumina according to the manufacturer's recommendations. The quality of libraries was confirmed by capillary electrophoresis using the QIAxcel Advanced program. Pair end sequencing was performed using Illumina HiSeq2500 with a read length of 110 bp.     RNA-Seq TRANSCRIPTOMIC cDNA_oligo_dT PAIRED ILLUMINA Illumina HiSeq 2500   SRP507393     C5-TK35_S24_R1_001.fastq.gz C5-TK35_S24_R2_001.fastq.gz fastq fastq 2315322327.0 10788443.0 C5 TK35 S24 R1 001.fastq.gz 0:107.29 1:107.33 A:634261894;C:516670403;G:512433057;T:639505411;N:12451562 107 107     634261894 516670403 512433057 639505411 12451562 SRX24539430 SRS21284307 SRA1865594 Sirius University of Science and Technology|Genetics and Life Science Sirius University of Science and Technology                       B B biological fallback assumption illumina hiseq_era unknown poly_a nebnext bulk unknown unknown   Russia 2024-05-13 Adult Adult Brain Nervous System
32113 32113 SRR29012739 SRX24539429 SRS21284306 SRP507393 PRJNA1111146 RNA seq of adult zebrafish brain following traumatic brain injury and/or ISRIB exposure PRJNA1111146 Other Here analysed gene expression changes post Traumatic Brain Injury TBI and subsequent exposure to ISRIB in the brain of adult Danio rerio. 4 groups are available: control C traumatic brain injury TBI; T ISRIB injection I TBI and ISRIB injection TI.         C4 TK34   strain:Wild type|age:5 month|collection date:2023 08 20|geo loc name:Russia|sex:NA|tissue:brain|sample type:C4 TK34|treatment:Control|BioSampleModel:Model organism or animal                 Here analysed gene expression changes post Traumatic Brain Injury TBI and subsequent exposure to ISRIB in the brain of adult Danio rerio. 4 groups are available: control C traumatic brain injury TBI; T ISRIB injection I TBI and ISRIB injection TI. TK34 TK34 RNA isolation was performed using the ExtractRNA reagent following the standard protocol for TriZol mediated extraction. The RNA quality was checked by capillary electrophoresis using the QIAxcel Advanced program. Total RNA was used for isolation of polyA fraction using NEBNext PolyA mRNA Magnetic Isolation Module according to the manufacturer's recommendations. RNA was next quantified on Quntus fluorometer and used for library preparation using NEBNext UltraTM Directional RNA Library PrepKit for Illumina with NEBNext Multiplex Oligos for Illumina according to the manufacturer's recommendations. The quality of libraries was confirmed by capillary electrophoresis using the QIAxcel Advanced program. Pair end sequencing was performed using Illumina HiSeq2500 with a read length of 110 bp.     RNA-Seq TRANSCRIPTOMIC cDNA_oligo_dT PAIRED ILLUMINA Illumina HiSeq 2500   SRP507393     C4-TK34_S23_R1_001.fastq.gz C4-TK34_S23_R2_001.fastq.gz fastq fastq 2329888357.0 11027349.0 C4 TK34 S23 R1 001.fastq.gz 0:105.60 1:105.68 A:630397662;C:520059288;G:515161552;T:635983184;N:28286671 105 105     630397662 520059288 515161552 635983184 28286671 SRX24539429 SRS21284306 SRA1865594 Sirius University of Science and Technology|Genetics and Life Science Sirius University of Science and Technology                       B B biological fallback assumption illumina hiseq_era unknown poly_a nebnext bulk unknown unknown   Russia 2024-05-13 Adult Adult Brain Nervous System
32114 32114 SRR29012740 SRX24539428 SRS21284305 SRP507393 PRJNA1111146 RNA seq of adult zebrafish brain following traumatic brain injury and/or ISRIB exposure PRJNA1111146 Other Here analysed gene expression changes post Traumatic Brain Injury TBI and subsequent exposure to ISRIB in the brain of adult Danio rerio. 4 groups are available: control C traumatic brain injury TBI; T ISRIB injection I TBI and ISRIB injection TI.         TI8 TK8   strain:Wild type|age:5 month|collection date:2023 08 20|geo loc name:Russia|sex:NA|tissue:brain|sample type:TI8 TK8|treatment:TBI + ISRIB|BioSampleModel:Model organism or animal                 Here analysed gene expression changes post Traumatic Brain Injury TBI and subsequent exposure to ISRIB in the brain of adult Danio rerio. 4 groups are available: control C traumatic brain injury TBI; T ISRIB injection I TBI and ISRIB injection TI. TK8 TK8 RNA isolation was performed using the ExtractRNA reagent following the standard protocol for TriZol mediated extraction. The RNA quality was checked by capillary electrophoresis using the QIAxcel Advanced program. Total RNA was used for isolation of polyA fraction using NEBNext PolyA mRNA Magnetic Isolation Module according to the manufacturer's recommendations. RNA was next quantified on Quntus fluorometer and used for library preparation using NEBNext UltraTM Directional RNA Library PrepKit for Illumina with NEBNext Multiplex Oligos for Illumina according to the manufacturer's recommendations. The quality of libraries was confirmed by capillary electrophoresis using the QIAxcel Advanced program. Pair end sequencing was performed using Illumina HiSeq2500 with a read length of 110 bp.     RNA-Seq TRANSCRIPTOMIC cDNA_oligo_dT PAIRED ILLUMINA Illumina HiSeq 2500   SRP507393     TI8-TK8_S7_R1_001.fastq.gz TI8-TK8_S7_R2_001.fastq.gz fastq fastq 4277303861.0 19878893.0 TI8 TK8 S7 R1 001.fastq.gz 0:107.58 1:107.59 A:1152512692;C:974435535;G:968603233;T:1168971271;N:12781130 107 107     1152512692 974435535 968603233 1168971271 12781130 SRX24539428 SRS21284305 SRA1865594 Sirius University of Science and Technology|Genetics and Life Science Sirius University of Science and Technology                       B B biological fallback assumption illumina hiseq_era unknown poly_a nebnext bulk unknown unknown   Russia 2024-05-13 Adult Adult Brain Nervous System
32115 32115 SRR29012741 SRX24539427 SRS21284304 SRP507393 PRJNA1111146 RNA seq of adult zebrafish brain following traumatic brain injury and/or ISRIB exposure PRJNA1111146 Other Here analysed gene expression changes post Traumatic Brain Injury TBI and subsequent exposure to ISRIB in the brain of adult Danio rerio. 4 groups are available: control C traumatic brain injury TBI; T ISRIB injection I TBI and ISRIB injection TI.         TI7 TK7   strain:Wild type|age:5 month|collection date:2023 08 20|geo loc name:Russia|sex:NA|tissue:brain|sample type:TI7 TK7|treatment:TBI + ISRIB|BioSampleModel:Model organism or animal                 Here analysed gene expression changes post Traumatic Brain Injury TBI and subsequent exposure to ISRIB in the brain of adult Danio rerio. 4 groups are available: control C traumatic brain injury TBI; T ISRIB injection I TBI and ISRIB injection TI. TK7 TK7 RNA isolation was performed using the ExtractRNA reagent following the standard protocol for TriZol mediated extraction. The RNA quality was checked by capillary electrophoresis using the QIAxcel Advanced program. Total RNA was used for isolation of polyA fraction using NEBNext PolyA mRNA Magnetic Isolation Module according to the manufacturer's recommendations. RNA was next quantified on Quntus fluorometer and used for library preparation using NEBNext UltraTM Directional RNA Library PrepKit for Illumina with NEBNext Multiplex Oligos for Illumina according to the manufacturer's recommendations. The quality of libraries was confirmed by capillary electrophoresis using the QIAxcel Advanced program. Pair end sequencing was performed using Illumina HiSeq2500 with a read length of 110 bp.     RNA-Seq TRANSCRIPTOMIC cDNA_oligo_dT PAIRED ILLUMINA Illumina HiSeq 2500   SRP507393     TI7-TK7_S6_R1_001.fastq.gz TI7-TK7_S6_R2_001.fastq.gz fastq fastq 2617012040.0 12126551.0 TI7 TK7 S6 R1 001.fastq.gz 0:107.90 1:107.91 A:701588599;C:599589501;G:599522057;T:710050024;N:6261859 107 107     701588599 599589501 599522057 710050024 6261859 SRX24539427 SRS21284304 SRA1865594 Sirius University of Science and Technology|Genetics and Life Science Sirius University of Science and Technology                       B B biological fallback assumption illumina hiseq_era unknown poly_a nebnext bulk unknown unknown   Russia 2024-05-13 Adult Adult Brain Nervous System
32116 32116 SRR29012742 SRX24539426 SRS21284303 SRP507393 PRJNA1111146 RNA seq of adult zebrafish brain following traumatic brain injury and/or ISRIB exposure PRJNA1111146 Other Here analysed gene expression changes post Traumatic Brain Injury TBI and subsequent exposure to ISRIB in the brain of adult Danio rerio. 4 groups are available: control C traumatic brain injury TBI; T ISRIB injection I TBI and ISRIB injection TI.         TI6 TK6   strain:Wild type|age:5 month|collection date:2023 08 20|geo loc name:Russia|sex:NA|tissue:brain|sample type:TI6 TK6|treatment:TBI + ISRIB|BioSampleModel:Model organism or animal                 Here analysed gene expression changes post Traumatic Brain Injury TBI and subsequent exposure to ISRIB in the brain of adult Danio rerio. 4 groups are available: control C traumatic brain injury TBI; T ISRIB injection I TBI and ISRIB injection TI. TK6 TK6 RNA isolation was performed using the ExtractRNA reagent following the standard protocol for TriZol mediated extraction. The RNA quality was checked by capillary electrophoresis using the QIAxcel Advanced program. Total RNA was used for isolation of polyA fraction using NEBNext PolyA mRNA Magnetic Isolation Module according to the manufacturer's recommendations. RNA was next quantified on Quntus fluorometer and used for library preparation using NEBNext UltraTM Directional RNA Library PrepKit for Illumina with NEBNext Multiplex Oligos for Illumina according to the manufacturer's recommendations. The quality of libraries was confirmed by capillary electrophoresis using the QIAxcel Advanced program. Pair end sequencing was performed using Illumina HiSeq2500 with a read length of 110 bp.     RNA-Seq TRANSCRIPTOMIC cDNA_oligo_dT PAIRED ILLUMINA Illumina HiSeq 2500   SRP507393     TI6-TK6_S5_R1_001.fastq.gz TI6-TK6_S5_R2_001.fastq.gz fastq fastq 5193201377.0 24181964.0 TI6 TK6 S5 R1 001.fastq.gz 0:107.36 1:107.40 A:1427289221;C:1151717905;G:1140736875;T:1447664955;N:25792421 107 107     1427289221 1151717905 1140736875 1447664955 25792421 SRX24539426 SRS21284303 SRA1865594 Sirius University of Science and Technology|Genetics and Life Science Sirius University of Science and Technology                       B B biological fallback assumption illumina hiseq_era unknown poly_a nebnext bulk unknown unknown   Russia 2024-05-13 Adult Adult Brain Nervous System
32117 32117 SRR29012743 SRX24539425 SRS21284302 SRP507393 PRJNA1111146 RNA seq of adult zebrafish brain following traumatic brain injury and/or ISRIB exposure PRJNA1111146 Other Here analysed gene expression changes post Traumatic Brain Injury TBI and subsequent exposure to ISRIB in the brain of adult Danio rerio. 4 groups are available: control C traumatic brain injury TBI; T ISRIB injection I TBI and ISRIB injection TI.         TI5 TK5   strain:Wild type|age:5 month|collection date:2023 08 20|geo loc name:Russia|sex:NA|tissue:brain|sample type:TI5 TK5|treatment:TBI + ISRIB|BioSampleModel:Model organism or animal                 Here analysed gene expression changes post Traumatic Brain Injury TBI and subsequent exposure to ISRIB in the brain of adult Danio rerio. 4 groups are available: control C traumatic brain injury TBI; T ISRIB injection I TBI and ISRIB injection TI. TK5 TK5 RNA isolation was performed using the ExtractRNA reagent following the standard protocol for TriZol mediated extraction. The RNA quality was checked by capillary electrophoresis using the QIAxcel Advanced program. Total RNA was used for isolation of polyA fraction using NEBNext PolyA mRNA Magnetic Isolation Module according to the manufacturer's recommendations. RNA was next quantified on Quntus fluorometer and used for library preparation using NEBNext UltraTM Directional RNA Library PrepKit for Illumina with NEBNext Multiplex Oligos for Illumina according to the manufacturer's recommendations. The quality of libraries was confirmed by capillary electrophoresis using the QIAxcel Advanced program. Pair end sequencing was performed using Illumina HiSeq2500 with a read length of 110 bp.     RNA-Seq TRANSCRIPTOMIC cDNA_oligo_dT PAIRED ILLUMINA Illumina HiSeq 2500   SRP507393     TI5-TK5_S4_R1_001.fastq.gz TI5-TK5_S4_R2_001.fastq.gz fastq fastq 2048648256.0 9524761.0 TI5 TK5 S4 R1 001.fastq.gz 0:107.53 1:107.56 A:575845206;C:442981520;G:439368910;T:583602331;N:6850289 107 107     575845206 442981520 439368910 583602331 6850289 SRX24539425 SRS21284302 SRA1865594 Sirius University of Science and Technology|Genetics and Life Science Sirius University of Science and Technology                       B B biological fallback assumption illumina hiseq_era unknown poly_a nebnext bulk unknown unknown   Russia 2024-05-13 Adult Adult Brain Nervous System
32118 32118 SRR29012744 SRX24539424 SRS21284301 SRP507393 PRJNA1111146 RNA seq of adult zebrafish brain following traumatic brain injury and/or ISRIB exposure PRJNA1111146 Other Here analysed gene expression changes post Traumatic Brain Injury TBI and subsequent exposure to ISRIB in the brain of adult Danio rerio. 4 groups are available: control C traumatic brain injury TBI; T ISRIB injection I TBI and ISRIB injection TI.         TI4 TK4   strain:Wild type|age:5 month|collection date:2023 08 20|geo loc name:Russia|sex:NA|tissue:brain|sample type:TI4 TK4|treatment:TBI + ISRIB|BioSampleModel:Model organism or animal                 Here analysed gene expression changes post Traumatic Brain Injury TBI and subsequent exposure to ISRIB in the brain of adult Danio rerio. 4 groups are available: control C traumatic brain injury TBI; T ISRIB injection I TBI and ISRIB injection TI. TK4 TK4 RNA isolation was performed using the ExtractRNA reagent following the standard protocol for TriZol mediated extraction. The RNA quality was checked by capillary electrophoresis using the QIAxcel Advanced program. Total RNA was used for isolation of polyA fraction using NEBNext PolyA mRNA Magnetic Isolation Module according to the manufacturer's recommendations. RNA was next quantified on Quntus fluorometer and used for library preparation using NEBNext UltraTM Directional RNA Library PrepKit for Illumina with NEBNext Multiplex Oligos for Illumina according to the manufacturer's recommendations. The quality of libraries was confirmed by capillary electrophoresis using the QIAxcel Advanced program. Pair end sequencing was performed using Illumina HiSeq2500 with a read length of 110 bp.     RNA-Seq TRANSCRIPTOMIC cDNA_oligo_dT PAIRED ILLUMINA Illumina HiSeq 2500   SRP507393     TI4-TK4_S3_R1_001.fastq.gz TI4-TK4_S3_R2_001.fastq.gz fastq fastq 2858158305.0 13330760.0 TI4 TK4 S3 R1 001.fastq.gz 0:107.18 1:107.22 A:781642776;C:636257123;G:631858904;T:791480839;N:16918663 107 107     781642776 636257123 631858904 791480839 16918663 SRX24539424 SRS21284301 SRA1865594 Sirius University of Science and Technology|Genetics and Life Science Sirius University of Science and Technology                       B B biological fallback assumption illumina hiseq_era unknown poly_a nebnext bulk unknown unknown   Russia 2024-05-13 Adult Adult Brain Nervous System
32119 32119 SRR29012745 SRX24539423 SRS21284300 SRP507393 PRJNA1111146 RNA seq of adult zebrafish brain following traumatic brain injury and/or ISRIB exposure PRJNA1111146 Other Here analysed gene expression changes post Traumatic Brain Injury TBI and subsequent exposure to ISRIB in the brain of adult Danio rerio. 4 groups are available: control C traumatic brain injury TBI; T ISRIB injection I TBI and ISRIB injection TI.         TI3 TK3   strain:Wild type|age:5 month|collection date:2023 08 20|geo loc name:Russia|sex:NA|tissue:brain|sample type:TI3 TK3|treatment:TBI + ISRIB|BioSampleModel:Model organism or animal                 Here analysed gene expression changes post Traumatic Brain Injury TBI and subsequent exposure to ISRIB in the brain of adult Danio rerio. 4 groups are available: control C traumatic brain injury TBI; T ISRIB injection I TBI and ISRIB injection TI. TK3 TK3 RNA isolation was performed using the ExtractRNA reagent following the standard protocol for TriZol mediated extraction. The RNA quality was checked by capillary electrophoresis using the QIAxcel Advanced program. Total RNA was used for isolation of polyA fraction using NEBNext PolyA mRNA Magnetic Isolation Module according to the manufacturer's recommendations. RNA was next quantified on Quntus fluorometer and used for library preparation using NEBNext UltraTM Directional RNA Library PrepKit for Illumina with NEBNext Multiplex Oligos for Illumina according to the manufacturer's recommendations. The quality of libraries was confirmed by capillary electrophoresis using the QIAxcel Advanced program. Pair end sequencing was performed using Illumina HiSeq2500 with a read length of 110 bp.     RNA-Seq TRANSCRIPTOMIC cDNA_oligo_dT PAIRED ILLUMINA Illumina HiSeq 2500   SRP507393     TI3-TK3_S2_R1_001.fastq.gz TI3-TK3_S2_R2_001.fastq.gz fastq fastq 1566054292.0 7297460.0 TI3 TK3 S2 R1 001.fastq.gz 0:107.29 1:107.31 A:419497793;C:357426293;G:355453976;T:425654356;N:8021874 107 107     419497793 357426293 355453976 425654356 8021874 SRX24539423 SRS21284300 SRA1865594 Sirius University of Science and Technology|Genetics and Life Science Sirius University of Science and Technology                       B B biological fallback assumption illumina hiseq_era unknown poly_a nebnext bulk unknown unknown   Russia 2024-05-13 Adult Adult Brain Nervous System
32120 32120 SRR29012746 SRX24539422 SRS21284299 SRP507393 PRJNA1111146 RNA seq of adult zebrafish brain following traumatic brain injury and/or ISRIB exposure PRJNA1111146 Other Here analysed gene expression changes post Traumatic Brain Injury TBI and subsequent exposure to ISRIB in the brain of adult Danio rerio. 4 groups are available: control C traumatic brain injury TBI; T ISRIB injection I TBI and ISRIB injection TI.         TI2 TK2   strain:Wild type|age:5 month|collection date:2023 08 20|geo loc name:Russia|sex:NA|tissue:brain|sample type:TI2 TK2|treatment:TBI + ISRIB|BioSampleModel:Model organism or animal                 Here analysed gene expression changes post Traumatic Brain Injury TBI and subsequent exposure to ISRIB in the brain of adult Danio rerio. 4 groups are available: control C traumatic brain injury TBI; T ISRIB injection I TBI and ISRIB injection TI. TK2 TK2 RNA isolation was performed using the ExtractRNA reagent following the standard protocol for TriZol mediated extraction. The RNA quality was checked by capillary electrophoresis using the QIAxcel Advanced program. Total RNA was used for isolation of polyA fraction using NEBNext PolyA mRNA Magnetic Isolation Module according to the manufacturer's recommendations. RNA was next quantified on Quntus fluorometer and used for library preparation using NEBNext UltraTM Directional RNA Library PrepKit for Illumina with NEBNext Multiplex Oligos for Illumina according to the manufacturer's recommendations. The quality of libraries was confirmed by capillary electrophoresis using the QIAxcel Advanced program. Pair end sequencing was performed using Illumina HiSeq2500 with a read length of 110 bp.     RNA-Seq TRANSCRIPTOMIC cDNA_oligo_dT PAIRED ILLUMINA Illumina HiSeq 2500   SRP507393     TI2-TK2_S1_R1_001.fastq.gz TI2-TK2_S1_R2_001.fastq.gz fastq fastq 1865518160.0 8666289.0 TI2 TK2 S1 R1 001.fastq.gz 0:107.62 1:107.64 A:510590407;C:415852163;G:413264662;T:517549106;N:8261822 107 107     510590407 415852163 413264662 517549106 8261822 SRX24539422 SRS21284299 SRA1865594 Sirius University of Science and Technology|Genetics and Life Science Sirius University of Science and Technology                       B B biological fallback assumption illumina hiseq_era unknown poly_a nebnext bulk unknown unknown   Russia 2024-05-13 Adult Adult Brain Nervous System
32121 32121 SRR29012747 SRX24539421 SRS21284297 SRP507393 PRJNA1111146 RNA seq of adult zebrafish brain following traumatic brain injury and/or ISRIB exposure PRJNA1111146 Other Here analysed gene expression changes post Traumatic Brain Injury TBI and subsequent exposure to ISRIB in the brain of adult Danio rerio. 4 groups are available: control C traumatic brain injury TBI; T ISRIB injection I TBI and ISRIB injection TI.         C3 TK33   strain:Wild type|age:5 month|collection date:2023 08 20|geo loc name:Russia|sex:NA|tissue:brain|sample type:C3 TK33|treatment:Control|BioSampleModel:Model organism or animal                 Here analysed gene expression changes post Traumatic Brain Injury TBI and subsequent exposure to ISRIB in the brain of adult Danio rerio. 4 groups are available: control C traumatic brain injury TBI; T ISRIB injection I TBI and ISRIB injection TI. TK33 TK33 RNA isolation was performed using the ExtractRNA reagent following the standard protocol for TriZol mediated extraction. The RNA quality was checked by capillary electrophoresis using the QIAxcel Advanced program. Total RNA was used for isolation of polyA fraction using NEBNext PolyA mRNA Magnetic Isolation Module according to the manufacturer's recommendations. RNA was next quantified on Quntus fluorometer and used for library preparation using NEBNext UltraTM Directional RNA Library PrepKit for Illumina with NEBNext Multiplex Oligos for Illumina according to the manufacturer's recommendations. The quality of libraries was confirmed by capillary electrophoresis using the QIAxcel Advanced program. Pair end sequencing was performed using Illumina HiSeq2500 with a read length of 110 bp.     RNA-Seq TRANSCRIPTOMIC cDNA_oligo_dT PAIRED ILLUMINA Illumina HiSeq 2500   SRP507393     C3-TK33_S22_R1_001.fastq.gz C3-TK33_S22_R2_001.fastq.gz fastq fastq 1780541368.0 8253847.0 C3 TK33 S22 R1 001.fastq.gz 0:107.85 1:107.87 A:513337117;C:371411358;G:365394452;T:521921928;N:8476513 107 107     513337117 371411358 365394452 521921928 8476513 SRX24539421 SRS21284297 SRA1865594 Sirius University of Science and Technology|Genetics and Life Science Sirius University of Science and Technology                       T T mates < 9% mapping rate illumina hiseq_era unknown poly_a nebnext bulk unknown unknown   Russia 2024-05-13 Adult Adult Brain Nervous System
32122 32122 SRR29012748 SRX24539420 SRS21284298 SRP507393 PRJNA1111146 RNA seq of adult zebrafish brain following traumatic brain injury and/or ISRIB exposure PRJNA1111146 Other Here analysed gene expression changes post Traumatic Brain Injury TBI and subsequent exposure to ISRIB in the brain of adult Danio rerio. 4 groups are available: control C traumatic brain injury TBI; T ISRIB injection I TBI and ISRIB injection TI.         T7 TK30   strain:Wild type|age:5 month|collection date:2023 08 20|geo loc name:Russia|sex:NA|tissue:brain|sample type:T7 TK30|treatment:TBI|BioSampleModel:Model organism or animal                 Here analysed gene expression changes post Traumatic Brain Injury TBI and subsequent exposure to ISRIB in the brain of adult Danio rerio. 4 groups are available: control C traumatic brain injury TBI; T ISRIB injection I TBI and ISRIB injection TI. TK30 TK30 RNA isolation was performed using the ExtractRNA reagent following the standard protocol for TriZol mediated extraction. The RNA quality was checked by capillary electrophoresis using the QIAxcel Advanced program. Total RNA was used for isolation of polyA fraction using NEBNext PolyA mRNA Magnetic Isolation Module according to the manufacturer's recommendations. RNA was next quantified on Quntus fluorometer and used for library preparation using NEBNext UltraTM Directional RNA Library PrepKit for Illumina with NEBNext Multiplex Oligos for Illumina according to the manufacturer's recommendations. The quality of libraries was confirmed by capillary electrophoresis using the QIAxcel Advanced program. Pair end sequencing was performed using Illumina HiSeq2500 with a read length of 110 bp.     RNA-Seq TRANSCRIPTOMIC cDNA_oligo_dT PAIRED ILLUMINA Illumina HiSeq 2500   SRP507393     T7-TK30_S19_R1_001.fastq.gz T7-TK30_S19_R2_001.fastq.gz fastq fastq 1503037534.0 7034919.0 T7 TK30 S19 R1 001.fastq.gz 0:106.80 1:106.85 A:415333842;C:329932770;G:326603495;T:418836802;N:12330625 106 106     415333842 329932770 326603495 418836802 12330625 SRX24539420 SRS21284298 SRA1865594 Sirius University of Science and Technology|Genetics and Life Science Sirius University of Science and Technology                       B B biological fallback assumption illumina hiseq_era unknown poly_a nebnext bulk unknown unknown   Russia 2024-05-13 Adult Adult Brain Nervous System
32123 32123 SRR29012749 SRX24539419 SRS21284296 SRP507393 PRJNA1111146 RNA seq of adult zebrafish brain following traumatic brain injury and/or ISRIB exposure PRJNA1111146 Other Here analysed gene expression changes post Traumatic Brain Injury TBI and subsequent exposure to ISRIB in the brain of adult Danio rerio. 4 groups are available: control C traumatic brain injury TBI; T ISRIB injection I TBI and ISRIB injection TI.         T6 TK29   strain:Wild type|age:5 month|collection date:2023 08 20|geo loc name:Russia|sex:NA|tissue:brain|sample type:T6 TK29|treatment:TBI|BioSampleModel:Model organism or animal                 Here analysed gene expression changes post Traumatic Brain Injury TBI and subsequent exposure to ISRIB in the brain of adult Danio rerio. 4 groups are available: control C traumatic brain injury TBI; T ISRIB injection I TBI and ISRIB injection TI. TK29 TK29 RNA isolation was performed using the ExtractRNA reagent following the standard protocol for TriZol mediated extraction. The RNA quality was checked by capillary electrophoresis using the QIAxcel Advanced program. Total RNA was used for isolation of polyA fraction using NEBNext PolyA mRNA Magnetic Isolation Module according to the manufacturer's recommendations. RNA was next quantified on Quntus fluorometer and used for library preparation using NEBNext UltraTM Directional RNA Library PrepKit for Illumina with NEBNext Multiplex Oligos for Illumina according to the manufacturer's recommendations. The quality of libraries was confirmed by capillary electrophoresis using the QIAxcel Advanced program. Pair end sequencing was performed using Illumina HiSeq2500 with a read length of 110 bp.     RNA-Seq TRANSCRIPTOMIC cDNA_oligo_dT PAIRED ILLUMINA Illumina HiSeq 2500   SRP507393     T6-TK29_S18_R1_001.fastq.gz T6-TK29_S18_R2_001.fastq.gz fastq fastq 2167995268.0 10034734.0 T6 TK29 S18 R1 001.fastq.gz 0:108.03 1:108.02 A:579041799;C:499138909;G:494478121;T:585849580;N:9486859 108 108     579041799 499138909 494478121 585849580 9486859 SRX24539419 SRS21284296 SRA1865594 Sirius University of Science and Technology|Genetics and Life Science Sirius University of Science and Technology                       B B biological fallback assumption illumina hiseq_era unknown poly_a nebnext bulk unknown unknown   Russia 2024-05-13 Adult Adult Brain Nervous System
32124 32124 SRR29012750 SRX24539418 SRS21284295 SRP507393 PRJNA1111146 RNA seq of adult zebrafish brain following traumatic brain injury and/or ISRIB exposure PRJNA1111146 Other Here analysed gene expression changes post Traumatic Brain Injury TBI and subsequent exposure to ISRIB in the brain of adult Danio rerio. 4 groups are available: control C traumatic brain injury TBI; T ISRIB injection I TBI and ISRIB injection TI.         T5 TK28   strain:Wild type|age:5 month|collection date:2023 08 20|geo loc name:Russia|sex:NA|tissue:brain|sample type:T5 TK28|treatment:TBI|BioSampleModel:Model organism or animal                 Here analysed gene expression changes post Traumatic Brain Injury TBI and subsequent exposure to ISRIB in the brain of adult Danio rerio. 4 groups are available: control C traumatic brain injury TBI; T ISRIB injection I TBI and ISRIB injection TI. TK28 TK28 RNA isolation was performed using the ExtractRNA reagent following the standard protocol for TriZol mediated extraction. The RNA quality was checked by capillary electrophoresis using the QIAxcel Advanced program. Total RNA was used for isolation of polyA fraction using NEBNext PolyA mRNA Magnetic Isolation Module according to the manufacturer's recommendations. RNA was next quantified on Quntus fluorometer and used for library preparation using NEBNext UltraTM Directional RNA Library PrepKit for Illumina with NEBNext Multiplex Oligos for Illumina according to the manufacturer's recommendations. The quality of libraries was confirmed by capillary electrophoresis using the QIAxcel Advanced program. Pair end sequencing was performed using Illumina HiSeq2500 with a read length of 110 bp.     RNA-Seq TRANSCRIPTOMIC cDNA_oligo_dT PAIRED ILLUMINA Illumina HiSeq 2500   SRP507393     T5-TK28_S17_R1_001.fastq.gz T5-TK28_S17_R2_001.fastq.gz fastq fastq 2809544566.0 13129662.0 T5 TK28 S17 R1 001.fastq.gz 0:106.97 1:107.01 A:778118767;C:619618875;G:614045445;T:781068333;N:16693146 106 107     778118767 619618875 614045445 781068333 16693146 SRX24539418 SRS21284295 SRA1865594 Sirius University of Science and Technology|Genetics and Life Science Sirius University of Science and Technology                       B B biological fallback assumption illumina hiseq_era unknown poly_a nebnext bulk unknown unknown   Russia 2024-05-13 Adult Adult Brain Nervous System
32125 32125 SRR29012751 SRX24539417 SRS21284294 SRP507393 PRJNA1111146 RNA seq of adult zebrafish brain following traumatic brain injury and/or ISRIB exposure PRJNA1111146 Other Here analysed gene expression changes post Traumatic Brain Injury TBI and subsequent exposure to ISRIB in the brain of adult Danio rerio. 4 groups are available: control C traumatic brain injury TBI; T ISRIB injection I TBI and ISRIB injection TI.         T4 TK27   strain:Wild type|age:5 month|collection date:2023 08 20|geo loc name:Russia|sex:NA|tissue:brain|sample type:T4 TK27|treatment:TBI|BioSampleModel:Model organism or animal                 Here analysed gene expression changes post Traumatic Brain Injury TBI and subsequent exposure to ISRIB in the brain of adult Danio rerio. 4 groups are available: control C traumatic brain injury TBI; T ISRIB injection I TBI and ISRIB injection TI. TK27 TK27 RNA isolation was performed using the ExtractRNA reagent following the standard protocol for TriZol mediated extraction. The RNA quality was checked by capillary electrophoresis using the QIAxcel Advanced program. Total RNA was used for isolation of polyA fraction using NEBNext PolyA mRNA Magnetic Isolation Module according to the manufacturer's recommendations. RNA was next quantified on Quntus fluorometer and used for library preparation using NEBNext UltraTM Directional RNA Library PrepKit for Illumina with NEBNext Multiplex Oligos for Illumina according to the manufacturer's recommendations. The quality of libraries was confirmed by capillary electrophoresis using the QIAxcel Advanced program. Pair end sequencing was performed using Illumina HiSeq2500 with a read length of 110 bp.     RNA-Seq TRANSCRIPTOMIC cDNA_oligo_dT PAIRED ILLUMINA Illumina HiSeq 2500   SRP507393     T4-TK27_S16_R1_001.fastq.gz T4-TK27_S16_R2_001.fastq.gz fastq fastq 2225863101.0 10367681.0 T4 TK27 S16 R1 001.fastq.gz 0:107.33 1:107.36 A:603151281;C:502052154;G:496942138;T:608675289;N:15042239 107 107     603151281 502052154 496942138 608675289 15042239 SRX24539417 SRS21284294 SRA1865594 Sirius University of Science and Technology|Genetics and Life Science Sirius University of Science and Technology                       B B biological fallback assumption illumina hiseq_era unknown poly_a nebnext bulk unknown unknown   Russia 2024-05-13 Adult Adult Brain Nervous System
32126 32126 SRR29012752 SRX24539416 SRS21284293 SRP507393 PRJNA1111146 RNA seq of adult zebrafish brain following traumatic brain injury and/or ISRIB exposure PRJNA1111146 Other Here analysed gene expression changes post Traumatic Brain Injury TBI and subsequent exposure to ISRIB in the brain of adult Danio rerio. 4 groups are available: control C traumatic brain injury TBI; T ISRIB injection I TBI and ISRIB injection TI.         T3 TK26   strain:Wild type|age:5 month|collection date:2023 08 20|geo loc name:Russia|sex:NA|tissue:brain|sample type:T3 TK26|treatment:TBI|BioSampleModel:Model organism or animal                 Here analysed gene expression changes post Traumatic Brain Injury TBI and subsequent exposure to ISRIB in the brain of adult Danio rerio. 4 groups are available: control C traumatic brain injury TBI; T ISRIB injection I TBI and ISRIB injection TI. TK26 TK26 RNA isolation was performed using the ExtractRNA reagent following the standard protocol for TriZol mediated extraction. The RNA quality was checked by capillary electrophoresis using the QIAxcel Advanced program. Total RNA was used for isolation of polyA fraction using NEBNext PolyA mRNA Magnetic Isolation Module according to the manufacturer's recommendations. RNA was next quantified on Quntus fluorometer and used for library preparation using NEBNext UltraTM Directional RNA Library PrepKit for Illumina with NEBNext Multiplex Oligos for Illumina according to the manufacturer's recommendations. The quality of libraries was confirmed by capillary electrophoresis using the QIAxcel Advanced program. Pair end sequencing was performed using Illumina HiSeq2500 with a read length of 110 bp.     RNA-Seq TRANSCRIPTOMIC cDNA_oligo_dT PAIRED ILLUMINA Illumina HiSeq 2500   SRP507393     T3-TK26_S15_R1_001.fastq.gz T3-TK26_S15_R2_001.fastq.gz fastq fastq 1940446267.0 9166557.0 T3 TK26 S15 R1 001.fastq.gz 0:105.81 1:105.87 A:525291529;C:433681588;G:429227771;T:530538742;N:21706637 105 105     525291529 433681588 429227771 530538742 21706637 SRX24539416 SRS21284293 SRA1865594 Sirius University of Science and Technology|Genetics and Life Science Sirius University of Science and Technology                       B B biological fallback assumption illumina hiseq_era unknown poly_a nebnext bulk unknown unknown   Russia 2024-05-13 Adult Adult Brain Nervous System
32127 32127 SRR29012753 SRX24539415 SRS21284292 SRP507393 PRJNA1111146 RNA seq of adult zebrafish brain following traumatic brain injury and/or ISRIB exposure PRJNA1111146 Other Here analysed gene expression changes post Traumatic Brain Injury TBI and subsequent exposure to ISRIB in the brain of adult Danio rerio. 4 groups are available: control C traumatic brain injury TBI; T ISRIB injection I TBI and ISRIB injection TI.         T2 TK23   strain:Wild type|age:5 month|collection date:2023 08 20|geo loc name:Russia|sex:NA|tissue:brain|sample type:T2 TK23|treatment:TBI|BioSampleModel:Model organism or animal                 Here analysed gene expression changes post Traumatic Brain Injury TBI and subsequent exposure to ISRIB in the brain of adult Danio rerio. 4 groups are available: control C traumatic brain injury TBI; T ISRIB injection I TBI and ISRIB injection TI. TK23 TK23 RNA isolation was performed using the ExtractRNA reagent following the standard protocol for TriZol mediated extraction. The RNA quality was checked by capillary electrophoresis using the QIAxcel Advanced program. Total RNA was used for isolation of polyA fraction using NEBNext PolyA mRNA Magnetic Isolation Module according to the manufacturer's recommendations. RNA was next quantified on Quntus fluorometer and used for library preparation using NEBNext UltraTM Directional RNA Library PrepKit for Illumina with NEBNext Multiplex Oligos for Illumina according to the manufacturer's recommendations. The quality of libraries was confirmed by capillary electrophoresis using the QIAxcel Advanced program. Pair end sequencing was performed using Illumina HiSeq2500 with a read length of 110 bp.     RNA-Seq TRANSCRIPTOMIC cDNA_oligo_dT PAIRED ILLUMINA Illumina HiSeq 2500   SRP507393     T2-TK22_S13_R1_001.fastq.gz T2-TK22_S13_R2_001.fastq.gz fastq fastq 1732117888.0 8020234.0 T2 TK22 S13 R1 001.fastq.gz 0:107.97 1:107.99 A:457940901;C:403905608;G:399758720;T:463834300;N:6678359 107 107     457940901 403905608 399758720 463834300 6678359 SRX24539415 SRS21284292 SRA1865594 Sirius University of Science and Technology|Genetics and Life Science Sirius University of Science and Technology                       B B biological fallback assumption illumina hiseq_era unknown poly_a nebnext bulk unknown unknown   Russia 2024-05-13 Adult Adult Brain Nervous System
32128 32128 SRR29012754 SRX24539414 SRS21284291 SRP507393 PRJNA1111146 RNA seq of adult zebrafish brain following traumatic brain injury and/or ISRIB exposure PRJNA1111146 Other Here analysed gene expression changes post Traumatic Brain Injury TBI and subsequent exposure to ISRIB in the brain of adult Danio rerio. 4 groups are available: control C traumatic brain injury TBI; T ISRIB injection I TBI and ISRIB injection TI.         T1 TK22   strain:Wild type|age:5 month|collection date:2023 08 20|geo loc name:Russia|sex:NA|tissue:brain|sample type:T1 TK22|treatment:TBI|BioSampleModel:Model organism or animal                 Here analysed gene expression changes post Traumatic Brain Injury TBI and subsequent exposure to ISRIB in the brain of adult Danio rerio. 4 groups are available: control C traumatic brain injury TBI; T ISRIB injection I TBI and ISRIB injection TI. TK22 TK22 RNA isolation was performed using the ExtractRNA reagent following the standard protocol for TriZol mediated extraction. The RNA quality was checked by capillary electrophoresis using the QIAxcel Advanced program. Total RNA was used for isolation of polyA fraction using NEBNext PolyA mRNA Magnetic Isolation Module according to the manufacturer's recommendations. RNA was next quantified on Quntus fluorometer and used for library preparation using NEBNext UltraTM Directional RNA Library PrepKit for Illumina with NEBNext Multiplex Oligos for Illumina according to the manufacturer's recommendations. The quality of libraries was confirmed by capillary electrophoresis using the QIAxcel Advanced program. Pair end sequencing was performed using Illumina HiSeq2500 with a read length of 110 bp.     RNA-Seq TRANSCRIPTOMIC cDNA_oligo_dT PAIRED ILLUMINA Illumina HiSeq 2500   SRP507393     T1-TK23_S14_R1_001.fastq.gz T1-TK23_S14_R2_001.fastq.gz fastq fastq 3331492486.0 15432444.0 T1 TK23 S14 R1 001.fastq.gz 0:107.95 1:107.93 A:868428457;C:786927841;G:785306451;T:875345180;N:15484557 107 107     868428457 786927841 785306451 875345180 15484557 SRX24539414 SRS21284291 SRA1865594 Sirius University of Science and Technology|Genetics and Life Science Sirius University of Science and Technology                       B B biological fallback assumption illumina hiseq_era unknown poly_a nebnext bulk unknown unknown   Russia 2024-05-13 Adult Adult Brain Nervous System
32129 32129 SRR29012755 SRX24539413 SRS21284290 SRP507393 PRJNA1111146 RNA seq of adult zebrafish brain following traumatic brain injury and/or ISRIB exposure PRJNA1111146 Other Here analysed gene expression changes post Traumatic Brain Injury TBI and subsequent exposure to ISRIB in the brain of adult Danio rerio. 4 groups are available: control C traumatic brain injury TBI; T ISRIB injection I TBI and ISRIB injection TI.         I6 TK16   strain:Wild type|age:5 month|collection date:2023 08 20|geo loc name:Russia|sex:NA|tissue:brain|sample type:I6 TK16|treatment:ISRIB|BioSampleModel:Model organism or animal                 Here analysed gene expression changes post Traumatic Brain Injury TBI and subsequent exposure to ISRIB in the brain of adult Danio rerio. 4 groups are available: control C traumatic brain injury TBI; T ISRIB injection I TBI and ISRIB injection TI. TK16 TK16 RNA isolation was performed using the ExtractRNA reagent following the standard protocol for TriZol mediated extraction. The RNA quality was checked by capillary electrophoresis using the QIAxcel Advanced program. Total RNA was used for isolation of polyA fraction using NEBNext PolyA mRNA Magnetic Isolation Module according to the manufacturer's recommendations. RNA was next quantified on Quntus fluorometer and used for library preparation using NEBNext UltraTM Directional RNA Library PrepKit for Illumina with NEBNext Multiplex Oligos for Illumina according to the manufacturer's recommendations. The quality of libraries was confirmed by capillary electrophoresis using the QIAxcel Advanced program. Pair end sequencing was performed using Illumina HiSeq2500 with a read length of 110 bp.     RNA-Seq TRANSCRIPTOMIC cDNA_oligo_dT PAIRED ILLUMINA Illumina HiSeq 2500   SRP507393     I6-TK16_S12_R1_001.fastq.gz I6-TK16_S12_R2_001.fastq.gz fastq fastq 3714945017.0 17207286.0 I6 TK16 S12 R1 001.fastq.gz 0:107.94 1:107.95 A:1013736103;C:833395445;G:825731700;T:1025966376;N:16115393 107 107     1013736103 833395445 825731700 1025966376 16115393 SRX24539413 SRS21284290 SRA1865594 Sirius University of Science and Technology|Genetics and Life Science Sirius University of Science and Technology                       B B biological fallback assumption illumina hiseq_era unknown poly_a nebnext bulk unknown unknown   Russia 2024-05-13 Adult Adult Brain Nervous System
32130 32130 SRR29012756 SRX24539412 SRS21284289 SRP507393 PRJNA1111146 RNA seq of adult zebrafish brain following traumatic brain injury and/or ISRIB exposure PRJNA1111146 Other Here analysed gene expression changes post Traumatic Brain Injury TBI and subsequent exposure to ISRIB in the brain of adult Danio rerio. 4 groups are available: control C traumatic brain injury TBI; T ISRIB injection I TBI and ISRIB injection TI.         I5 TK15   strain:Wild type|age:5 month|collection date:2023 08 20|geo loc name:Russia|sex:NA|tissue:brain|sample type:I5 TK15|treatment:ISRIB|BioSampleModel:Model organism or animal                 Here analysed gene expression changes post Traumatic Brain Injury TBI and subsequent exposure to ISRIB in the brain of adult Danio rerio. 4 groups are available: control C traumatic brain injury TBI; T ISRIB injection I TBI and ISRIB injection TI. TK15 TK15 RNA isolation was performed using the ExtractRNA reagent following the standard protocol for TriZol mediated extraction. The RNA quality was checked by capillary electrophoresis using the QIAxcel Advanced program. Total RNA was used for isolation of polyA fraction using NEBNext PolyA mRNA Magnetic Isolation Module according to the manufacturer's recommendations. RNA was next quantified on Quntus fluorometer and used for library preparation using NEBNext UltraTM Directional RNA Library PrepKit for Illumina with NEBNext Multiplex Oligos for Illumina according to the manufacturer's recommendations. The quality of libraries was confirmed by capillary electrophoresis using the QIAxcel Advanced program. Pair end sequencing was performed using Illumina HiSeq2500 with a read length of 110 bp.     RNA-Seq TRANSCRIPTOMIC cDNA_oligo_dT PAIRED ILLUMINA Illumina HiSeq 2500   SRP507393     I5-TK15_S11_R1_001.fastq.gz I5-TK15_S11_R2_001.fastq.gz fastq fastq 2794987343.0 13014050.0 I5 TK15 S11 R1 001.fastq.gz 0:107.37 1:107.40 A:774143942;C:614986331;G:609929626;T:782802382;N:13125062 107 107     774143942 614986331 609929626 782802382 13125062 SRX24539412 SRS21284289 SRA1865594 Sirius University of Science and Technology|Genetics and Life Science Sirius University of Science and Technology                       B B biological fallback assumption illumina hiseq_era unknown poly_a nebnext bulk unknown unknown   Russia 2024-05-13 Adult Adult Brain Nervous System
32131 32131 SRR29012757 SRX24539411 SRS21284288 SRP507393 PRJNA1111146 RNA seq of adult zebrafish brain following traumatic brain injury and/or ISRIB exposure PRJNA1111146 Other Here analysed gene expression changes post Traumatic Brain Injury TBI and subsequent exposure to ISRIB in the brain of adult Danio rerio. 4 groups are available: control C traumatic brain injury TBI; T ISRIB injection I TBI and ISRIB injection TI.         I4 TK14   strain:Wild type|age:5 month|collection date:2023 08 20|geo loc name:Russia|sex:NA|tissue:brain|sample type:I4 TK14|treatment:ISRIB|BioSampleModel:Model organism or animal                 Here analysed gene expression changes post Traumatic Brain Injury TBI and subsequent exposure to ISRIB in the brain of adult Danio rerio. 4 groups are available: control C traumatic brain injury TBI; T ISRIB injection I TBI and ISRIB injection TI. TK14 TK14 RNA isolation was performed using the ExtractRNA reagent following the standard protocol for TriZol mediated extraction. The RNA quality was checked by capillary electrophoresis using the QIAxcel Advanced program. Total RNA was used for isolation of polyA fraction using NEBNext PolyA mRNA Magnetic Isolation Module according to the manufacturer's recommendations. RNA was next quantified on Quntus fluorometer and used for library preparation using NEBNext UltraTM Directional RNA Library PrepKit for Illumina with NEBNext Multiplex Oligos for Illumina according to the manufacturer's recommendations. The quality of libraries was confirmed by capillary electrophoresis using the QIAxcel Advanced program. Pair end sequencing was performed using Illumina HiSeq2500 with a read length of 110 bp.     RNA-Seq TRANSCRIPTOMIC cDNA_oligo_dT PAIRED ILLUMINA Illumina HiSeq 2500   SRP507393     I4-TK14_S10_R1_001.fastq.gz I4-TK14_S10_R2_001.fastq.gz fastq fastq 1922427285.0 8937092.0 I4 TK14 S10 R1 001.fastq.gz 0:107.54 1:107.57 A:528449546;C:426814810;G:423703279;T:534207858;N:9251792 107 107     528449546 426814810 423703279 534207858 9251792 SRX24539411 SRS21284288 SRA1865594 Sirius University of Science and Technology|Genetics and Life Science Sirius University of Science and Technology                       B B biological fallback assumption illumina hiseq_era unknown poly_a nebnext bulk unknown unknown   Russia 2024-05-13 Adult Adult Brain Nervous System
32132 32132 SRR29012758 SRX24539410 SRS21284287 SRP507393 PRJNA1111146 RNA seq of adult zebrafish brain following traumatic brain injury and/or ISRIB exposure PRJNA1111146 Other Here analysed gene expression changes post Traumatic Brain Injury TBI and subsequent exposure to ISRIB in the brain of adult Danio rerio. 4 groups are available: control C traumatic brain injury TBI; T ISRIB injection I TBI and ISRIB injection TI.         C2 TK32   strain:Wild type|age:5 month|collection date:2023 08 20|geo loc name:Russia|sex:NA|tissue:brain|sample type:C2 TK32|treatment:Control|BioSampleModel:Model organism or animal                 Here analysed gene expression changes post Traumatic Brain Injury TBI and subsequent exposure to ISRIB in the brain of adult Danio rerio. 4 groups are available: control C traumatic brain injury TBI; T ISRIB injection I TBI and ISRIB injection TI. TK32 TK32 RNA isolation was performed using the ExtractRNA reagent following the standard protocol for TriZol mediated extraction. The RNA quality was checked by capillary electrophoresis using the QIAxcel Advanced program. Total RNA was used for isolation of polyA fraction using NEBNext PolyA mRNA Magnetic Isolation Module according to the manufacturer's recommendations. RNA was next quantified on Quntus fluorometer and used for library preparation using NEBNext UltraTM Directional RNA Library PrepKit for Illumina with NEBNext Multiplex Oligos for Illumina according to the manufacturer's recommendations. The quality of libraries was confirmed by capillary electrophoresis using the QIAxcel Advanced program. Pair end sequencing was performed using Illumina HiSeq2500 with a read length of 110 bp.     RNA-Seq TRANSCRIPTOMIC cDNA_oligo_dT PAIRED ILLUMINA Illumina HiSeq 2500   SRP507393     C2-TK32_S21_R1_001.fastq.gz C2-TK32_S21_R2_001.fastq.gz fastq fastq 3357957454.0 15544937.0 C2 TK32 S21 R1 001.fastq.gz 0:108.00 1:108.01 A:918342383;C:752111502;G:746458895;T:927695887;N:13348787 108 108     918342383 752111502 746458895 927695887 13348787 SRX24539410 SRS21284287 SRA1865594 Sirius University of Science and Technology|Genetics and Life Science Sirius University of Science and Technology                       B B biological fallback assumption illumina hiseq_era unknown poly_a nebnext bulk unknown unknown   Russia 2024-05-13 Adult Adult Brain Nervous System
32133 32133 SRR29012759 SRX24539409 SRS21284286 SRP507393 PRJNA1111146 RNA seq of adult zebrafish brain following traumatic brain injury and/or ISRIB exposure PRJNA1111146 Other Here analysed gene expression changes post Traumatic Brain Injury TBI and subsequent exposure to ISRIB in the brain of adult Danio rerio. 4 groups are available: control C traumatic brain injury TBI; T ISRIB injection I TBI and ISRIB injection TI.         C1 TK31   strain:Wild type|age:5 month|collection date:2023 08 20|geo loc name:Russia|sex:NA|tissue:brain|sample type:C1 TK31|treatment:Control|BioSampleModel:Model organism or animal                 Here analysed gene expression changes post Traumatic Brain Injury TBI and subsequent exposure to ISRIB in the brain of adult Danio rerio. 4 groups are available: control C traumatic brain injury TBI; T ISRIB injection I TBI and ISRIB injection TI. TK31 TK31 RNA isolation was performed using the ExtractRNA reagent following the standard protocol for TriZol mediated extraction. The RNA quality was checked by capillary electrophoresis using the QIAxcel Advanced program. Total RNA was used for isolation of polyA fraction using NEBNext PolyA mRNA Magnetic Isolation Module according to the manufacturer's recommendations. RNA was next quantified on Quntus fluorometer and used for library preparation using NEBNext UltraTM Directional RNA Library PrepKit for Illumina with NEBNext Multiplex Oligos for Illumina according to the manufacturer's recommendations. The quality of libraries was confirmed by capillary electrophoresis using the QIAxcel Advanced program. Pair end sequencing was performed using Illumina HiSeq2500 with a read length of 110 bp.     RNA-Seq TRANSCRIPTOMIC cDNA_oligo_dT PAIRED ILLUMINA Illumina HiSeq 2500   SRP507393     C1-TK31_S20_R1_001.fastq.gz C1-TK31_S20_R2_001.fastq.gz fastq fastq 2442920945.0 11344005.0 C1 TK31 S20 R1 001.fastq.gz 0:107.66 1:107.69 A:668901972;C:544270967;G:539028537;T:676647377;N:14072092 107 107     668901972 544270967 539028537 676647377 14072092 SRX24539409 SRS21284286 SRA1865594 Sirius University of Science and Technology|Genetics and Life Science Sirius University of Science and Technology                       B B biological fallback assumption illumina hiseq_era unknown poly_a nebnext bulk unknown unknown   Russia 2024-05-13 Adult Adult Brain Nervous System

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CREATE TABLE run_metadata("run.accession" VARCHAR, "experiment.accession" VARCHAR, "sample.accession" VARCHAR, "study.accession" VARCHAR, bioproject VARCHAR, "study.title" VARCHAR, "study.alias" VARCHAR, "study.type" VARCHAR, "study.abstract" VARCHAR, "study.attributes" VARCHAR, "study.PMIDs" VARCHAR, "sample.description" VARCHAR, "sample.title" VARCHAR, "sample.alias" VARCHAR, "sample.centername" VARCHAR, "sample.attributes" VARCHAR, "GEOsample.title" VARCHAR, "GEOsample.dataprocessing" VARCHAR, "GEOsample.source" VARCHAR, "GEOsample.treatmentprotocol" VARCHAR, "GEOsample.extractprotocol" VARCHAR, "GEOsample.growthprotocol" VARCHAR, "GEOsample.characteristics" VARCHAR, "GEOsample.accession" VARCHAR, "experiment.title" VARCHAR, "experiment.alias" VARCHAR, "experiment.library_name" VARCHAR, "experiment.design_description" VARCHAR, "experiment.library_construction_protocol" VARCHAR, "experiment.attributes" VARCHAR, "experiment.library_strategy" VARCHAR, "experiment.library_source" VARCHAR, "experiment.library_selection" VARCHAR, "experiment.library_layout" VARCHAR, "experiment.platform" VARCHAR, "experiment.instrument_model" VARCHAR, "experiment.spot_descriptor" VARCHAR, "experiment.study_ref" VARCHAR, "run.title" VARCHAR, "run.attributes" VARCHAR, "run.filename" VARCHAR, "run.semantic_name" VARCHAR, "run.total_bases" DOUBLE, "run.total_spots" DOUBLE, "run.alias" VARCHAR, "run.read_lengths" VARCHAR, "run.base_counts" VARCHAR, "run.r1_length" BIGINT, "run.r2_length" BIGINT, "run.r3_length" BIGINT, "run.r4_length" BIGINT, "run.Acount" BIGINT, "run.Ccount" BIGINT, "run.Gcount" BIGINT, "run.Tcount" BIGINT, "run.Ncount" BIGINT, "run.experiment" VARCHAR, "run.pool_member" VARCHAR, "submission.accession" VARCHAR, "submission.srasource" VARCHAR, "submission.bioprojectsource" VARCHAR, "seqdetective.n_mates" BIGINT, "seqdetective.mapping_rate.mate1" DOUBLE, "seqdetective.mapping_rate.mate2" DOUBLE, "seqdetective.nofeature_rate.mate1" DOUBLE, "seqdetective.nofeature_rate.mate2" DOUBLE, "seqdetective.sparsity.mate1" DOUBLE, "seqdetective.sparsity.mate2" DOUBLE, "seqdetective.pos_strand_rate.mate1" DOUBLE, "seqdetective.pos_strand_rate.mate2" DOUBLE, "seqdetective.readlen.mate1" BIGINT, "seqdetective.readlen.mate2" BIGINT, "seqdetective.judgement.mate1" VARCHAR, "seqdetective.judgement.mate2" VARCHAR, "seqdetective.judgement.reason" VARCHAR, platform_family VARCHAR, instrument_generation VARCHAR, read_bias VARCHAR, selection_class VARCHAR, prep_kit VARCHAR, sc_or_bulk VARCHAR, tech_class VARCHAR, technology VARCHAR, tech_variant VARCHAR, "submission.bioprojectsource.country" VARCHAR, earliest_date DATE, devstage_curation VARCHAR, devstage_curation_coarse VARCHAR, tissue_curation VARCHAR, tissue_curation_coarse VARCHAR);;
CREATE INDEX idx_run_bioproject ON run_metadata(bioproject);;
CREATE INDEX idx_run_run_accession ON run_metadata("run.accession");;