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
30691,SRR28270998,SRX23880961,SRS20704477,SRP494117,PRJNA1085662,Roxithromycin exposure induces motoneuron malformation and behavioral deficits of zebrafish by interfering with the differentiation of motor neuron progenitor cells,PRJNA1085662,Other,Roxithromycin ROX  a commonly used macrolide antibiotic  is extensively employed in human medicine and livestock industries. Due to its structural stability and resistance to biological degradation  ROX persists as a resilient environmental contaminant  detectable in aquatic ecosystems and food products. However  our understanding of the potential health risks to humans from continuous ROX exposure remains limited. In this study  we used the zebrafish as a vertebrate model to explore the potential developmental toxicity of early ROX exposure  particularly focusing on its effects on locomotor functionality and motoneuron development. Early exposure to ROX induces marked developmental toxicity in zebrafish embryos  significantly reducing hatch rates  body lengths  and increased malformation rates. Moreover  ROX exposure adversely affected the locomotive capacity of zebrafish embryos  and observations in transgenic zebrafish Tghb9:eGFP revealed axonal loss in motor neurons  evident through reduced or irregular axonal lengths. Concurrently  abnormal apoptosis in ROX exposed zebrafish embryos intensified alongside the upregulation of apoptosis related genes bax  bcl2  caspase 3a. Single cell sequencing further disclosed substantial effects of ROX on genes involved in the differentiation of motor neuron progenitor cells ngn1  olig2  axon development cd82a  mbpa  plp1b  sema5a  and neuroimmunity aplnrb  aplnra in zebrafish larvae. Furthermore  the motor neuron defects induced by ROX can be rescued by administering ngn1 agonist. In summary  ROX exposure leads to early life abnormalities in zebrafish motor neurons and locomotor behavior by hindering the differentiation of motor neuron progenitor cells and inducing abnormal apoptosis.,,,,,WT,,strain:not provided|isolate:not provided|breed:not provided|cultivar:not provided|ecotype:not provided|age:not provided|dev stage:not provided|collection date:not provided|geo loc name:not provided|sex:not provided|tissue:Cerebrum|BioSampleModel:Model organism or animal,,,,,,,,,Roxithromycin exposure induces mot1uron malformation and behavioral deficits of zebrafish by interfering with the differentiation of motor neuron progenitor cells,DANIO,DANIO,Illumina Second Generation Sequencing,,,RNA-Seq,TRANSCRIPTOMIC,cDNA_oligo_dT,SINGLE,BGISEQ,BGISEQ-500,,SRP494117,,,WT_S1_L001_I1_001.fastq.gz,fastq,7991376264.0,998922033.0,WT S1 L001 I1 001.fastq.gz,0:8,A:2573734851;C:1426474966;G:1492966198;T:2498173074;N:27175,8,,,,2573734851,1426474966,1492966198,2498173074,27175,SRX23880961,SRS20704477,SRA1820072,shantou university|Neurobiology Center,shantou university,1,0.0,,0.0,,1.0,,,,8,,T,,under 1.2% mapping rate,bgi,bgi,unknown,poly_a,unknown,sc_generic,single_cell_generic,generic-scrnaseq-only,,China,2024-03-11,Undetermined,Multi-stage,Brain,Nervous System
35869,SRR33094451,SRX28358126,SRS24687216,SRP578075,PRJNA1249535,P301S Mutant Tau Driven Zebrafish Platform Enables Systematic Identification of Pharmacological GSK3B Inhibitors with Anti Neurodegenerative Efficacy,PRJNA1249535,Other,Single cell transcriptome sequencing provides high resolution transcriptome data on the molecular mechanisms by which Tau P301S mediates Alzheimer's disease like pathological changes in zebrafish  providing unique insights into the pathogenesis of Tau pathology mediated cell to cell interactions in AD.,,,Wildtype2,,Wildtype2,,breed:zebrafish|age:4 month|collection date:2024 05 14|geo loc name:China:Shantou|sex:not determined|tissue:brain|BioSampleModel:Model organism or animal,,,,,,,,,P301S Mutant Tau Driven Zebrafish Platform Enables Systematic Identification of Pharmacological GSK3B Inhibitors with Anti Neurodegenerative Efficacy,Wildtype2,Wildtype2,tissue,,,RNA-Seq,TRANSCRIPTOMIC SINGLE CELL,PolyA,SINGLE,BGISEQ,BGISEQ-500,,SRP578075,,,WT2_S1_L001_I1_001.fastq.gz,fastq,15183539264.0,1897942408.0,WT2 S1 L001 I1 001.fastq.gz,0:8,A:5024041949;C:2632487194;G:2782260146;T:4744243552;N:506423,8,,,,5024041949,2632487194,2782260146,4744243552,506423,SRX28358126,SRS24687216,SRA2110625,Shantou university medical college|Neuroscience Center,Shantou university medical college,,,,,,,,,,,,T,,under 1.2% mapping rate,bgi,bgi,unknown,poly_a,unknown,sc,unknown,unknown,,China,2025-04-18,Adult,Adult,Brain,Nervous System
35870,SRR33094452,SRX28358125,SRS24687217,SRP578075,PRJNA1249535,P301S Mutant Tau Driven Zebrafish Platform Enables Systematic Identification of Pharmacological GSK3B Inhibitors with Anti Neurodegenerative Efficacy,PRJNA1249535,Other,Single cell transcriptome sequencing provides high resolution transcriptome data on the molecular mechanisms by which Tau P301S mediates Alzheimer's disease like pathological changes in zebrafish  providing unique insights into the pathogenesis of Tau pathology mediated cell to cell interactions in AD.,,,Wildtype1,,Wildtype1,,breed:zebrafish|age:4 month|collection date:2024 05 13|geo loc name:China:Shantou|sex:not determined|tissue:brain|BioSampleModel:Model organism or animal,,,,,,,,,P301S Mutant Tau Driven Zebrafish Platform Enables Systematic Identification of Pharmacological GSK3B Inhibitors with Anti Neurodegenerative Efficacy,Wildtype1,Wildtype1,tissue,,,RNA-Seq,TRANSCRIPTOMIC SINGLE CELL,PolyA,SINGLE,BGISEQ,BGISEQ-500,,SRP578075,,,WT1_S1_L001_I1_001.fastq.gz,fastq,7991376264.0,998922033.0,WT1 S1 L001 I1 001.fastq.gz,0:8,A:2573734851;C:1426474966;G:1492966198;T:2498173074;N:27175,8,,,,2573734851,1426474966,1492966198,2498173074,27175,SRX28358125,SRS24687217,SRA2110625,Shantou university medical college|Neuroscience Center,Shantou university medical college,,,,,,,,,,,,T,,under 1.2% mapping rate,bgi,bgi,unknown,poly_a,unknown,sc,unknown,unknown,,China,2025-04-18,Adult,Adult,Brain,Nervous System
57271,SRR12577970,SRX9064853,SRS7314026,SRP279881,PRJNA612371,Danio rerio strain:TU Raw sequence reads,PRJNA612371,Whole Genome Sequencing,Hemorrhage stroke is a severe vascular disease of the brain with a high mortality rate in humans. Sodium tanshinone IIA sulfonate STS is a water soluble derivative of tanshinone IIA  which is the main active ingredient of Salvia miltiorrhiza Bge known as Danshen in Chinese and has been approved as a commercial drug for treating cardiovascular disease by the China Food and Drug Administration. In our previous study  we established a HMG COA inhibitor atorvastatin Ator induced zebrafish model of cerebral hemorrhage and found that STS dramatically decreased both the hemorrhage rate and hemorrhage area  although the underlying mechanism was not fully elucidated. Therefore  in the present study  we conducted transcriptome analysis of the protective effect of STS against Ator induced cerebral hemorrhage in zebrafish using RNA Seq technology  and further clarify its underlying molecular mechanisms on HIF 1 and its regulators  i.e.  the PI3K/Akt and MAPK signaling pathways were verified by real time PCR analysis and specific pharmacological inhibitors. We are also able to show that hemoglobin  carbonic anhydrase  Na+/H+ exchanger and HIF 1 genes might be potential biomarkers of Ator induced cerebral hemorrhage in zebrafish  as well as pharmacological targets of STS. This study also provided evidence of bio markers involved in hemorrhage stroke and improved understanding of the effects of HMG COA inhibition on vascular permeability and cerebral hemorrhage.,,,,,Ctrl 3 zebrafish,,strain:TU|isolate:not collected|breed:not collected|cultivar:not collected|ecotype:not collected|age:2dpf|dev stage:not collected|sex:not applicable|tissue:head|geo loc name:China:Shanghai|sample type:model organism|replicate:replicate=biological replicate 6'|BioSampleModel:Model organism or animal,,,,,,,,,Ctrl 3 zebrafish,Ctrl 3 zebrafish,Ctrl 3 zebrafish,transcriptome,,,RNA-Seq,TRANSCRIPTOMIC,Oligo-dT,SINGLE,BGISEQ,BGISEQ-500,,SRP279881,,,Ctrl_3_1.fq.gz,fastq,1061227250.0,21224545.0,Ctrl 3 1.fq.gz,0:50,A:286099732;C:241244619;G:246876865;T:287006034;N:0,50,,,,286099732,241244619,246876865,287006034,0,SRX9064853,SRS7314026,SRA1120721,Shanghai University of Traditional Chinese Medicine|Longhua Hospital,Shanghai University of Traditional Chinese Medicine,1,0.94563,,0.10453,,0.70552,,0.46655,,50,,B,,usable mapping rate,bgi,bgi,unknown,poly_a,unknown,bulk,unknown,unknown,,China,2020-09-03,Hatching,Embryo,Head,Nervous System
57272,SRR12577971,SRX9064852,SRS7314025,SRP279881,PRJNA612371,Danio rerio strain:TU Raw sequence reads,PRJNA612371,Whole Genome Sequencing,Hemorrhage stroke is a severe vascular disease of the brain with a high mortality rate in humans. Sodium tanshinone IIA sulfonate STS is a water soluble derivative of tanshinone IIA  which is the main active ingredient of Salvia miltiorrhiza Bge known as Danshen in Chinese and has been approved as a commercial drug for treating cardiovascular disease by the China Food and Drug Administration. In our previous study  we established a HMG COA inhibitor atorvastatin Ator induced zebrafish model of cerebral hemorrhage and found that STS dramatically decreased both the hemorrhage rate and hemorrhage area  although the underlying mechanism was not fully elucidated. Therefore  in the present study  we conducted transcriptome analysis of the protective effect of STS against Ator induced cerebral hemorrhage in zebrafish using RNA Seq technology  and further clarify its underlying molecular mechanisms on HIF 1 and its regulators  i.e.  the PI3K/Akt and MAPK signaling pathways were verified by real time PCR analysis and specific pharmacological inhibitors. We are also able to show that hemoglobin  carbonic anhydrase  Na+/H+ exchanger and HIF 1 genes might be potential biomarkers of Ator induced cerebral hemorrhage in zebrafish  as well as pharmacological targets of STS. This study also provided evidence of bio markers involved in hemorrhage stroke and improved understanding of the effects of HMG COA inhibition on vascular permeability and cerebral hemorrhage.,,,,,Ctrl 2 zebrafish,,strain:TU|isolate:not collected|breed:not collected|cultivar:not collected|ecotype:not collected|age:2dpf|dev stage:not collected|sex:not applicable|tissue:head|geo loc name:China:Shanghai|sample type:model organism|replicate:replicate=biological replicate 5 prime|BioSampleModel:Model organism or animal,,,,,,,,,Ctrl 2 zebrafish,Ctrl 2 zebrafish,Ctrl 2 zebrafish,transcriptome,,,RNA-Seq,TRANSCRIPTOMIC,Oligo-dT,SINGLE,BGISEQ,BGISEQ-500,,SRP279881,,,Ctrl_2_1.fq.gz,fastq,1058116700.0,21162334.0,Ctrl 2 1.fq.gz,0:50,A:287223905;C:238707750;G:244987559;T:287197486;N:0,50,,,,287223905,238707750,244987559,287197486,0,SRX9064852,SRS7314025,SRA1120721,Shanghai University of Traditional Chinese Medicine|Longhua Hospital,Shanghai University of Traditional Chinese Medicine,1,0.94534,,0.11174,,0.70104,,0.47946,,50,,B,,usable mapping rate,bgi,bgi,unknown,poly_a,unknown,bulk,unknown,unknown,,China,2020-09-03,Hatching,Embryo,Head,Nervous System
57273,SRR12577972,SRX9064851,SRS7314024,SRP279881,PRJNA612371,Danio rerio strain:TU Raw sequence reads,PRJNA612371,Whole Genome Sequencing,Hemorrhage stroke is a severe vascular disease of the brain with a high mortality rate in humans. Sodium tanshinone IIA sulfonate STS is a water soluble derivative of tanshinone IIA  which is the main active ingredient of Salvia miltiorrhiza Bge known as Danshen in Chinese and has been approved as a commercial drug for treating cardiovascular disease by the China Food and Drug Administration. In our previous study  we established a HMG COA inhibitor atorvastatin Ator induced zebrafish model of cerebral hemorrhage and found that STS dramatically decreased both the hemorrhage rate and hemorrhage area  although the underlying mechanism was not fully elucidated. Therefore  in the present study  we conducted transcriptome analysis of the protective effect of STS against Ator induced cerebral hemorrhage in zebrafish using RNA Seq technology  and further clarify its underlying molecular mechanisms on HIF 1 and its regulators  i.e.  the PI3K/Akt and MAPK signaling pathways were verified by real time PCR analysis and specific pharmacological inhibitors. We are also able to show that hemoglobin  carbonic anhydrase  Na+/H+ exchanger and HIF 1 genes might be potential biomarkers of Ator induced cerebral hemorrhage in zebrafish  as well as pharmacological targets of STS. This study also provided evidence of bio markers involved in hemorrhage stroke and improved understanding of the effects of HMG COA inhibition on vascular permeability and cerebral hemorrhage.,,,,,Ctrl 1 zebrafish,,strain:TU|isolate:not collected|breed:not collected|cultivar:not collected|ecotype:not collected|age:2dpf|dev stage:not collected|sex:not applicable|tissue:head|geo loc name:China:Shanghai|sample type:model organism|replicate:replicate=biological replicate 4'|BioSampleModel:Model organism or animal,,,,,,,,,Ctrl 1 zebrafish,Ctrl 1 zebrafish,Ctrl 1 zebrafish,transcriptome,,,RNA-Seq,TRANSCRIPTOMIC,Oligo-dT,SINGLE,BGISEQ,BGISEQ-500,,SRP279881,,,Ctrl_1_1.fq.gz,fastq,1065919600.0,21318392.0,Ctrl 1 1.fq.gz,0:50,A:295920720;C:242146677;G:242962633;T:284889570;N:0,50,,,,295920720,242146677,242962633,284889570,0,SRX9064851,SRS7314024,SRA1120721,Shanghai University of Traditional Chinese Medicine|Longhua Hospital,Shanghai University of Traditional Chinese Medicine,1,0.94228,,0.15007,,0.68028,,0.46845,,50,,B,,usable mapping rate,bgi,bgi,unknown,poly_a,unknown,bulk,unknown,unknown,,China,2020-09-03,Hatching,Embryo,Head,Nervous System
57274,SRR12577973,SRX9064850,SRS7314023,SRP279881,PRJNA612371,Danio rerio strain:TU Raw sequence reads,PRJNA612371,Whole Genome Sequencing,Hemorrhage stroke is a severe vascular disease of the brain with a high mortality rate in humans. Sodium tanshinone IIA sulfonate STS is a water soluble derivative of tanshinone IIA  which is the main active ingredient of Salvia miltiorrhiza Bge known as Danshen in Chinese and has been approved as a commercial drug for treating cardiovascular disease by the China Food and Drug Administration. In our previous study  we established a HMG COA inhibitor atorvastatin Ator induced zebrafish model of cerebral hemorrhage and found that STS dramatically decreased both the hemorrhage rate and hemorrhage area  although the underlying mechanism was not fully elucidated. Therefore  in the present study  we conducted transcriptome analysis of the protective effect of STS against Ator induced cerebral hemorrhage in zebrafish using RNA Seq technology  and further clarify its underlying molecular mechanisms on HIF 1 and its regulators  i.e.  the PI3K/Akt and MAPK signaling pathways were verified by real time PCR analysis and specific pharmacological inhibitors. We are also able to show that hemoglobin  carbonic anhydrase  Na+/H+ exchanger and HIF 1 genes might be potential biomarkers of Ator induced cerebral hemorrhage in zebrafish  as well as pharmacological targets of STS. This study also provided evidence of bio markers involved in hemorrhage stroke and improved understanding of the effects of HMG COA inhibition on vascular permeability and cerebral hemorrhage.,,,,,Ator STS 3 zebrafish,,strain:TU|isolate:not collected|breed:not collected|cultivar:not collected|ecotype:not collected|age:2dpf|dev stage:not collected|sex:not applicable|tissue:head|geo loc name:China:Shanghai|sample type:model organism|replicate:replicate=biological replicate 3 prime|BioSampleModel:Model organism or animal,,,,,,,,,Ator STS 3 zebrafish,Ator STS 3 zebrafish,Ator STS 3 zebrafish,transcriptome,,,RNA-Seq,TRANSCRIPTOMIC,Oligo-dT,SINGLE,BGISEQ,BGISEQ-500,,SRP279881,,,Ator_STS_3_1.fq.gz,fastq,1059717350.0,21194347.0,Ator STS 3 1.fq.gz,0:50,A:287279590;C:239708340;G:245740313;T:286989107;N:0,50,,,,287279590,239708340,245740313,286989107,0,SRX9064850,SRS7314023,SRA1120721,Shanghai University of Traditional Chinese Medicine|Longhua Hospital,Shanghai University of Traditional Chinese Medicine,1,0.94345,,0.10458,,0.69686,,0.4755,,50,,B,,usable mapping rate,bgi,bgi,unknown,poly_a,unknown,bulk,unknown,unknown,,China,2020-09-03,Hatching,Embryo,Head,Nervous System
57275,SRR12577974,SRX9064849,SRS7314022,SRP279881,PRJNA612371,Danio rerio strain:TU Raw sequence reads,PRJNA612371,Whole Genome Sequencing,Hemorrhage stroke is a severe vascular disease of the brain with a high mortality rate in humans. Sodium tanshinone IIA sulfonate STS is a water soluble derivative of tanshinone IIA  which is the main active ingredient of Salvia miltiorrhiza Bge known as Danshen in Chinese and has been approved as a commercial drug for treating cardiovascular disease by the China Food and Drug Administration. In our previous study  we established a HMG COA inhibitor atorvastatin Ator induced zebrafish model of cerebral hemorrhage and found that STS dramatically decreased both the hemorrhage rate and hemorrhage area  although the underlying mechanism was not fully elucidated. Therefore  in the present study  we conducted transcriptome analysis of the protective effect of STS against Ator induced cerebral hemorrhage in zebrafish using RNA Seq technology  and further clarify its underlying molecular mechanisms on HIF 1 and its regulators  i.e.  the PI3K/Akt and MAPK signaling pathways were verified by real time PCR analysis and specific pharmacological inhibitors. We are also able to show that hemoglobin  carbonic anhydrase  Na+/H+ exchanger and HIF 1 genes might be potential biomarkers of Ator induced cerebral hemorrhage in zebrafish  as well as pharmacological targets of STS. This study also provided evidence of bio markers involved in hemorrhage stroke and improved understanding of the effects of HMG COA inhibition on vascular permeability and cerebral hemorrhage.,,,,,Ator STS 2 zebrafish,,strain:TU|isolate:not collected|breed:not collected|cultivar:not collected|ecotype:not collected|age:2dpf|dev stage:not collected|sex:not applicable|tissue:head|geo loc name:China:Shanghai|sample type:model organism|replicate:replicate=biological replicate 2'|BioSampleModel:Model organism or animal,,,,,,,,,Ator STS 2 zebrafish,Ator STS 2 zebrafish,Ator STS 2 zebrafish,transcriptome,,,RNA-Seq,TRANSCRIPTOMIC,Oligo-dT,SINGLE,BGISEQ,BGISEQ-500,,SRP279881,,,Ator_STS_2_1.fq.gz,fastq,1057950250.0,21159005.0,Ator STS 2 1.fq.gz,0:50,A:286256354;C:238832868;G:244078781;T:288782247;N:0,50,,,,286256354,238832868,244078781,288782247,0,SRX9064849,SRS7314022,SRA1120721,Shanghai University of Traditional Chinese Medicine|Longhua Hospital,Shanghai University of Traditional Chinese Medicine,1,0.94307,,0.10974,,0.69631,,0.4703,,50,,B,,usable mapping rate,bgi,bgi,unknown,poly_a,unknown,bulk,unknown,unknown,,China,2020-09-03,Hatching,Embryo,Head,Nervous System
57276,SRR12577975,SRX9064848,SRS7314021,SRP279881,PRJNA612371,Danio rerio strain:TU Raw sequence reads,PRJNA612371,Whole Genome Sequencing,Hemorrhage stroke is a severe vascular disease of the brain with a high mortality rate in humans. Sodium tanshinone IIA sulfonate STS is a water soluble derivative of tanshinone IIA  which is the main active ingredient of Salvia miltiorrhiza Bge known as Danshen in Chinese and has been approved as a commercial drug for treating cardiovascular disease by the China Food and Drug Administration. In our previous study  we established a HMG COA inhibitor atorvastatin Ator induced zebrafish model of cerebral hemorrhage and found that STS dramatically decreased both the hemorrhage rate and hemorrhage area  although the underlying mechanism was not fully elucidated. Therefore  in the present study  we conducted transcriptome analysis of the protective effect of STS against Ator induced cerebral hemorrhage in zebrafish using RNA Seq technology  and further clarify its underlying molecular mechanisms on HIF 1 and its regulators  i.e.  the PI3K/Akt and MAPK signaling pathways were verified by real time PCR analysis and specific pharmacological inhibitors. We are also able to show that hemoglobin  carbonic anhydrase  Na+/H+ exchanger and HIF 1 genes might be potential biomarkers of Ator induced cerebral hemorrhage in zebrafish  as well as pharmacological targets of STS. This study also provided evidence of bio markers involved in hemorrhage stroke and improved understanding of the effects of HMG COA inhibition on vascular permeability and cerebral hemorrhage.,,,,,Ator STS 1 zebrafish,,strain:TU|isolate:not collected|breed:not collected|cultivar:not collected|ecotype:not collected|age:2dpf|dev stage:not collected|sex:not applicable|tissue:head|geo loc name:China:Shanghai|sample type:model organism|replicate:replicate=biological replicate 1'|BioSampleModel:Model organism or animal,,,,,,,,,Ator STS 1 zebrafish,Ator STS 1 zebrafish,Ator STS 1 zebrafish,transcriptome,,,RNA-Seq,TRANSCRIPTOMIC,Oligo-dT,SINGLE,BGISEQ,BGISEQ-500,,SRP279881,,,Ator_STS_1_1.fq.gz,fastq,1070136700.0,21402734.0,Ator STS 1 1.fq.gz,0:50,A:297601042;C:243837062;G:243583907;T:285114689;N:0,50,,,,297601042,243837062,243583907,285114689,0,SRX9064848,SRS7314021,SRA1120721,Shanghai University of Traditional Chinese Medicine|Longhua Hospital,Shanghai University of Traditional Chinese Medicine,1,0.94665,,0.12219,,0.67953,,0.46393,,50,,B,,usable mapping rate,bgi,bgi,unknown,poly_a,unknown,bulk,unknown,unknown,,China,2020-09-03,Hatching,Embryo,Head,Nervous System
57277,SRR12577976,SRX9064847,SRS7314020,SRP279881,PRJNA612371,Danio rerio strain:TU Raw sequence reads,PRJNA612371,Whole Genome Sequencing,Hemorrhage stroke is a severe vascular disease of the brain with a high mortality rate in humans. Sodium tanshinone IIA sulfonate STS is a water soluble derivative of tanshinone IIA  which is the main active ingredient of Salvia miltiorrhiza Bge known as Danshen in Chinese and has been approved as a commercial drug for treating cardiovascular disease by the China Food and Drug Administration. In our previous study  we established a HMG COA inhibitor atorvastatin Ator induced zebrafish model of cerebral hemorrhage and found that STS dramatically decreased both the hemorrhage rate and hemorrhage area  although the underlying mechanism was not fully elucidated. Therefore  in the present study  we conducted transcriptome analysis of the protective effect of STS against Ator induced cerebral hemorrhage in zebrafish using RNA Seq technology  and further clarify its underlying molecular mechanisms on HIF 1 and its regulators  i.e.  the PI3K/Akt and MAPK signaling pathways were verified by real time PCR analysis and specific pharmacological inhibitors. We are also able to show that hemoglobin  carbonic anhydrase  Na+/H+ exchanger and HIF 1 genes might be potential biomarkers of Ator induced cerebral hemorrhage in zebrafish  as well as pharmacological targets of STS. This study also provided evidence of bio markers involved in hemorrhage stroke and improved understanding of the effects of HMG COA inhibition on vascular permeability and cerebral hemorrhage.,,,,,Ator 3 zebrafish,,strain:TU|isolate:not collected|breed:not collected|cultivar:not collected|ecotype:not collected|age:2dpf|dev stage:not collected|sex:not applicable|tissue:head|geo loc name:China:Shanghai|sample type:model organism|replicate:replicate=biological replicate 3 prime|BioSampleModel:Model organism or animal,,,,,,,,,Ator 3 zebrafish,Ator 3 zebrafish,Ator 3 zebrafish,transcriptome,,,RNA-Seq,TRANSCRIPTOMIC,Oligo-dT,SINGLE,BGISEQ,BGISEQ-500,,SRP279881,,,Ator_3_1.fq.gz,fastq,1058031900.0,21160638.0,Ator 3 1.fq.gz,0:50,A:285399527;C:239993172;G:245571467;T:287067734;N:0,50,,,,285399527,239993172,245571467,287067734,0,SRX9064847,SRS7314020,SRA1120721,Shanghai University of Traditional Chinese Medicine|Longhua Hospital,Shanghai University of Traditional Chinese Medicine,1,0.94536,,0.11052,,0.6957,,0.48195,,50,,B,,usable mapping rate,bgi,bgi,unknown,poly_a,unknown,bulk,unknown,unknown,,China,2020-09-03,Hatching,Embryo,Head,Nervous System
57278,SRR12577977,SRX9064846,SRS7314019,SRP279881,PRJNA612371,Danio rerio strain:TU Raw sequence reads,PRJNA612371,Whole Genome Sequencing,Hemorrhage stroke is a severe vascular disease of the brain with a high mortality rate in humans. Sodium tanshinone IIA sulfonate STS is a water soluble derivative of tanshinone IIA  which is the main active ingredient of Salvia miltiorrhiza Bge known as Danshen in Chinese and has been approved as a commercial drug for treating cardiovascular disease by the China Food and Drug Administration. In our previous study  we established a HMG COA inhibitor atorvastatin Ator induced zebrafish model of cerebral hemorrhage and found that STS dramatically decreased both the hemorrhage rate and hemorrhage area  although the underlying mechanism was not fully elucidated. Therefore  in the present study  we conducted transcriptome analysis of the protective effect of STS against Ator induced cerebral hemorrhage in zebrafish using RNA Seq technology  and further clarify its underlying molecular mechanisms on HIF 1 and its regulators  i.e.  the PI3K/Akt and MAPK signaling pathways were verified by real time PCR analysis and specific pharmacological inhibitors. We are also able to show that hemoglobin  carbonic anhydrase  Na+/H+ exchanger and HIF 1 genes might be potential biomarkers of Ator induced cerebral hemorrhage in zebrafish  as well as pharmacological targets of STS. This study also provided evidence of bio markers involved in hemorrhage stroke and improved understanding of the effects of HMG COA inhibition on vascular permeability and cerebral hemorrhage.,,,,,Ator 2 zebrafish,,strain:TU|isolate:not collected|breed:not collected|cultivar:not collected|ecotype:not collected|age:2dpf|dev stage:not collected|sex:not applicable|tissue:head|geo loc name:China:Shanghai|sample type:model organism|replicate:replicate=biological replicate 2'|BioSampleModel:Model organism or animal,,,,,,,,,Ator 2 zebrafish,Ator 2 zebrafish,Ator 2 zebrafish,transcriptome,,,RNA-Seq,TRANSCRIPTOMIC,Oligo-dT,SINGLE,BGISEQ,BGISEQ-500,,SRP279881,,,Ator_2_1.fq.gz,fastq,1059618400.0,21192368.0,Ator 2 1.fq.gz,0:50,A:283429136;C:243023053;G:248904818;T:284261393;N:0,50,,,,283429136,243023053,248904818,284261393,0,SRX9064846,SRS7314019,SRA1120721,Shanghai University of Traditional Chinese Medicine|Longhua Hospital,Shanghai University of Traditional Chinese Medicine,1,0.94743,,0.09493,,0.70218,,0.475,,50,,B,,usable mapping rate,bgi,bgi,unknown,poly_a,unknown,bulk,unknown,unknown,,China,2020-09-03,Hatching,Embryo,Head,Nervous System
57279,SRR12577978,SRX9064845,SRS7314018,SRP279881,PRJNA612371,Danio rerio strain:TU Raw sequence reads,PRJNA612371,Whole Genome Sequencing,Hemorrhage stroke is a severe vascular disease of the brain with a high mortality rate in humans. Sodium tanshinone IIA sulfonate STS is a water soluble derivative of tanshinone IIA  which is the main active ingredient of Salvia miltiorrhiza Bge known as Danshen in Chinese and has been approved as a commercial drug for treating cardiovascular disease by the China Food and Drug Administration. In our previous study  we established a HMG COA inhibitor atorvastatin Ator induced zebrafish model of cerebral hemorrhage and found that STS dramatically decreased both the hemorrhage rate and hemorrhage area  although the underlying mechanism was not fully elucidated. Therefore  in the present study  we conducted transcriptome analysis of the protective effect of STS against Ator induced cerebral hemorrhage in zebrafish using RNA Seq technology  and further clarify its underlying molecular mechanisms on HIF 1 and its regulators  i.e.  the PI3K/Akt and MAPK signaling pathways were verified by real time PCR analysis and specific pharmacological inhibitors. We are also able to show that hemoglobin  carbonic anhydrase  Na+/H+ exchanger and HIF 1 genes might be potential biomarkers of Ator induced cerebral hemorrhage in zebrafish  as well as pharmacological targets of STS. This study also provided evidence of bio markers involved in hemorrhage stroke and improved understanding of the effects of HMG COA inhibition on vascular permeability and cerebral hemorrhage.,,,,,Ator 1 zebrafish,,strain:TU|isolate:not collected|breed:not collected|cultivar:not collected|ecotype:not collected|age:2dpf|dev stage:not collected|sex:not applicable|tissue:head|geo loc name:China:Shanghai|sample type:model organism|replicate:replicate=biological replicate 1'|BioSampleModel:Model organism or animal,,,,,,,,,Ator 1 zebrafish,Ator 1 zebrafish,Ator 1 zebrafish,transcriptome,,,RNA-Seq,TRANSCRIPTOMIC,Oligo-dT,SINGLE,BGISEQ,BGISEQ-500,,SRP279881,,,Ator_1_1.fq.gz,fastq,1075695950.0,21513919.0,Ator 1 1.fq.gz,0:50,A:297768036;C:244470267;G:243768925;T:289688722;N:0,50,,,,297768036,244470267,243768925,289688722,0,SRX9064845,SRS7314018,SRA1120721,Shanghai University of Traditional Chinese Medicine|Longhua Hospital,Shanghai University of Traditional Chinese Medicine,1,0.94468,,0.13183,,0.68363,,0.46288,,50,,B,,usable mapping rate,bgi,bgi,unknown,poly_a,unknown,bulk,unknown,unknown,,China,2020-09-03,Hatching,Embryo,Head,Nervous System