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 35816,SRR33052294,SRX28317427,SRS24656196,SRP577565,PRJNA1248471,P301S Mutant Tau Driven Zebrafish Platform Enables Systematic Identification of Pharmacological GSK3ß Inhibitors with Anti Neurodegenerative Efficacy,GSE294097,Transcriptome Analysis,Spatial transcriptome sequencing technology has provided high resolution transcriptome data for studying the molecular mechanism of Tau P301S mediating Alzheimer's disease like pathological changes in zebrafish providing a unique insight into the pathogenesis of tau pathology mediated cell cell interactions in AD. Overall design: This study utilized four Danio rerio lines: wild type WT and three transgenic lines AD3 AD4 AD5 expressing human Tau protein with the P301S mutation Tau P301S. All transgenic lines were generated via stable integration of the human TAU P301S transgene.,,,,WT,GSM8898657,,source name:Brain|tissue:Brain|geo loc name:missing|collection date:missing,WT,Reads were processed using the SAW 7.1.0 pipeline with default and recommended parameters. Assembly: GRCz11 Supplementary files format and content: Mask files matrix files and image files.,Brain,,Tissue sections were adhered to the Stereo seq chip generated by BGI China surface and incubated at 37℃ for 3 minutes. Then the sections were fixed in methanol and incubated for 40 minutes at 20℃ before Stereo seq library preparation. Where indicated the same sections were stained with nucleic acid dye Thermo fisher Q10212 and imaging was performed with a Motic Custom PA53 FS6 microscope prior to in situ capture at the channel of FITC. post washed with 0.1x SSC buffer Thermo AM9770 supplemented with 0.05 U/ml RNase inhibitor NEB M0314L tissue sections placed on the chip were permeabilized using 0.1% pepsin Sigma P7000 in 0.01 M HCl buffer incubated at 37℃ for 5 minutes and then washed with 0.1x SSC buffer Thermo AM9770 supplemented with 0.05 U/ml RNase inhibitor NEB M0314L. RNA released from the permeabilized tissue and captured by the DNB was reverse transcribed overnight at 42℃ using SuperScript II Invitrogen 18064 014 10 U/ml reverse transcriptase 1 mM dNTPs 1 M betaine solution PCR reagent 7.5 mM MgCl2 5 mM DTT 2 U/ml RNase inhibitor 2.5 mM Stereo seq TSO and 1x First Strand buffer. post reverse transcription tissue sections were washed twice with 0.1x SSC buffer and digested with Tissue Removal buffer 10 mM Tris HCl 25 mM EDTA 100 mM NaCl 0.5% SDS at 55℃ for 10 minutes. cDNA containing chips were then subjected to Prepare cDNA Release Mix cDNA Release Enzyme cDNA Release buffer treatment for over night at 55℃. cDNA were purified using the VAHTSTM DNA Clean Beads 0.8×. The concentrations of the resulting PCR products were quantified by QubitTM dsDNA Assay Kit Thermo Q32854. A total of 20 ng of DNA were then fragmented with in house Tn5 transposase at 55℃ for 10 minutes post which the reactions were stopped by the addition of 0.02% SDS and gently mixing at 37℃ for 5 minutes post fragmentation. Fragmented products were amplified as described below: 25 ml of fragmentation product 1x KAPA HiFi Hotstart Ready Mix and 0.3 mM Stereo seq Library F primer 0.3 mM Stereo seq Library R primer in a total volume of 100 ml with the addition of nuclease free H2O. The reaction was then run as: 1 cycle of 95℃ 5 minutes 13 cycles of 98℃ 20 seconds 58℃ 20 seconds and 72℃ 30 seconds and 1 cycle of 72℃ 5 minutes. PCR products were purified using the AMPure XP Beads 0.63 and 0.153 used for DNB generation and finally sequenced on MGI DNBSEQ Tx sequencer.,,tissue:Brain,GSM8898657,GSM8898657: WT; Danio rerio; RNA Seq,GSM8898657 r1,GSM8898657,1,Tissue sections were adhered to the Stereo seq chip generated by BGI China surface and incubated at 37℃ for 3 minutes. Then the sections were fixed in methanol and incubated for 40 minutes at 20℃ before Stereo seq library preparation. Where indicated the same sections were stained with nucleic acid dye Thermo fisher Q10212 and imaging was performed with a Motic Custom PA53 FS6 microscope prior to in situ capture at the channel of FITC. post washed with 0.1x SSC buffer Thermo AM9770 supplemented with 0.05 U/ml RNase inhibitor NEB M0314L tissue sections placed on the chip were permeabilized using 0.1% pepsin Sigma P7000 in 0.01 M HCl buffer incubated at 37℃ for 5 minutes and then washed with 0.1x SSC buffer Thermo AM9770 supplemented with 0.05 U/ml RNase inhibitor NEB M0314L. RNA released from the permeabilized tissue and captured by the DNB was reverse transcribed overnight at 42℃ using SuperScript II Invitrogen 18064 014 10 U/ml reverse transcriptase 1 mM dNTPs 1 M betaine solution PCR reagent 7.5 mM MgCl2 5 mM DTT 2 U/ml RNase inhibitor 2.5 mM Stereo seq TSO and 1x First Strand buffer. post reverse transcription tissue sections were washed twice with 0.1x SSC buffer and digested with Tissue Removal buffer 10 mM Tris HCl 25 mM EDTA 100 mM NaCl 0.5% SDS at 55℃ for 10 minutes. cDNA containing chips were then subjected to Prepare cDNA Release Mix cDNA Release Enzyme cDNA Release buffer treatment for over night at 55℃. cDNA were purified using the VAHTSTM DNA Clean Beads 0.8×. The concentrations of the resulting PCR products were quantified by QubitTM dsDNA Assay Kit Thermo Q32854. A total of 20 ng of DNA were then fragmented with in house Tn5 transposase at 55℃ for 10 minutes post which the reactions were stopped by the addition of 0.02% SDS and gently mixing at 37℃ for 5 minutes post fragmentation. Fragmented products were amplified as described below: 25 ml of fragmentation product 1x KAPA HiFi Hotstart Ready Mix and 0.3 mM Stereo seq Library F primer 0.3 mM Stereo seq Library R primer in a total volume of 100 ml with the addition of nuclease free H2O. The reaction was then run as: 1 cycle of 95℃ 5 minutes 13 cycles of 98℃ 20 seconds 58℃ 20 seconds and 72℃ 30 seconds and 1 cycle of 72℃ 5 minutes. PCR products were purified using the AMPure XP Beads 0.63 and 0.153 used for DNB generation and finally sequenced on MGI DNBSEQ Tx sequencer.,,RNA-Seq,TRANSCRIPTOMIC SINGLE CELL,cDNA,PAIRED,DNBSEQ,DNBSEQ-T7,,SRP577565,,,WT_L01_read_1.fq.gz WT_L01_read_2.fq.gz,fastq fastq,74425524705.0,551300183.0,GSM8898657 r1,0:35 1:100,A:19898122181;C:17423066656;G:16942100032;T:20160847006;N:1388830,35,100,,,19898122181,17423066656,16942100032,20160847006,1388830,SRX28317427,SRS24656196,SRA2109204,ShanTou University,ShanTou University,,,,,,,,,,,,T,B,mate1 technical by mapping diff,bgi,bgi,unknown,cdna_unspecified,unknown,sc,unknown,unknown,,China,2025-04-09,Undetermined,Undetermined,Brain,Nervous System 35817,SRR33052295,SRX28317426,SRS24656195,SRP577565,PRJNA1248471,P301S Mutant Tau Driven Zebrafish Platform Enables Systematic Identification of Pharmacological GSK3ß Inhibitors with Anti Neurodegenerative Efficacy,GSE294097,Transcriptome Analysis,Spatial transcriptome sequencing technology has provided high resolution transcriptome data for studying the molecular mechanism of Tau P301S mediating Alzheimer's disease like pathological changes in zebrafish providing a unique insight into the pathogenesis of tau pathology mediated cell cell interactions in AD. Overall design: This study utilized four Danio rerio lines: wild type WT and three transgenic lines AD3 AD4 AD5 expressing human Tau protein with the P301S mutation Tau P301S. All transgenic lines were generated via stable integration of the human TAU P301S transgene.,,,,AD5,GSM8898656,,source name:Brain|tissue:Brain|geo loc name:missing|collection date:missing,AD5,Reads were processed using the SAW 7.1.0 pipeline with default and recommended parameters. Assembly: GRCz11 Supplementary files format and content: Mask files matrix files and image files.,Brain,,Tissue sections were adhered to the Stereo seq chip generated by BGI China surface and incubated at 37℃ for 3 minutes. Then the sections were fixed in methanol and incubated for 40 minutes at 20℃ before Stereo seq library preparation. Where indicated the same sections were stained with nucleic acid dye Thermo fisher Q10212 and imaging was performed with a Motic Custom PA53 FS6 microscope prior to in situ capture at the channel of FITC. post washed with 0.1x SSC buffer Thermo AM9770 supplemented with 0.05 U/ml RNase inhibitor NEB M0314L tissue sections placed on the chip were permeabilized using 0.1% pepsin Sigma P7000 in 0.01 M HCl buffer incubated at 37℃ for 5 minutes and then washed with 0.1x SSC buffer Thermo AM9770 supplemented with 0.05 U/ml RNase inhibitor NEB M0314L. RNA released from the permeabilized tissue and captured by the DNB was reverse transcribed overnight at 42℃ using SuperScript II Invitrogen 18064 014 10 U/ml reverse transcriptase 1 mM dNTPs 1 M betaine solution PCR reagent 7.5 mM MgCl2 5 mM DTT 2 U/ml RNase inhibitor 2.5 mM Stereo seq TSO and 1x First Strand buffer. post reverse transcription tissue sections were washed twice with 0.1x SSC buffer and digested with Tissue Removal buffer 10 mM Tris HCl 25 mM EDTA 100 mM NaCl 0.5% SDS at 55℃ for 10 minutes. cDNA containing chips were then subjected to Prepare cDNA Release Mix cDNA Release Enzyme cDNA Release buffer treatment for over night at 55℃. cDNA were purified using the VAHTSTM DNA Clean Beads 0.8×. The concentrations of the resulting PCR products were quantified by QubitTM dsDNA Assay Kit Thermo Q32854. A total of 20 ng of DNA were then fragmented with in house Tn5 transposase at 55℃ for 10 minutes post which the reactions were stopped by the addition of 0.02% SDS and gently mixing at 37℃ for 5 minutes post fragmentation. Fragmented products were amplified as described below: 25 ml of fragmentation product 1x KAPA HiFi Hotstart Ready Mix and 0.3 mM Stereo seq Library F primer 0.3 mM Stereo seq Library R primer in a total volume of 100 ml with the addition of nuclease free H2O. The reaction was then run as: 1 cycle of 95℃ 5 minutes 13 cycles of 98℃ 20 seconds 58℃ 20 seconds and 72℃ 30 seconds and 1 cycle of 72℃ 5 minutes. PCR products were purified using the AMPure XP Beads 0.63 and 0.153 used for DNB generation and finally sequenced on MGI DNBSEQ Tx sequencer.,,tissue:Brain,GSM8898656,GSM8898656: AD5; Danio rerio; RNA Seq,GSM8898656 r1,GSM8898656,1,Tissue sections were adhered to the Stereo seq chip generated by BGI China surface and incubated at 37℃ for 3 minutes. Then the sections were fixed in methanol and incubated for 40 minutes at 20℃ before Stereo seq library preparation. Where indicated the same sections were stained with nucleic acid dye Thermo fisher Q10212 and imaging was performed with a Motic Custom PA53 FS6 microscope prior to in situ capture at the channel of FITC. post washed with 0.1x SSC buffer Thermo AM9770 supplemented with 0.05 U/ml RNase inhibitor NEB M0314L tissue sections placed on the chip were permeabilized using 0.1% pepsin Sigma P7000 in 0.01 M HCl buffer incubated at 37℃ for 5 minutes and then washed with 0.1x SSC buffer Thermo AM9770 supplemented with 0.05 U/ml RNase inhibitor NEB M0314L. RNA released from the permeabilized tissue and captured by the DNB was reverse transcribed overnight at 42℃ using SuperScript II Invitrogen 18064 014 10 U/ml reverse transcriptase 1 mM dNTPs 1 M betaine solution PCR reagent 7.5 mM MgCl2 5 mM DTT 2 U/ml RNase inhibitor 2.5 mM Stereo seq TSO and 1x First Strand buffer. post reverse transcription tissue sections were washed twice with 0.1x SSC buffer and digested with Tissue Removal buffer 10 mM Tris HCl 25 mM EDTA 100 mM NaCl 0.5% SDS at 55℃ for 10 minutes. cDNA containing chips were then subjected to Prepare cDNA Release Mix cDNA Release Enzyme cDNA Release buffer treatment for over night at 55℃. cDNA were purified using the VAHTSTM DNA Clean Beads 0.8×. The concentrations of the resulting PCR products were quantified by QubitTM dsDNA Assay Kit Thermo Q32854. A total of 20 ng of DNA were then fragmented with in house Tn5 transposase at 55℃ for 10 minutes post which the reactions were stopped by the addition of 0.02% SDS and gently mixing at 37℃ for 5 minutes post fragmentation. Fragmented products were amplified as described below: 25 ml of fragmentation product 1x KAPA HiFi Hotstart Ready Mix and 0.3 mM Stereo seq Library F primer 0.3 mM Stereo seq Library R primer in a total volume of 100 ml with the addition of nuclease free H2O. The reaction was then run as: 1 cycle of 95℃ 5 minutes 13 cycles of 98℃ 20 seconds 58℃ 20 seconds and 72℃ 30 seconds and 1 cycle of 72℃ 5 minutes. PCR products were purified using the AMPure XP Beads 0.63 and 0.153 used for DNB generation and finally sequenced on MGI DNBSEQ Tx sequencer.,,RNA-Seq,TRANSCRIPTOMIC SINGLE CELL,cDNA,PAIRED,DNBSEQ,DNBSEQ-T7,,SRP577565,,,AD5_L01_read_1.fq.gz AD5_L01_read_2.fq.gz,fastq fastq,84955633785.0,629300991.0,GSM8898656 r1,0:35 1:100,A:22736382740;C:20123949961;G:19583698932;T:22509389862;N:2212290,35,100,,,22736382740,20123949961,19583698932,22509389862,2212290,SRX28317426,SRS24656195,SRA2109204,ShanTou University,ShanTou University,,,,,,,,,,,,T,B,mate1 technical by mapping diff,bgi,bgi,unknown,cdna_unspecified,unknown,sc,unknown,unknown,,China,2025-04-09,Undetermined,Undetermined,Brain,Nervous System 35818,SRR33052296,SRX28317425,SRS24656194,SRP577565,PRJNA1248471,P301S Mutant Tau Driven Zebrafish Platform Enables Systematic Identification of Pharmacological GSK3ß Inhibitors with Anti Neurodegenerative Efficacy,GSE294097,Transcriptome Analysis,Spatial transcriptome sequencing technology has provided high resolution transcriptome data for studying the molecular mechanism of Tau P301S mediating Alzheimer's disease like pathological changes in zebrafish providing a unique insight into the pathogenesis of tau pathology mediated cell cell interactions in AD. Overall design: This study utilized four Danio rerio lines: wild type WT and three transgenic lines AD3 AD4 AD5 expressing human Tau protein with the P301S mutation Tau P301S. All transgenic lines were generated via stable integration of the human TAU P301S transgene.,,,,AD4,GSM8898655,,source name:Brain|tissue:Brain|geo loc name:missing|collection date:missing,AD4,Reads were processed using the SAW 7.1.0 pipeline with default and recommended parameters. Assembly: GRCz11 Supplementary files format and content: Mask files matrix files and image files.,Brain,,Tissue sections were adhered to the Stereo seq chip generated by BGI China surface and incubated at 37℃ for 3 minutes. Then the sections were fixed in methanol and incubated for 40 minutes at 20℃ before Stereo seq library preparation. Where indicated the same sections were stained with nucleic acid dye Thermo fisher Q10212 and imaging was performed with a Motic Custom PA53 FS6 microscope prior to in situ capture at the channel of FITC. post washed with 0.1x SSC buffer Thermo AM9770 supplemented with 0.05 U/ml RNase inhibitor NEB M0314L tissue sections placed on the chip were permeabilized using 0.1% pepsin Sigma P7000 in 0.01 M HCl buffer incubated at 37℃ for 5 minutes and then washed with 0.1x SSC buffer Thermo AM9770 supplemented with 0.05 U/ml RNase inhibitor NEB M0314L. RNA released from the permeabilized tissue and captured by the DNB was reverse transcribed overnight at 42℃ using SuperScript II Invitrogen 18064 014 10 U/ml reverse transcriptase 1 mM dNTPs 1 M betaine solution PCR reagent 7.5 mM MgCl2 5 mM DTT 2 U/ml RNase inhibitor 2.5 mM Stereo seq TSO and 1x First Strand buffer. post reverse transcription tissue sections were washed twice with 0.1x SSC buffer and digested with Tissue Removal buffer 10 mM Tris HCl 25 mM EDTA 100 mM NaCl 0.5% SDS at 55℃ for 10 minutes. cDNA containing chips were then subjected to Prepare cDNA Release Mix cDNA Release Enzyme cDNA Release buffer treatment for over night at 55℃. cDNA were purified using the VAHTSTM DNA Clean Beads 0.8×. The concentrations of the resulting PCR products were quantified by QubitTM dsDNA Assay Kit Thermo Q32854. A total of 20 ng of DNA were then fragmented with in house Tn5 transposase at 55℃ for 10 minutes post which the reactions were stopped by the addition of 0.02% SDS and gently mixing at 37℃ for 5 minutes post fragmentation. Fragmented products were amplified as described below: 25 ml of fragmentation product 1x KAPA HiFi Hotstart Ready Mix and 0.3 mM Stereo seq Library F primer 0.3 mM Stereo seq Library R primer in a total volume of 100 ml with the addition of nuclease free H2O. The reaction was then run as: 1 cycle of 95℃ 5 minutes 13 cycles of 98℃ 20 seconds 58℃ 20 seconds and 72℃ 30 seconds and 1 cycle of 72℃ 5 minutes. PCR products were purified using the AMPure XP Beads 0.63 and 0.153 used for DNB generation and finally sequenced on MGI DNBSEQ Tx sequencer.,,tissue:Brain,GSM8898655,GSM8898655: AD4; Danio rerio; RNA Seq,GSM8898655 r1,GSM8898655,1,Tissue sections were adhered to the Stereo seq chip generated by BGI China surface and incubated at 37℃ for 3 minutes. Then the sections were fixed in methanol and incubated for 40 minutes at 20℃ before Stereo seq library preparation. Where indicated the same sections were stained with nucleic acid dye Thermo fisher Q10212 and imaging was performed with a Motic Custom PA53 FS6 microscope prior to in situ capture at the channel of FITC. post washed with 0.1x SSC buffer Thermo AM9770 supplemented with 0.05 U/ml RNase inhibitor NEB M0314L tissue sections placed on the chip were permeabilized using 0.1% pepsin Sigma P7000 in 0.01 M HCl buffer incubated at 37℃ for 5 minutes and then washed with 0.1x SSC buffer Thermo AM9770 supplemented with 0.05 U/ml RNase inhibitor NEB M0314L. RNA released from the permeabilized tissue and captured by the DNB was reverse transcribed overnight at 42℃ using SuperScript II Invitrogen 18064 014 10 U/ml reverse transcriptase 1 mM dNTPs 1 M betaine solution PCR reagent 7.5 mM MgCl2 5 mM DTT 2 U/ml RNase inhibitor 2.5 mM Stereo seq TSO and 1x First Strand buffer. post reverse transcription tissue sections were washed twice with 0.1x SSC buffer and digested with Tissue Removal buffer 10 mM Tris HCl 25 mM EDTA 100 mM NaCl 0.5% SDS at 55℃ for 10 minutes. cDNA containing chips were then subjected to Prepare cDNA Release Mix cDNA Release Enzyme cDNA Release buffer treatment for over night at 55℃. cDNA were purified using the VAHTSTM DNA Clean Beads 0.8×. The concentrations of the resulting PCR products were quantified by QubitTM dsDNA Assay Kit Thermo Q32854. A total of 20 ng of DNA were then fragmented with in house Tn5 transposase at 55℃ for 10 minutes post which the reactions were stopped by the addition of 0.02% SDS and gently mixing at 37℃ for 5 minutes post fragmentation. Fragmented products were amplified as described below: 25 ml of fragmentation product 1x KAPA HiFi Hotstart Ready Mix and 0.3 mM Stereo seq Library F primer 0.3 mM Stereo seq Library R primer in a total volume of 100 ml with the addition of nuclease free H2O. The reaction was then run as: 1 cycle of 95℃ 5 minutes 13 cycles of 98℃ 20 seconds 58℃ 20 seconds and 72℃ 30 seconds and 1 cycle of 72℃ 5 minutes. PCR products were purified using the AMPure XP Beads 0.63 and 0.153 used for DNB generation and finally sequenced on MGI DNBSEQ Tx sequencer.,,RNA-Seq,TRANSCRIPTOMIC SINGLE CELL,cDNA,PAIRED,DNBSEQ,DNBSEQ-T7,,SRP577565,,,AD4_L01_read_1.fq.gz AD4_L01_read_2.fq.gz,fastq fastq,44786077200.0,331748720.0,GSM8898655 r1,0:35 1:100,A:11725098079;C:10594300338;G:10327407801;T:12138018161;N:1252821,35,100,,,11725098079,10594300338,10327407801,12138018161,1252821,SRX28317425,SRS24656194,SRA2109204,ShanTou University,ShanTou University,,,,,,,,,,,,T,B,mate1 technical by mapping diff,bgi,bgi,unknown,cdna_unspecified,unknown,sc,unknown,unknown,,China,2025-04-09,Undetermined,Undetermined,Brain,Nervous System 35819,SRR33052297,SRX28317424,SRS24656193,SRP577565,PRJNA1248471,P301S Mutant Tau Driven Zebrafish Platform Enables Systematic Identification of Pharmacological GSK3ß Inhibitors with Anti Neurodegenerative Efficacy,GSE294097,Transcriptome Analysis,Spatial transcriptome sequencing technology has provided high resolution transcriptome data for studying the molecular mechanism of Tau P301S mediating Alzheimer's disease like pathological changes in zebrafish providing a unique insight into the pathogenesis of tau pathology mediated cell cell interactions in AD. Overall design: This study utilized four Danio rerio lines: wild type WT and three transgenic lines AD3 AD4 AD5 expressing human Tau protein with the P301S mutation Tau P301S. All transgenic lines were generated via stable integration of the human TAU P301S transgene.,,,,AD3,GSM8898654,,source name:Brain|tissue:Brain|geo loc name:missing|collection date:missing,AD3,Reads were processed using the SAW 7.1.0 pipeline with default and recommended parameters. Assembly: GRCz11 Supplementary files format and content: Mask files matrix files and image files.,Brain,,Tissue sections were adhered to the Stereo seq chip generated by BGI China surface and incubated at 37℃ for 3 minutes. Then the sections were fixed in methanol and incubated for 40 minutes at 20℃ before Stereo seq library preparation. Where indicated the same sections were stained with nucleic acid dye Thermo fisher Q10212 and imaging was performed with a Motic Custom PA53 FS6 microscope prior to in situ capture at the channel of FITC. post washed with 0.1x SSC buffer Thermo AM9770 supplemented with 0.05 U/ml RNase inhibitor NEB M0314L tissue sections placed on the chip were permeabilized using 0.1% pepsin Sigma P7000 in 0.01 M HCl buffer incubated at 37℃ for 5 minutes and then washed with 0.1x SSC buffer Thermo AM9770 supplemented with 0.05 U/ml RNase inhibitor NEB M0314L. RNA released from the permeabilized tissue and captured by the DNB was reverse transcribed overnight at 42℃ using SuperScript II Invitrogen 18064 014 10 U/ml reverse transcriptase 1 mM dNTPs 1 M betaine solution PCR reagent 7.5 mM MgCl2 5 mM DTT 2 U/ml RNase inhibitor 2.5 mM Stereo seq TSO and 1x First Strand buffer. post reverse transcription tissue sections were washed twice with 0.1x SSC buffer and digested with Tissue Removal buffer 10 mM Tris HCl 25 mM EDTA 100 mM NaCl 0.5% SDS at 55℃ for 10 minutes. cDNA containing chips were then subjected to Prepare cDNA Release Mix cDNA Release Enzyme cDNA Release buffer treatment for over night at 55℃. cDNA were purified using the VAHTSTM DNA Clean Beads 0.8×. The concentrations of the resulting PCR products were quantified by QubitTM dsDNA Assay Kit Thermo Q32854. A total of 20 ng of DNA were then fragmented with in house Tn5 transposase at 55℃ for 10 minutes post which the reactions were stopped by the addition of 0.02% SDS and gently mixing at 37℃ for 5 minutes post fragmentation. Fragmented products were amplified as described below: 25 ml of fragmentation product 1x KAPA HiFi Hotstart Ready Mix and 0.3 mM Stereo seq Library F primer 0.3 mM Stereo seq Library R primer in a total volume of 100 ml with the addition of nuclease free H2O. The reaction was then run as: 1 cycle of 95℃ 5 minutes 13 cycles of 98℃ 20 seconds 58℃ 20 seconds and 72℃ 30 seconds and 1 cycle of 72℃ 5 minutes. PCR products were purified using the AMPure XP Beads 0.63 and 0.153 used for DNB generation and finally sequenced on MGI DNBSEQ Tx sequencer.,,tissue:Brain,GSM8898654,GSM8898654: AD3; Danio rerio; RNA Seq,GSM8898654 r1,GSM8898654,1,Tissue sections were adhered to the Stereo seq chip generated by BGI China surface and incubated at 37℃ for 3 minutes. Then the sections were fixed in methanol and incubated for 40 minutes at 20℃ before Stereo seq library preparation. Where indicated the same sections were stained with nucleic acid dye Thermo fisher Q10212 and imaging was performed with a Motic Custom PA53 FS6 microscope prior to in situ capture at the channel of FITC. post washed with 0.1x SSC buffer Thermo AM9770 supplemented with 0.05 U/ml RNase inhibitor NEB M0314L tissue sections placed on the chip were permeabilized using 0.1% pepsin Sigma P7000 in 0.01 M HCl buffer incubated at 37℃ for 5 minutes and then washed with 0.1x SSC buffer Thermo AM9770 supplemented with 0.05 U/ml RNase inhibitor NEB M0314L. RNA released from the permeabilized tissue and captured by the DNB was reverse transcribed overnight at 42℃ using SuperScript II Invitrogen 18064 014 10 U/ml reverse transcriptase 1 mM dNTPs 1 M betaine solution PCR reagent 7.5 mM MgCl2 5 mM DTT 2 U/ml RNase inhibitor 2.5 mM Stereo seq TSO and 1x First Strand buffer. post reverse transcription tissue sections were washed twice with 0.1x SSC buffer and digested with Tissue Removal buffer 10 mM Tris HCl 25 mM EDTA 100 mM NaCl 0.5% SDS at 55℃ for 10 minutes. cDNA containing chips were then subjected to Prepare cDNA Release Mix cDNA Release Enzyme cDNA Release buffer treatment for over night at 55℃. cDNA were purified using the VAHTSTM DNA Clean Beads 0.8×. The concentrations of the resulting PCR products were quantified by QubitTM dsDNA Assay Kit Thermo Q32854. A total of 20 ng of DNA were then fragmented with in house Tn5 transposase at 55℃ for 10 minutes post which the reactions were stopped by the addition of 0.02% SDS and gently mixing at 37℃ for 5 minutes post fragmentation. Fragmented products were amplified as described below: 25 ml of fragmentation product 1x KAPA HiFi Hotstart Ready Mix and 0.3 mM Stereo seq Library F primer 0.3 mM Stereo seq Library R primer in a total volume of 100 ml with the addition of nuclease free H2O. The reaction was then run as: 1 cycle of 95℃ 5 minutes 13 cycles of 98℃ 20 seconds 58℃ 20 seconds and 72℃ 30 seconds and 1 cycle of 72℃ 5 minutes. PCR products were purified using the AMPure XP Beads 0.63 and 0.153 used for DNB generation and finally sequenced on MGI DNBSEQ Tx sequencer.,,RNA-Seq,TRANSCRIPTOMIC SINGLE CELL,cDNA,PAIRED,DNBSEQ,DNBSEQ-T7,,SRP577565,,,AD3_L01_read_1.fq.gz AD3_L01_read_2.fq.gz,fastq fastq,60591288060.0,448824356.0,GSM8898654 r1,0:35 1:100,A:15920282345;C:14771409856;G:14276809765;T:15621229410;N:1556684,35,100,,,15920282345,14771409856,14276809765,15621229410,1556684,SRX28317424,SRS24656193,SRA2109204,ShanTou University,ShanTou University,,,,,,,,,,,,T,B,mate1 technical by mapping diff,bgi,bgi,unknown,cdna_unspecified,unknown,sc,unknown,unknown,,China,2025-04-09,Undetermined,Undetermined,Brain,Nervous System 35865,SRR33094447,SRX28358130,SRS24687221,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.,,,TauP301S 4,,TauP301S 4,,breed:zebrafish|age:4 month|collection date:2024 05 18|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,TauP301S 4,TauP301S 4,tissue,,,RNA-Seq,TRANSCRIPTOMIC SINGLE CELL,PolyA,PAIRED,BGISEQ,BGISEQ-500,,SRP578075,,,AD4_S1_L001_R1_001.fastq.gz AD4_S1_L001_R2_001.fastq.gz,fastq fastq,129145897746.0,427635423.0,AD4 S1 L001 R1 001.fastq.gz,0:151 1:151,A:37870495722;C:24917123133;G:22536537853;T:43764941649;N:56799389,151,151,,,37870495722,24917123133,22536537853,43764941649,56799389,SRX28358130,SRS24687221,SRA2110625,Shantou university medical college|Neuroscience Center,Shantou university medical college,,,,,,,,,,,,T,B,mate1 technical by mapping diff,bgi,bgi,unknown,poly_a,unknown,sc,unknown,unknown,,China,2025-04-13,Adult,Adult,Brain,Nervous System 35866,SRR33094448,SRX28358129,SRS24687220,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.,,,TauP301S 3,,TauP301S 3,,breed:zebrafish|age:4 month|collection date:2024 05 17|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,TauP301S 3,TauP301S 3,tissue,,,RNA-Seq,TRANSCRIPTOMIC SINGLE CELL,PolyA,PAIRED,BGISEQ,BGISEQ-500,,SRP578075,,,AD3_S1_L001_R1_001.fastq.gz AD3_S1_L001_R2_001.fastq.gz,fastq fastq,130723873718.0,432860509.0,AD3 S1 L001 R1 001.fastq.gz,0:151 1:151,A:38509426012;C:25238065771;G:22586405501;T:44332442791;N:57533643,151,151,,,38509426012,25238065771,22586405501,44332442791,57533643,SRX28358129,SRS24687220,SRA2110625,Shantou university medical college|Neuroscience Center,Shantou university medical college,,,,,,,,,,,,T,B,mate1 technical by mapping diff,bgi,bgi,unknown,poly_a,unknown,sc,unknown,unknown,,China,2025-04-13,Adult,Adult,Brain,Nervous System 35867,SRR33094449,SRX28358128,SRS24687219,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.,,,TauP301S 2,,TauP301S 2,,breed:zebrafish|age:4 month|collection date:2024 05 16|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,TauP301S 2,TauP301S 2,tissue,,,RNA-Seq,TRANSCRIPTOMIC SINGLE CELL,PolyA,PAIRED,BGISEQ,BGISEQ-500,,SRP578075,,,AD2_S1_L001_R1_001.fastq.gz AD2_S1_L001_R2_001.fastq.gz,fastq fastq,130145208498.0,430944399.0,AD2 S1 L001 R1 001.fastq.gz,0:151 1:151,A:37802929660;C:22980541562;G:20982421471;T:48304142442;N:75173363,151,151,,,37802929660,22980541562,20982421471,48304142442,75173363,SRX28358128,SRS24687219,SRA2110625,Shantou university medical college|Neuroscience Center,Shantou university medical college,,,,,,,,,,,,T,B,mate1 technical by mapping diff,bgi,bgi,unknown,poly_a,unknown,sc,unknown,unknown,,China,2025-04-13,Adult,Adult,Brain,Nervous System 35868,SRR33094450,SRX28358127,SRS24687218,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.,,,TauP301S 1,,TauP301S 1,,breed:zebrafish|age:4 month|collection date:2024 05 15|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,TauP301S 1,TauP301S 1,tissue,,,RNA-Seq,TRANSCRIPTOMIC SINGLE CELL,PolyA,PAIRED,BGISEQ,BGISEQ-500,,SRP578075,,,AD1_S1_L001_R1_001.fastq.gz AD1_S1_L001_R2_001.fastq.gz,fastq fastq,151897861402.0,502973051.0,AD1 S1 L001 R1 001.fastq.gz,0:151 1:151,A:44290580650;C:26864167508;G:24611898618;T:56043760812;N:87453814,151,151,,,44290580650,26864167508,24611898618,56043760812,87453814,SRX28358127,SRS24687218,SRA2110625,Shantou university medical college|Neuroscience Center,Shantou university medical college,,,,,,,,,,,,T,B,mate1 technical by mapping diff,bgi,bgi,unknown,poly_a,unknown,sc,unknown,unknown,,China,2025-04-13,Adult,Adult,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