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Read</READ_CLASS><READ_TYPE>Forward</READ_TYPE><BASE_COORD>1</BASE_COORD></READ_SPEC><READ_SPEC><READ_INDEX>1</READ_INDEX><READ_CLASS>Application Read</READ_CLASS><READ_TYPE>Reverse</READ_TYPE><BASE_COORD>101</BASE_COORD></READ_SPEC></SPOT_DECODE_SPEC></SPOT_DESCRIPTOR>", "SRP044781", null, null, "F_Dr_8_ACAGTG_L003_R2.fastq.gz F_Dr_8_ACAGTG_L003_R1.fastq.gz", "fastq fastq", 19343193000.0, 96715965.0, "F Dr 8 files", "0:100 1:100", "A:5011655819;C:4570121318;G:4634671917;T:4933523152;N:193220794", 100, 100, null, null, 5011655819, 4570121318, 4634671917, 4933523152, 193220794, "SRX661009", "SRS665984", "SRA176464", "INRA|Fish Physiology and Genomics", "INRA PhyloFish", 2, 0.88337, 0.91338, 0.05259, 0.05508, 0.75103, 0.75317, 0.51459, 0.51744, 100, 100, "B", "B", "biological fallback assumption", "illumina", "hiseq_era", "unknown", "poly_a", "trueseq", "bulk", "unknown", "unknown", null, "France", "2014-07-26", "Adult", "Adult", "Bone or Cartilage", "Skeletal Element"], [58579, "SRR11425295", "SRX8003661", "SRS6377641", "SRP254053", "PRJNA615232", "Control of osteoblast regeneration by a train of Erk activity waves", "GSE147551", "Transcriptome Analysis", "We report here a dataset regarding the transcriptome of Erk active osteoblasts in regenerating zebrafish scales. We recently discovered that the marker osx:Venus hGeminin anti correlates with Erk activity in those cells. Thus  by sorting using FACS cells based on both the expression of an osteoblast marker osx::H2A mCherry and the levels of hGeminin  we could sort osteoblasts into separate Erk+ and Erk  populations and perform RNAsequence in triplicates. We found that dusp and sprouty transcripts are elevated in osteoblasts with high Erk activity. Specifically  dusp2  dusp5 and spry4 transcripts are predominant in scales and consistently present at higher levels in the population enriched for Erk+ cells. Overall design: Comparison of the transcriptome of osteoblasts of regenerating zebrafish scales with high and low Erk activity. Cells are sorted on the basis of their osx:Venus hGeminin signal  which anti correlates with Erk activity.", null, "pubmed:33408418", null, "high Erk activity; rep1", "GSM4433141", null, "tissue:high Erk activity|fluorescence:osx:H2A mCherry+ osx:Venus hGeminin+|cell type:osteoblasts of regenerating zebrafish scales", "high Erk activity; rep1", "Reads were trimmed by Trim Galore 0.4.1  with  q 15   paired and then mapped with TopHat v 2.1.1  with parameters   b2 very sensitive   no coverage search and supplying the UCSC danRer10 refSeq annotation. Gene level read counts were obtained using the featureCounts v1.6.1 by the reads with MAPQ greater than 30 Genome build: danRer10 Supplementary files format and content: raw counts of sequencing reads for the features of interest for RNAseq", "high Erk activity", "Cells were analyzed and sorted using a SH800S Sony Cell Sorter using a 100 \u00b5m disposable chip. Initially  events were gated using Forward versus Side Scatter Areas 488 nm laser. Then  single cells were enriched by gating Forward Scatter Height versus Forward Scatter Area 488 nm excitation laser. Live cells were enriched by selecting a population with low DAPI emission 405 nm excitation laser. Finally  H2A mCherry+ Venus hGeminin  and H2A mCherry+ Venus hGeminin+ were sorted by gating Venus hGeminin 488 nm excitation laser versus mCherry 561 nm excitation laser. Cells were collected in PBS or TriReagent Sigma T9424", "RNA was extracted using TriReagent followed by RNAeasy microKit Qiagen #74004 Library preparation was performed by BGI Genomics Low Input Library Preparation \u2013 BT01", "Scale regeneration was induced by plucking about 50 scales  in three rows  from each side of osx:H2A mCherry osx:Venus hGeminin fish. At 4 days post plucking dpp  all regenerating scales were plucked  and collected in PBS on ice. About 3 5 fish were used per sample. Tissue was pelleted by centrifugation 5 min at 600g and resuspended in 600 \u00b5l of 13U/ml Liberase DH Research Grade   Sigma #5401054001 in HBSS Gibso #14025 092 and incubated at 37 C for 1 h. Every 15 min  500 \u00b5l of supernatant was removed  quenched with 65\u00b5l sheep serum Sigma S2263 on ice  and 500 \u00b5l of fresh Liberase was added to the primary tube. All collected supernatant was filtered using 50 \u00b5l filters Corning #431750  pelleted 5 min at 600 g and resuspended in 1 ml DMEM + 1% BSA UltraPure   Invitrogen AM2616.  Before sorting  1 \u00b5g/ml DAPI Sigma D9542 was added to the tube.", "fluorescence:osx:H2A mCherry+ osx:Venus hGeminin+|cell type:osteoblasts of regenerating zebrafish scales", "GSM4433141", "GSM4433141: high Erk activity; rep1; Danio rerio; RNA Seq", "GSM4433141", null, "1", "RNA was extracted using TriReagent followed by RNAeasy microKit Qiagen #74004 Library preparation was performed by BGI Genomics Low Input Library Preparation \u2013 BT01", "GEO Accession:GSM4433141", "RNA-Seq", "TRANSCRIPTOMIC", "cDNA", "PAIRED", "BGISEQ", "BGISEQ-500", null, "SRP254053", null, null, "3G_plus_1.fq.gz 3G_plus_2.fq.gz", "fastq fastq", 4698595200.0, 46985952.0, "GSM4433141 r1", "0:100 1:100", "A:1261622105;C:1085007643;G:1066886112;T:1285079340;N:0", 100, 100, null, null, 1261622105, 1085007643, 1066886112, 1285079340, 0, "SRX8003661", "SRS6377641", "SRA1059429", "GEO", "Poss, Cell Biology, Duke University", 1, 0.86576, null, 0.11767, null, 0.81262, null, 0.52377, null, 100, null, "B", null, "usable mapping rate", "bgi", "bgi", "unknown", "cdna_unspecified", "unknown", "bulk", "unknown", "unknown", null, "United States", "2020-03-25", "Undetermined", "Undetermined", "Bone or Cartilage", "Skeletal Element"], [58580, "SRR11425294", "SRX8003660", "SRS6377640", "SRP254053", "PRJNA615232", "Control of osteoblast regeneration by a train of Erk activity waves", "GSE147551", "Transcriptome Analysis", "We report here a dataset regarding the transcriptome of Erk active osteoblasts in regenerating zebrafish scales. We recently discovered that the marker osx:Venus hGeminin anti correlates with Erk activity in those cells. Thus  by sorting using FACS cells based on both the expression of an osteoblast marker osx::H2A mCherry and the levels of hGeminin  we could sort osteoblasts into separate Erk+ and Erk  populations and perform RNAsequence in triplicates. We found that dusp and sprouty transcripts are elevated in osteoblasts with high Erk activity. Specifically  dusp2  dusp5 and spry4 transcripts are predominant in scales and consistently present at higher levels in the population enriched for Erk+ cells. Overall design: Comparison of the transcriptome of osteoblasts of regenerating zebrafish scales with high and low Erk activity. Cells are sorted on the basis of their osx:Venus hGeminin signal  which anti correlates with Erk activity.", null, "pubmed:33408418", null, "low Erk activity; rep3", "GSM4433140", null, "tissue:low Erk activity|fluorescence:osx:H2A mCherry+ osx:Venus hGeminin |cell type:osteoblasts of regenerating zebrafish scales", "low Erk activity; rep3", "Reads were trimmed by Trim Galore 0.4.1  with  q 15   paired and then mapped with TopHat v 2.1.1  with parameters   b2 very sensitive   no coverage search and supplying the UCSC danRer10 refSeq annotation. Gene level read counts were obtained using the featureCounts v1.6.1 by the reads with MAPQ greater than 30 Genome build: danRer10 Supplementary files format and content: raw counts of sequencing reads for the features of interest for RNAseq", "low Erk activity", "Cells were analyzed and sorted using a SH800S Sony Cell Sorter using a 100 \u00b5m disposable chip. Initially  events were gated using Forward versus Side Scatter Areas 488 nm laser. Then  single cells were enriched by gating Forward Scatter Height versus Forward Scatter Area 488 nm excitation laser. Live cells were enriched by selecting a population with low DAPI emission 405 nm excitation laser. Finally  H2A mCherry+ Venus hGeminin  and H2A mCherry+ Venus hGeminin+ were sorted by gating Venus hGeminin 488 nm excitation laser versus mCherry 561 nm excitation laser. Cells were collected in PBS or TriReagent Sigma T9424", "RNA was extracted using TriReagent followed by RNAeasy microKit Qiagen #74004 Library preparation was performed by BGI Genomics Low Input Library Preparation \u2013 BT01", "Scale regeneration was induced by plucking about 50 scales  in three rows  from each side of osx:H2A mCherry osx:Venus hGeminin fish. At 4 days post plucking dpp  all regenerating scales were plucked  and collected in PBS on ice. About 3 5 fish were used per sample. Tissue was pelleted by centrifugation 5 min at 600g and resuspended in 600 \u00b5l of 13U/ml Liberase DH Research Grade   Sigma #5401054001 in HBSS Gibso #14025 092 and incubated at 37 C for 1 h. Every 15 min  500 \u00b5l of supernatant was removed  quenched with 65\u00b5l sheep serum Sigma S2263 on ice  and 500 \u00b5l of fresh Liberase was added to the primary tube. All collected supernatant was filtered using 50 \u00b5l filters Corning #431750  pelleted 5 min at 600 g and resuspended in 1 ml DMEM + 1% BSA UltraPure   Invitrogen AM2616.  Before sorting  1 \u00b5g/ml DAPI Sigma D9542 was added to the tube.", "fluorescence:osx:H2A mCherry+ osx:Venus hGeminin |cell type:osteoblasts of regenerating zebrafish scales", "GSM4433140", "GSM4433140: low Erk activity; rep3; Danio rerio; RNA Seq", "GSM4433140", null, "1", "RNA was extracted using TriReagent followed by RNAeasy microKit Qiagen #74004 Library preparation was performed by BGI Genomics Low Input Library Preparation \u2013 BT01", "GEO Accession:GSM4433140", "RNA-Seq", "TRANSCRIPTOMIC", "cDNA", "PAIRED", "BGISEQ", "BGISEQ-500", null, "SRP254053", null, null, "6B_minus_1.fq.gz 6B_minus_2.fq.gz", "fastq fastq", 4707217000.0, 47072170.0, "GSM4433140 r1", "0:100 1:100", "A:1268188059;C:1086056259;G:1067448053;T:1285524629;N:0", 100, 100, null, null, 1268188059, 1086056259, 1067448053, 1285524629, 0, "SRX8003660", "SRS6377640", "SRA1059429", "GEO", "Poss, Cell Biology, Duke University", 1, 0.88883, null, 0.05585, null, 0.82071, null, 0.47905, null, 100, null, "B", null, "usable mapping rate", "bgi", "bgi", "unknown", "cdna_unspecified", "unknown", "bulk", "unknown", "unknown", null, "United States", "2020-03-25", "Undetermined", "Undetermined", "Bone or Cartilage", "Skeletal Element"], [58581, "SRR11425293", "SRX8003659", "SRS6377639", "SRP254053", "PRJNA615232", "Control of osteoblast regeneration by a train of Erk activity waves", "GSE147551", "Transcriptome Analysis", "We report here a dataset regarding the transcriptome of Erk active osteoblasts in regenerating zebrafish scales. We recently discovered that the marker osx:Venus hGeminin anti correlates with Erk activity in those cells. Thus  by sorting using FACS cells based on both the expression of an osteoblast marker osx::H2A mCherry and the levels of hGeminin  we could sort osteoblasts into separate Erk+ and Erk  populations and perform RNAsequence in triplicates. We found that dusp and sprouty transcripts are elevated in osteoblasts with high Erk activity. Specifically  dusp2  dusp5 and spry4 transcripts are predominant in scales and consistently present at higher levels in the population enriched for Erk+ cells. Overall design: Comparison of the transcriptome of osteoblasts of regenerating zebrafish scales with high and low Erk activity. Cells are sorted on the basis of their osx:Venus hGeminin signal  which anti correlates with Erk activity.", null, "pubmed:33408418", null, "low Erk activity; rep2", "GSM4433139", null, "tissue:low Erk activity|fluorescence:osx:H2A mCherry+ osx:Venus hGeminin |cell type:osteoblasts of regenerating zebrafish scales", "low Erk activity; rep2", "Reads were trimmed by Trim Galore 0.4.1  with  q 15   paired and then mapped with TopHat v 2.1.1  with parameters   b2 very sensitive   no coverage search and supplying the UCSC danRer10 refSeq annotation. Gene level read counts were obtained using the featureCounts v1.6.1 by the reads with MAPQ greater than 30 Genome build: danRer10 Supplementary files format and content: raw counts of sequencing reads for the features of interest for RNAseq", "low Erk activity", "Cells were analyzed and sorted using a SH800S Sony Cell Sorter using a 100 \u00b5m disposable chip. Initially  events were gated using Forward versus Side Scatter Areas 488 nm laser. Then  single cells were enriched by gating Forward Scatter Height versus Forward Scatter Area 488 nm excitation laser. Live cells were enriched by selecting a population with low DAPI emission 405 nm excitation laser. Finally  H2A mCherry+ Venus hGeminin  and H2A mCherry+ Venus hGeminin+ were sorted by gating Venus hGeminin 488 nm excitation laser versus mCherry 561 nm excitation laser. Cells were collected in PBS or TriReagent Sigma T9424", "RNA was extracted using TriReagent followed by RNAeasy microKit Qiagen #74004 Library preparation was performed by BGI Genomics Low Input Library Preparation \u2013 BT01", "Scale regeneration was induced by plucking about 50 scales  in three rows  from each side of osx:H2A mCherry osx:Venus hGeminin fish. At 4 days post plucking dpp  all regenerating scales were plucked  and collected in PBS on ice. About 3 5 fish were used per sample. Tissue was pelleted by centrifugation 5 min at 600g and resuspended in 600 \u00b5l of 13U/ml Liberase DH Research Grade   Sigma #5401054001 in HBSS Gibso #14025 092 and incubated at 37 C for 1 h. Every 15 min  500 \u00b5l of supernatant was removed  quenched with 65\u00b5l sheep serum Sigma S2263 on ice  and 500 \u00b5l of fresh Liberase was added to the primary tube. All collected supernatant was filtered using 50 \u00b5l filters Corning #431750  pelleted 5 min at 600 g and resuspended in 1 ml DMEM + 1% BSA UltraPure   Invitrogen AM2616.  Before sorting  1 \u00b5g/ml DAPI Sigma D9542 was added to the tube.", "fluorescence:osx:H2A mCherry+ osx:Venus hGeminin |cell type:osteoblasts of regenerating zebrafish scales", "GSM4433139", "GSM4433139: low Erk activity; rep2; Danio rerio; RNA Seq", "GSM4433139", null, "1", "RNA was extracted using TriReagent followed by RNAeasy microKit Qiagen #74004 Library preparation was performed by BGI Genomics Low Input Library Preparation \u2013 BT01", "GEO Accession:GSM4433139", "RNA-Seq", "TRANSCRIPTOMIC", "cDNA", "PAIRED", "BGISEQ", "BGISEQ-500", null, "SRP254053", null, null, "5G_minus_1.fq.gz 5G_minus_2.fq.gz", "fastq fastq", 4705295600.0, 47052956.0, "GSM4433139 r1", "0:100 1:100", "A:1240779500;C:1112511484;G:1096653049;T:1255351567;N:0", 100, 100, null, null, 1240779500, 1112511484, 1096653049, 1255351567, 0, "SRX8003659", "SRS6377639", "SRA1059429", "GEO", "Poss, Cell Biology, Duke University", 1, 0.89254, null, 0.04065, null, 0.81197, null, 0.46307, null, 100, null, "B", null, "usable mapping rate", "bgi", "bgi", "unknown", "cdna_unspecified", "unknown", "bulk", "unknown", "unknown", null, "United States", "2020-03-25", "Undetermined", "Undetermined", "Bone or Cartilage", "Skeletal Element"], [58582, "SRR11425292", "SRX8003658", "SRS6377638", "SRP254053", "PRJNA615232", "Control of osteoblast regeneration by a train of Erk activity waves", "GSE147551", "Transcriptome Analysis", "We report here a dataset regarding the transcriptome of Erk active osteoblasts in regenerating zebrafish scales. We recently discovered that the marker osx:Venus hGeminin anti correlates with Erk activity in those cells. Thus  by sorting using FACS cells based on both the expression of an osteoblast marker osx::H2A mCherry and the levels of hGeminin  we could sort osteoblasts into separate Erk+ and Erk  populations and perform RNAsequence in triplicates. We found that dusp and sprouty transcripts are elevated in osteoblasts with high Erk activity. Specifically  dusp2  dusp5 and spry4 transcripts are predominant in scales and consistently present at higher levels in the population enriched for Erk+ cells. Overall design: Comparison of the transcriptome of osteoblasts of regenerating zebrafish scales with high and low Erk activity. Cells are sorted on the basis of their osx:Venus hGeminin signal  which anti correlates with Erk activity.", null, "pubmed:33408418", null, "low Erk activity; rep1", "GSM4433138", null, "tissue:low Erk activity|fluorescence:osx:H2A mCherry+ osx:Venus hGeminin |cell type:osteoblasts of regenerating zebrafish scales", "low Erk activity; rep1", "Reads were trimmed by Trim Galore 0.4.1  with  q 15   paired and then mapped with TopHat v 2.1.1  with parameters   b2 very sensitive   no coverage search and supplying the UCSC danRer10 refSeq annotation. Gene level read counts were obtained using the featureCounts v1.6.1 by the reads with MAPQ greater than 30 Genome build: danRer10 Supplementary files format and content: raw counts of sequencing reads for the features of interest for RNAseq", "low Erk activity", "Cells were analyzed and sorted using a SH800S Sony Cell Sorter using a 100 \u00b5m disposable chip. Initially  events were gated using Forward versus Side Scatter Areas 488 nm laser. Then  single cells were enriched by gating Forward Scatter Height versus Forward Scatter Area 488 nm excitation laser. Live cells were enriched by selecting a population with low DAPI emission 405 nm excitation laser. Finally  H2A mCherry+ Venus hGeminin  and H2A mCherry+ Venus hGeminin+ were sorted by gating Venus hGeminin 488 nm excitation laser versus mCherry 561 nm excitation laser. Cells were collected in PBS or TriReagent Sigma T9424", "RNA was extracted using TriReagent followed by RNAeasy microKit Qiagen #74004 Library preparation was performed by BGI Genomics Low Input Library Preparation \u2013 BT01", "Scale regeneration was induced by plucking about 50 scales  in three rows  from each side of osx:H2A mCherry osx:Venus hGeminin fish. At 4 days post plucking dpp  all regenerating scales were plucked  and collected in PBS on ice. About 3 5 fish were used per sample. Tissue was pelleted by centrifugation 5 min at 600g and resuspended in 600 \u00b5l of 13U/ml Liberase DH Research Grade   Sigma #5401054001 in HBSS Gibso #14025 092 and incubated at 37 C for 1 h. Every 15 min  500 \u00b5l of supernatant was removed  quenched with 65\u00b5l sheep serum Sigma S2263 on ice  and 500 \u00b5l of fresh Liberase was added to the primary tube. All collected supernatant was filtered using 50 \u00b5l filters Corning #431750  pelleted 5 min at 600 g and resuspended in 1 ml DMEM + 1% BSA UltraPure   Invitrogen AM2616.  Before sorting  1 \u00b5g/ml DAPI Sigma D9542 was added to the tube.", "fluorescence:osx:H2A mCherry+ osx:Venus hGeminin |cell type:osteoblasts of regenerating zebrafish scales", "GSM4433138", "GSM4433138: low Erk activity; rep1; Danio rerio; RNA Seq", "GSM4433138", null, "1", "RNA was extracted using TriReagent followed by RNAeasy microKit Qiagen #74004 Library preparation was performed by BGI Genomics Low Input Library Preparation \u2013 BT01", "GEO Accession:GSM4433138", "RNA-Seq", "TRANSCRIPTOMIC", "cDNA", "PAIRED", "BGISEQ", "BGISEQ-500", null, "SRP254053", null, null, "3G_minus_1.fq.gz 3G_minus_2.fq.gz", "fastq fastq", 4707783400.0, 47077834.0, "GSM4433138 r1", "0:100 1:100", "A:1275040914;C:1077730597;G:1059242617;T:1295769272;N:0", 100, 100, null, null, 1275040914, 1077730597, 1059242617, 1295769272, 0, "SRX8003658", "SRS6377638", "SRA1059429", "GEO", "Poss, Cell Biology, Duke University", 1, 0.8629, null, 0.13994, null, 0.7838, null, 0.50568, null, 100, null, "B", null, "usable mapping rate", "bgi", "bgi", "unknown", "cdna_unspecified", "unknown", "bulk", "unknown", "unknown", null, "United States", "2020-03-25", "Undetermined", "Undetermined", "Bone or Cartilage", "Skeletal Element"], [58583, "SRR11425297", "SRX8003657", "SRS6377637", "SRP254053", "PRJNA615232", "Control of osteoblast regeneration by a train of Erk activity waves", "GSE147551", "Transcriptome Analysis", "We report here a dataset regarding the transcriptome of Erk active osteoblasts in regenerating zebrafish scales. We recently discovered that the marker osx:Venus hGeminin anti correlates with Erk activity in those cells. Thus  by sorting using FACS cells based on both the expression of an osteoblast marker osx::H2A mCherry and the levels of hGeminin  we could sort osteoblasts into separate Erk+ and Erk  populations and perform RNAsequence in triplicates. We found that dusp and sprouty transcripts are elevated in osteoblasts with high Erk activity. Specifically  dusp2  dusp5 and spry4 transcripts are predominant in scales and consistently present at higher levels in the population enriched for Erk+ cells. Overall design: Comparison of the transcriptome of osteoblasts of regenerating zebrafish scales with high and low Erk activity. Cells are sorted on the basis of their osx:Venus hGeminin signal  which anti correlates with Erk activity.", null, "pubmed:33408418", null, "high Erk activity; rep3", "GSM4433143", null, "tissue:high Erk activity|fluorescence:osx:H2A mCherry+ osx:Venus hGeminin+|cell type:osteoblasts of regenerating zebrafish scales", "high Erk activity; rep3", "Reads were trimmed by Trim Galore 0.4.1  with  q 15   paired and then mapped with TopHat v 2.1.1  with parameters   b2 very sensitive   no coverage search and supplying the UCSC danRer10 refSeq annotation. Gene level read counts were obtained using the featureCounts v1.6.1 by the reads with MAPQ greater than 30 Genome build: danRer10 Supplementary files format and content: raw counts of sequencing reads for the features of interest for RNAseq", "high Erk activity", "Cells were analyzed and sorted using a SH800S Sony Cell Sorter using a 100 \u00b5m disposable chip. Initially  events were gated using Forward versus Side Scatter Areas 488 nm laser. Then  single cells were enriched by gating Forward Scatter Height versus Forward Scatter Area 488 nm excitation laser. Live cells were enriched by selecting a population with low DAPI emission 405 nm excitation laser. Finally  H2A mCherry+ Venus hGeminin  and H2A mCherry+ Venus hGeminin+ were sorted by gating Venus hGeminin 488 nm excitation laser versus mCherry 561 nm excitation laser. Cells were collected in PBS or TriReagent Sigma T9424", "RNA was extracted using TriReagent followed by RNAeasy microKit Qiagen #74004 Library preparation was performed by BGI Genomics Low Input Library Preparation \u2013 BT01", "Scale regeneration was induced by plucking about 50 scales  in three rows  from each side of osx:H2A mCherry osx:Venus hGeminin fish. At 4 days post plucking dpp  all regenerating scales were plucked  and collected in PBS on ice. About 3 5 fish were used per sample. Tissue was pelleted by centrifugation 5 min at 600g and resuspended in 600 \u00b5l of 13U/ml Liberase DH Research Grade   Sigma #5401054001 in HBSS Gibso #14025 092 and incubated at 37 C for 1 h. Every 15 min  500 \u00b5l of supernatant was removed  quenched with 65\u00b5l sheep serum Sigma S2263 on ice  and 500 \u00b5l of fresh Liberase was added to the primary tube. All collected supernatant was filtered using 50 \u00b5l filters Corning #431750  pelleted 5 min at 600 g and resuspended in 1 ml DMEM + 1% BSA UltraPure   Invitrogen AM2616.  Before sorting  1 \u00b5g/ml DAPI Sigma D9542 was added to the tube.", "fluorescence:osx:H2A mCherry+ osx:Venus hGeminin+|cell type:osteoblasts of regenerating zebrafish scales", "GSM4433143", "GSM4433143: high Erk activity; rep3; Danio rerio; RNA Seq", "GSM4433143", null, "1", "RNA was extracted using TriReagent followed by RNAeasy microKit Qiagen #74004 Library preparation was performed by BGI Genomics Low Input Library Preparation \u2013 BT01", "GEO Accession:GSM4433143", "RNA-Seq", "TRANSCRIPTOMIC", "cDNA", "PAIRED", "BGISEQ", "BGISEQ-500", null, "SRP254053", null, null, "6B_plus_1.fq.gz 6B_plus_2.fq.gz", "fastq fastq", 4703728000.0, 47037280.0, "GSM4433143 r1", "0:100 1:100", "A:1231849303;C:1116643672;G:1102072724;T:1253162301;N:0", 100, 100, null, null, 1231849303, 1116643672, 1102072724, 1253162301, 0, "SRX8003657", "SRS6377637", "SRA1059429", "GEO", "Poss, Cell Biology, Duke University", 1, 0.89702, null, 0.07131, null, 0.82978, null, 0.49499, null, 100, null, "B", null, "usable mapping rate", "bgi", "bgi", "unknown", "cdna_unspecified", "unknown", "bulk", "unknown", "unknown", null, "United States", "2020-03-25", "Undetermined", "Undetermined", "Bone or Cartilage", "Skeletal Element"], [58584, "SRR11425296", "SRX8003656", "SRS6377636", "SRP254053", "PRJNA615232", "Control of osteoblast regeneration by a train of Erk activity waves", "GSE147551", "Transcriptome Analysis", "We report here a dataset regarding the transcriptome of Erk active osteoblasts in regenerating zebrafish scales. We recently discovered that the marker osx:Venus hGeminin anti correlates with Erk activity in those cells. Thus  by sorting using FACS cells based on both the expression of an osteoblast marker osx::H2A mCherry and the levels of hGeminin  we could sort osteoblasts into separate Erk+ and Erk  populations and perform RNAsequence in triplicates. We found that dusp and sprouty transcripts are elevated in osteoblasts with high Erk activity. Specifically  dusp2  dusp5 and spry4 transcripts are predominant in scales and consistently present at higher levels in the population enriched for Erk+ cells. Overall design: Comparison of the transcriptome of osteoblasts of regenerating zebrafish scales with high and low Erk activity. Cells are sorted on the basis of their osx:Venus hGeminin signal  which anti correlates with Erk activity.", null, "pubmed:33408418", null, "high Erk activity; rep2", "GSM4433142", null, "tissue:high Erk activity|fluorescence:osx:H2A mCherry+ osx:Venus hGeminin+|cell type:osteoblasts of regenerating zebrafish scales", "high Erk activity; rep2", "Reads were trimmed by Trim Galore 0.4.1  with  q 15   paired and then mapped with TopHat v 2.1.1  with parameters   b2 very sensitive   no coverage search and supplying the UCSC danRer10 refSeq annotation. Gene level read counts were obtained using the featureCounts v1.6.1 by the reads with MAPQ greater than 30 Genome build: danRer10 Supplementary files format and content: raw counts of sequencing reads for the features of interest for RNAseq", "high Erk activity", "Cells were analyzed and sorted using a SH800S Sony Cell Sorter using a 100 \u00b5m disposable chip. Initially  events were gated using Forward versus Side Scatter Areas 488 nm laser. Then  single cells were enriched by gating Forward Scatter Height versus Forward Scatter Area 488 nm excitation laser. Live cells were enriched by selecting a population with low DAPI emission 405 nm excitation laser. Finally  H2A mCherry+ Venus hGeminin  and H2A mCherry+ Venus hGeminin+ were sorted by gating Venus hGeminin 488 nm excitation laser versus mCherry 561 nm excitation laser. Cells were collected in PBS or TriReagent Sigma T9424", "RNA was extracted using TriReagent followed by RNAeasy microKit Qiagen #74004 Library preparation was performed by BGI Genomics Low Input Library Preparation \u2013 BT01", "Scale regeneration was induced by plucking about 50 scales  in three rows  from each side of osx:H2A mCherry osx:Venus hGeminin fish. At 4 days post plucking dpp  all regenerating scales were plucked  and collected in PBS on ice. About 3 5 fish were used per sample. Tissue was pelleted by centrifugation 5 min at 600g and resuspended in 600 \u00b5l of 13U/ml Liberase DH Research Grade   Sigma #5401054001 in HBSS Gibso #14025 092 and incubated at 37 C for 1 h. Every 15 min  500 \u00b5l of supernatant was removed  quenched with 65\u00b5l sheep serum Sigma S2263 on ice  and 500 \u00b5l of fresh Liberase was added to the primary tube. All collected supernatant was filtered using 50 \u00b5l filters Corning #431750  pelleted 5 min at 600 g and resuspended in 1 ml DMEM + 1% BSA UltraPure   Invitrogen AM2616.  Before sorting  1 \u00b5g/ml DAPI Sigma D9542 was added to the tube.", "fluorescence:osx:H2A mCherry+ osx:Venus hGeminin+|cell type:osteoblasts of regenerating zebrafish scales", "GSM4433142", "GSM4433142: high Erk activity; rep2; Danio rerio; RNA Seq", "GSM4433142", null, "1", "RNA was extracted using TriReagent followed by RNAeasy microKit Qiagen #74004 Library preparation was performed by BGI Genomics Low Input Library Preparation \u2013 BT01", "GEO Accession:GSM4433142", "RNA-Seq", "TRANSCRIPTOMIC", "cDNA", "PAIRED", "BGISEQ", "BGISEQ-500", null, "SRP254053", null, null, "5G_plus_1.fq.gz 5G_plus_2.fq.gz", "fastq fastq", 4708623600.0, 47086236.0, "GSM4433142 r1", "0:100 1:100", "A:1200601624;C:1150903127;G:1136628277;T:1220490572;N:0", 100, 100, null, null, 1200601624, 1150903127, 1136628277, 1220490572, 0, "SRX8003656", "SRS6377636", "SRA1059429", "GEO", "Poss, Cell Biology, Duke University", 1, 0.90729, null, 0.03751, null, 0.84433, null, 0.50342, null, 100, null, "B", null, "usable mapping rate", "bgi", "bgi", "unknown", "cdna_unspecified", "unknown", "bulk", "unknown", "unknown", null, "United States", "2020-03-25", "Undetermined", "Undetermined", "Bone or Cartilage", "Skeletal Element"], [74701, "SRR24003726", "SRX19807142", "SRS17168877", "SRP429947", "PRJNA949785", "Sequencing of zebrafish bone tissues", "PRJNA949785", "Other", "Transcriptomics was used to investigate sensitive genes associated with exercise improved bone mass", null, null, null, null, "eight month zebrafish bone tissues", null, "breed:Not applicable|age:8 month|sex:male|tissue:b1|BioSampleModel:Model organism or animal", null, null, null, null, null, null, null, null, "RNA Seq of b1 tissue in zebrafish", "case2 4", "case2 4", "Qualified total RNA was purified by DNase I  and mRNA was enriched by adding OligodT  attached magnetic beads. Subsequently  fragment buffer was added to cleave the mRNA into small   fragments. Fragmented mRNA was used as a template for reverse transcription to generate the first  cDNA strand  and then the second cDNA strand was generated. End repair and adaptor ligation were  performed by adding A tailing Mix and RNA Index Adapters  and then PCR amplification was performed. Single strand circle DNA library was obtained by recovering and cycling the PCR products.  The final library was obtained by purifying the linear DNA molecules that were not cycled. The quality  of the final library was tested. The qualified library was replicated by rolling circle replication to form  DNA nanospheres DNBs. DNBs were added to the mesh holes of a nanochip using high density DNA nanochip technology. Subsequently  sequencing was performed on the BGIISEQ500 platform  BGI Shenzhen  Guangdong  China using combined probe anchored polymerisation.", null, null, "RNA-Seq", "TRANSCRIPTOMIC", "PCR", "PAIRED", "BGISEQ", "BGISEQ-500", null, "SRP429947", null, null, "case2_4_1.fq.gz case2_4_2.fq.gz", "fastq fastq", 6631325400.0, 22104418.0, "case2 4 1.fq.gz", "0:150 1:150", "A:1790451511;C:1523987494;G:1517049214;T:1799837181;N:0", 150, 150, null, null, 1790451511, 1523987494, 1517049214, 1799837181, 0, "SRX19807142", "SRS17168877", "SRA1612461", "Sun Yat-sen University|Department of Epidemiology, School of Public Healt", "Sun Yat-sen University", 2, 0.94202, 0.94054, 0.06448, 0.06393, 0.71415, 0.71445, 0.52801, 0.52947, 150, 150, "B", "B", "biological fallback assumption", "bgi", "bgi", "unknown", "random_priming", "unknown", "bulk", "unknown", "unknown", null, "China", "2023-03-29", "Adult", "Adult", "Bone or Cartilage", "Skeletal Element"], [74702, "SRR24003727", "SRX19807141", "SRS17168877", "SRP429947", "PRJNA949785", "Sequencing of zebrafish bone tissues", "PRJNA949785", "Other", "Transcriptomics was used to investigate sensitive genes associated with exercise improved bone mass", null, null, null, null, "eight month zebrafish bone tissues", null, "breed:Not applicable|age:8 month|sex:male|tissue:b1|BioSampleModel:Model organism or animal", null, null, null, null, null, null, null, null, "RNA Seq of b1 tissue in zebrafish", "case2 3", "case2 3", "Qualified total RNA was purified by DNase I  and mRNA was enriched by adding OligodT  attached magnetic beads. Subsequently  fragment buffer was added to cleave the mRNA into small   fragments. Fragmented mRNA was used as a template for reverse transcription to generate the first  cDNA strand  and then the second cDNA strand was generated. End repair and adaptor ligation were  performed by adding A tailing Mix and RNA Index Adapters  and then PCR amplification was performed. Single strand circle DNA library was obtained by recovering and cycling the PCR products.  The final library was obtained by purifying the linear DNA molecules that were not cycled. The quality  of the final library was tested. The qualified library was replicated by rolling circle replication to form  DNA nanospheres DNBs. DNBs were added to the mesh holes of a nanochip using high density DNA nanochip technology. Subsequently  sequencing was performed on the BGIISEQ500 platform  BGI Shenzhen  Guangdong  China using combined probe anchored polymerisation.", null, null, "RNA-Seq", "TRANSCRIPTOMIC", "PCR", "PAIRED", "BGISEQ", "BGISEQ-500", null, "SRP429947", null, null, "case2_3_1.fq.gz case2_3_2.fq.gz", "fastq fastq", 6706743300.0, 22355811.0, "case2 3 1.fq.gz", "0:150 1:150", "A:1845685627;C:1507725453;G:1499541624;T:1853790596;N:0", 150, 150, null, null, 1845685627, 1507725453, 1499541624, 1853790596, 0, "SRX19807141", "SRS17168877", "SRA1612461", "Sun Yat-sen University|Department of Epidemiology, School of Public Healt", "Sun Yat-sen University", 2, 0.94268, 0.93594, 0.08009, 0.07937, 0.70402, 0.70441, 0.4556, 0.48818, 150, 150, "B", "B", "biological fallback assumption", "bgi", "bgi", "unknown", "random_priming", "unknown", "bulk", "unknown", "unknown", null, "China", "2023-03-29", "Adult", "Adult", "Bone or Cartilage", "Skeletal Element"], [74703, "SRR24003728", "SRX19807140", "SRS17168877", "SRP429947", "PRJNA949785", "Sequencing of zebrafish bone tissues", "PRJNA949785", "Other", "Transcriptomics was used to investigate sensitive genes associated with exercise improved bone mass", null, null, null, null, "eight month zebrafish bone tissues", null, "breed:Not applicable|age:8 month|sex:male|tissue:b1|BioSampleModel:Model organism or animal", null, null, null, null, null, null, null, null, "RNA Seq of b1 tissue in zebrafish", "case2 2", "case2 2", "Qualified total RNA was purified by DNase I  and mRNA was enriched by adding OligodT  attached magnetic beads. Subsequently  fragment buffer was added to cleave the mRNA into small   fragments. Fragmented mRNA was used as a template for reverse transcription to generate the first  cDNA strand  and then the second cDNA strand was generated. End repair and adaptor ligation were  performed by adding A tailing Mix and RNA Index Adapters  and then PCR amplification was performed. Single strand circle DNA library was obtained by recovering and cycling the PCR products.  The final library was obtained by purifying the linear DNA molecules that were not cycled. The quality  of the final library was tested. The qualified library was replicated by rolling circle replication to form  DNA nanospheres DNBs. DNBs were added to the mesh holes of a nanochip using high density DNA nanochip technology. Subsequently  sequencing was performed on the BGIISEQ500 platform  BGI Shenzhen  Guangdong  China using combined probe anchored polymerisation.", null, null, "RNA-Seq", "TRANSCRIPTOMIC", "PCR", "PAIRED", "BGISEQ", "BGISEQ-500", null, "SRP429947", null, null, "case2_2_1.fq.gz case2_2_2.fq.gz", "fastq fastq", 6677092200.0, 22256974.0, "case2 2 1.fq.gz", "0:150 1:150", "A:1864795230;C:1474224567;G:1465199644;T:1872872759;N:0", 150, 150, null, null, 1864795230, 1474224567, 1465199644, 1872872759, 0, "SRX19807140", "SRS17168877", "SRA1612461", "Sun Yat-sen University|Department of Epidemiology, School of Public Healt", "Sun Yat-sen University", 2, 0.93359, 0.92743, 0.0959, 0.09583, 0.69089, 0.69234, 0.48419, 0.48121, 150, 150, "B", "B", "biological fallback assumption", "bgi", "bgi", "unknown", "random_priming", "unknown", "bulk", "unknown", "unknown", null, "China", "2023-03-29", "Adult", "Adult", "Bone or Cartilage", "Skeletal Element"], [74704, "SRR24003729", "SRX19807139", "SRS17168877", "SRP429947", "PRJNA949785", "Sequencing of zebrafish bone tissues", "PRJNA949785", "Other", "Transcriptomics was used to investigate sensitive genes associated with exercise improved bone mass", null, null, null, null, "eight month zebrafish bone tissues", null, "breed:Not applicable|age:8 month|sex:male|tissue:b1|BioSampleModel:Model organism or animal", null, null, null, null, null, null, null, null, "RNA Seq of b1 tissue in zebrafish", "case2 1", "case2 1", "Qualified total RNA was purified by DNase I  and mRNA was enriched by adding OligodT  attached magnetic beads. Subsequently  fragment buffer was added to cleave the mRNA into small   fragments. Fragmented mRNA was used as a template for reverse transcription to generate the first  cDNA strand  and then the second cDNA strand was generated. End repair and adaptor ligation were  performed by adding A tailing Mix and RNA Index Adapters  and then PCR amplification was performed. Single strand circle DNA library was obtained by recovering and cycling the PCR products.  The final library was obtained by purifying the linear DNA molecules that were not cycled. The quality  of the final library was tested. The qualified library was replicated by rolling circle replication to form  DNA nanospheres DNBs. DNBs were added to the mesh holes of a nanochip using high density DNA nanochip technology. Subsequently  sequencing was performed on the BGIISEQ500 platform  BGI Shenzhen  Guangdong  China using combined probe anchored polymerisation.", null, null, "RNA-Seq", "TRANSCRIPTOMIC", "PCR", "PAIRED", "BGISEQ", "BGISEQ-500", null, "SRP429947", null, null, "case2_1_1.fq.gz case2_1_2.fq.gz", "fastq fastq", 6644478600.0, 22148262.0, "case2 1 1.fq.gz", "0:150 1:150", "A:1863814645;C:1460246773;G:1453279946;T:1867137236;N:0", 150, 150, null, null, 1863814645, 1460246773, 1453279946, 1867137236, 0, "SRX19807139", "SRS17168877", "SRA1612461", "Sun Yat-sen University|Department of Epidemiology, School of Public Healt", "Sun Yat-sen University", 2, 0.93932, 0.9379, 0.09722, 0.09709, 0.71985, 0.71873, 0.49646, 0.5522, 150, 150, "B", "B", "biological fallback assumption", "bgi", "bgi", "unknown", "random_priming", "unknown", "bulk", "unknown", "unknown", null, "China", "2023-03-29", "Adult", "Adult", "Bone or Cartilage", "Skeletal Element"], [74705, "SRR24003730", "SRX19807138", "SRS17168877", "SRP429947", "PRJNA949785", "Sequencing of zebrafish bone tissues", "PRJNA949785", "Other", "Transcriptomics was used to investigate sensitive genes associated with exercise improved bone mass", null, null, null, null, "eight month zebrafish bone tissues", null, "breed:Not applicable|age:8 month|sex:male|tissue:b1|BioSampleModel:Model organism or animal", null, null, null, null, null, null, null, null, "RNA Seq of b1 tissue in zebrafish", "control2 6", "control2 6", "Qualified total RNA was purified by DNase I  and mRNA was enriched by adding OligodT  attached magnetic beads. Subsequently  fragment buffer was added to cleave the mRNA into small   fragments. Fragmented mRNA was used as a template for reverse transcription to generate the first  cDNA strand  and then the second cDNA strand was generated. End repair and adaptor ligation were  performed by adding A tailing Mix and RNA Index Adapters  and then PCR amplification was performed. Single strand circle DNA library was obtained by recovering and cycling the PCR products.  The final library was obtained by purifying the linear DNA molecules that were not cycled. The quality  of the final library was tested. The qualified library was replicated by rolling circle replication to form  DNA nanospheres DNBs. DNBs were added to the mesh holes of a nanochip using high density DNA nanochip technology. Subsequently  sequencing was performed on the BGIISEQ500 platform  BGI Shenzhen  Guangdong  China using combined probe anchored polymerisation.", null, null, "RNA-Seq", "TRANSCRIPTOMIC", "PCR", "PAIRED", "BGISEQ", "BGISEQ-500", null, "SRP429947", null, null, "control2_6_1.fq.gz control2_6_2.fq.gz", "fastq fastq", 6817849200.0, 22726164.0, "control2 6 1.fq.gz", "0:150 1:150", "A:1916198776;C:1480570561;G:1501234091;T:1919845772;N:0", 150, 150, null, null, 1916198776, 1480570561, 1501234091, 1919845772, 0, "SRX19807138", "SRS17168877", "SRA1612461", "Sun Yat-sen University|Department of Epidemiology, School of Public Healt", "Sun Yat-sen University", 2, 0.94697, 0.9369, 0.06934, 0.06812, 0.76824, 0.77114, 0.49005, 0.54882, 150, 150, "B", "B", "biological fallback assumption", "bgi", "bgi", "unknown", "random_priming", "unknown", "bulk", "unknown", "unknown", null, "China", "2023-03-29", "Adult", "Adult", "Bone or Cartilage", "Skeletal Element"], [74706, "SRR24003731", "SRX19807137", "SRS17168877", "SRP429947", "PRJNA949785", "Sequencing of zebrafish bone tissues", "PRJNA949785", "Other", "Transcriptomics was used to investigate sensitive genes associated with exercise improved bone mass", null, null, null, null, "eight month zebrafish bone tissues", null, "breed:Not applicable|age:8 month|sex:male|tissue:b1|BioSampleModel:Model organism or animal", null, null, null, null, null, null, null, null, "RNA Seq of b1 tissue in zebrafish", "control2 5", "control2 5", "Qualified total RNA was purified by DNase I  and mRNA was enriched by adding OligodT  attached magnetic beads. Subsequently  fragment buffer was added to cleave the mRNA into small   fragments. Fragmented mRNA was used as a template for reverse transcription to generate the first  cDNA strand  and then the second cDNA strand was generated. End repair and adaptor ligation were  performed by adding A tailing Mix and RNA Index Adapters  and then PCR amplification was performed. Single strand circle DNA library was obtained by recovering and cycling the PCR products.  The final library was obtained by purifying the linear DNA molecules that were not cycled. The quality  of the final library was tested. The qualified library was replicated by rolling circle replication to form  DNA nanospheres DNBs. DNBs were added to the mesh holes of a nanochip using high density DNA nanochip technology. Subsequently  sequencing was performed on the BGIISEQ500 platform  BGI Shenzhen  Guangdong  China using combined probe anchored polymerisation.", null, null, "RNA-Seq", "TRANSCRIPTOMIC", "PCR", "PAIRED", "BGISEQ", "BGISEQ-500", null, "SRP429947", null, null, "control2_5_1.fq.gz control2_5_2.fq.gz", "fastq fastq", 6730171500.0, 22433905.0, "control2 5 1.fq.gz", "0:150 1:150", "A:1881763818;C:1469481635;G:1493477302;T:1885448745;N:0", 150, 150, null, null, 1881763818, 1469481635, 1493477302, 1885448745, 0, "SRX19807137", "SRS17168877", "SRA1612461", "Sun Yat-sen University|Department of Epidemiology, School of Public Healt", "Sun Yat-sen University", 2, 0.9399, 0.92905, 0.0832, 0.08122, 0.70993, 0.71228, 0.54991, 0.58952, 150, 150, "B", "B", "biological fallback assumption", "bgi", "bgi", "unknown", "random_priming", "unknown", "bulk", "unknown", "unknown", null, "China", "2023-03-29", "Adult", "Adult", "Bone or Cartilage", "Skeletal Element"], [74707, "SRR24003732", "SRX19807136", "SRS17168877", "SRP429947", "PRJNA949785", "Sequencing of zebrafish bone tissues", "PRJNA949785", "Other", "Transcriptomics was used to investigate sensitive genes associated with exercise improved bone mass", null, null, null, null, "eight month zebrafish bone tissues", null, "breed:Not applicable|age:8 month|sex:male|tissue:b1|BioSampleModel:Model organism or animal", null, null, null, null, null, null, null, null, "RNA Seq of b1 tissue in zebrafish", "control2 4", "control2 4", "Qualified total RNA was purified by DNase I  and mRNA was enriched by adding OligodT  attached magnetic beads. Subsequently  fragment buffer was added to cleave the mRNA into small   fragments. Fragmented mRNA was used as a template for reverse transcription to generate the first  cDNA strand  and then the second cDNA strand was generated. End repair and adaptor ligation were  performed by adding A tailing Mix and RNA Index Adapters  and then PCR amplification was performed. Single strand circle DNA library was obtained by recovering and cycling the PCR products.  The final library was obtained by purifying the linear DNA molecules that were not cycled. The quality  of the final library was tested. The qualified library was replicated by rolling circle replication to form  DNA nanospheres DNBs. DNBs were added to the mesh holes of a nanochip using high density DNA nanochip technology. Subsequently  sequencing was performed on the BGIISEQ500 platform  BGI Shenzhen  Guangdong  China using combined probe anchored polymerisation.", null, null, "RNA-Seq", "TRANSCRIPTOMIC", "PCR", "PAIRED", "BGISEQ", "BGISEQ-500", null, "SRP429947", null, null, "control2_4_1.fq.gz control2_4_2.fq.gz", "fastq fastq", 6660686100.0, 22202287.0, "control2 4 1.fq.gz", "0:150 1:150", "A:1846205332;C:1486328129;G:1477889862;T:1850262777;N:0", 150, 150, null, null, 1846205332, 1486328129, 1477889862, 1850262777, 0, "SRX19807136", "SRS17168877", "SRA1612461", "Sun Yat-sen University|Department of Epidemiology, School of Public Healt", "Sun Yat-sen University", 2, 0.94251, 0.94001, 0.08206, 0.082, 0.69483, 0.69524, 0.49193, 0.49602, 150, 150, "B", "B", "biological fallback assumption", "bgi", "bgi", "unknown", "random_priming", "unknown", "bulk", "unknown", "unknown", null, "China", "2023-03-29", "Adult", "Adult", "Bone or Cartilage", "Skeletal Element"], [74708, "SRR24003733", "SRX19807135", "SRS17168877", "SRP429947", "PRJNA949785", "Sequencing of zebrafish bone tissues", "PRJNA949785", "Other", "Transcriptomics was used to investigate sensitive genes associated with exercise improved bone mass", null, null, null, null, "eight month zebrafish bone tissues", null, "breed:Not applicable|age:8 month|sex:male|tissue:b1|BioSampleModel:Model organism or animal", null, null, null, null, null, null, null, null, "RNA Seq of b1 tissue in zebrafish", "control2 3", "control2 3", "Qualified total RNA was purified by DNase I  and mRNA was enriched by adding OligodT  attached magnetic beads. Subsequently  fragment buffer was added to cleave the mRNA into small   fragments. Fragmented mRNA was used as a template for reverse transcription to generate the first  cDNA strand  and then the second cDNA strand was generated. End repair and adaptor ligation were  performed by adding A tailing Mix and RNA Index Adapters  and then PCR amplification was performed. Single strand circle DNA library was obtained by recovering and cycling the PCR products.  The final library was obtained by purifying the linear DNA molecules that were not cycled. The quality  of the final library was tested. The qualified library was replicated by rolling circle replication to form  DNA nanospheres DNBs. DNBs were added to the mesh holes of a nanochip using high density DNA nanochip technology. Subsequently  sequencing was performed on the BGIISEQ500 platform  BGI Shenzhen  Guangdong  China using combined probe anchored polymerisation.", null, null, "RNA-Seq", "TRANSCRIPTOMIC", "PCR", "PAIRED", "BGISEQ", "BGISEQ-500", null, "SRP429947", null, null, "control2_3_1.fq.gz control2_3_2.fq.gz", "fastq fastq", 6683569500.0, 22278565.0, "control2 3 1.fq.gz", "0:150 1:150", "A:1846755716;C:1494194697;G:1482717957;T:1859901130;N:0", 150, 150, null, null, 1846755716, 1494194697, 1482717957, 1859901130, 0, "SRX19807135", "SRS17168877", "SRA1612461", "Sun Yat-sen University|Department of Epidemiology, School of Public Healt", "Sun Yat-sen University", 2, 0.93255, 0.93106, 0.10717, 0.10731, 0.67665, 0.67791, 0.54876, 0.52297, 150, 150, "B", "B", "biological fallback assumption", "bgi", "bgi", "unknown", "random_priming", "unknown", "bulk", "unknown", "unknown", null, "China", "2023-03-29", "Adult", "Adult", "Bone or Cartilage", "Skeletal Element"], [74709, "SRR24003734", "SRX19807134", "SRS17168877", "SRP429947", "PRJNA949785", "Sequencing of zebrafish bone tissues", "PRJNA949785", "Other", "Transcriptomics was used to investigate sensitive genes associated with exercise improved bone mass", null, null, null, null, "eight month zebrafish bone tissues", null, "breed:Not applicable|age:8 month|sex:male|tissue:b1|BioSampleModel:Model organism or animal", null, null, null, null, null, null, null, null, "RNA Seq of b1 tissue in zebrafish", "case2 7", "case2 7", "Qualified total RNA was purified by DNase I  and mRNA was enriched by adding OligodT  attached magnetic beads. 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Subsequently  fragment buffer was added to cleave the mRNA into small   fragments. Fragmented mRNA was used as a template for reverse transcription to generate the first  cDNA strand  and then the second cDNA strand was generated. End repair and adaptor ligation were  performed by adding A tailing Mix and RNA Index Adapters  and then PCR amplification was performed. Single strand circle DNA library was obtained by recovering and cycling the PCR products.  The final library was obtained by purifying the linear DNA molecules that were not cycled. The quality  of the final library was tested. The qualified library was replicated by rolling circle replication to form  DNA nanospheres DNBs. DNBs were added to the mesh holes of a nanochip using high density DNA nanochip technology. 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