{"database": "metadata", "table": "run_metadata", "is_view": false, "human_description_en": "where experiment.library_selection = \"other\" and experiment.platform = \"DNBSEQ\"", "rows": [[72561, "SRR22722190", "SRX18683720", "SRS16126888", "SRP412911", "PRJNA911847", "Transgenic IDH2 R172K and IDH2 R140Q zebrafish models recapitulated features of human acute myeloid leukaemia", "PRJNA911847", "Other", "Isocitrate dehydrogenase 2 IDH2 mutations occur in more than 15% of cytogenetically normal acute myeloid leukemia CN AML but comparative studies of their roles in leukemogenesis have been scarce. We generated zebrafish models of IDH2R172K and IDH2R140Q AML and reported their pathologic  functional and transcriptomic features and therapeutic responses to target therapies. Transgenic embryos co expressing FLT3ITD and IDH2 mutations showed accentuation of myelopoiesis. As these embryos were raised to maturity  full blown leukemia ensued with multi lineage dysplasia  increase in myeloblasts and marrow cellularity and splenomegaly. The leukemia cells were transplantable into primary and secondary recipients and resulted in more aggressive disease. TgRunx1:FLT3ITDIDH2R172K but not TgRunx1:FLT3ITDIDH2R140Q zebrafish showed increase in T cell development at embryonic and adult stage. Single cell transcriptomic analysis revealed increased myeloid skewing  differentiation blockade and enrichment of leukemia associated gene signatures in both zebrafish models. TgRunx1:FLT3ITDIDH2R172K but not TgRunx1:FLT3ITDIDH2R140Q zebrafish showed increase in interferon signals at adult stage. Leukemic phenotypes in both zebrafish could be ameliorated by quizartinib and enasidenib. In conclusion  the zebrafish models of IDH2 mutated AML recapitulated the morphologic  clinical  functional and transcriptomic characteristics of human diseases  and provided the prototype for developing zebrafish leukemia models of other genotypes that would become a platform for high throughput drug screening", null, null, null, null, "Transgenic FLT3 ITD IDH2 R140Q", null, "strain:TU|isolate:not applicable|breed:not applicable|cultivar:not applicable|ecotype:not applicable|age:8 month|dev stage:8 month|sex:pooled male and female|tissue:kidney marrow|genotype:Transgenic Runx1:FLT3ITDIDH2R140Q|BioSampleModel:Model organism or animal", null, null, null, null, null, null, null, null, "Single cell RNA seq of Danio rerio: Transgenic FLT3 ITD IDH2 R140Q", "ITD140Q", "ITD140Q", "Single cell RNA seq library.Single viable KM cells were collected from the transgenic double mutant n=3; pooled and WT n=3; pooled fish at 7 mpf into 0.9X PBS with 5% FBS. Their viability was examined by 0.4% Trypan blue staining under microscopy. The single cell library was constructed using the ChromiumTM Controller and ChromiumTM Next GEM Single Cell 3 Kit v3.1 10x Genomics  Pleasanton  CA. Complementary DNA cDNA was synthesized from the fragmentated RNAs using N6 random primers  followed by end repair and ligation to BGISEQ sequencer compatible adapters. Quality control of the final library was performed by checking the distribution of the fragments size using the Agilent 2100 bioanalyzer and quantification was performed by real time quantitative PCR using TaqMan probes. The final products were sequenced using the DNBSEQTM platform BGI  HK  China.", null, null, "OTHER", "TRANSCRIPTOMIC", "other", "PAIRED", "DNBSEQ", "DNBSEQ-G400", null, "SRP412911", null, "loader:fastq load.py", "ITD172KA_S1_L001_I1_001.fastq.gz ITD172KA_S1_L001_R1_001.fastq.gz ITD172KA_S1_L001_R2_001.fastq.gz", "fastq fastq fastq", 52149830422.0, 410628586.0, "ITD172KA S1 L001 I1 001.fastq.gz", "0:8 1:28 2:91", "A:10282953217;C:8459559201;G:8851285287;T:9772343870;N:1059751", 8, 28, 91, null, 10282953217, 8459559201, 8851285287, 9772343870, 1059751, "SRX18683720", "SRS16126888", "SRA1558824", "The University of Hong Kong|Department of Medicine", "The University of Hong Kong", 1, 0.88465, null, 0.13112, null, 0.81789, null, 0.55842, null, 91, null, "B", null, "usable mapping rate", "bgi", "bgi", "unknown", "random_priming", "unknown", "sc", "single_cell_droplet", "10x", null, "China", "2022-12-14", "Adult", "Adult", "Kidney", "Renal System"], [72562, "SRR22722191", "SRX18683719", "SRS16126887", "SRP412911", "PRJNA911847", "Transgenic IDH2 R172K and IDH2 R140Q zebrafish models recapitulated features of human acute myeloid leukaemia", "PRJNA911847", "Other", "Isocitrate dehydrogenase 2 IDH2 mutations occur in more than 15% of cytogenetically normal acute myeloid leukemia CN AML but comparative studies of their roles in leukemogenesis have been scarce. We generated zebrafish models of IDH2R172K and IDH2R140Q AML and reported their pathologic  functional and transcriptomic features and therapeutic responses to target therapies. Transgenic embryos co expressing FLT3ITD and IDH2 mutations showed accentuation of myelopoiesis. As these embryos were raised to maturity  full blown leukemia ensued with multi lineage dysplasia  increase in myeloblasts and marrow cellularity and splenomegaly. The leukemia cells were transplantable into primary and secondary recipients and resulted in more aggressive disease. TgRunx1:FLT3ITDIDH2R172K but not TgRunx1:FLT3ITDIDH2R140Q zebrafish showed increase in T cell development at embryonic and adult stage. Single cell transcriptomic analysis revealed increased myeloid skewing  differentiation blockade and enrichment of leukemia associated gene signatures in both zebrafish models. TgRunx1:FLT3ITDIDH2R172K but not TgRunx1:FLT3ITDIDH2R140Q zebrafish showed increase in interferon signals at adult stage. Leukemic phenotypes in both zebrafish could be ameliorated by quizartinib and enasidenib. In conclusion  the zebrafish models of IDH2 mutated AML recapitulated the morphologic  clinical  functional and transcriptomic characteristics of human diseases  and provided the prototype for developing zebrafish leukemia models of other genotypes that would become a platform for high throughput drug screening", null, null, null, null, "Transgenic FLT3 ITD IDH2 R172K", null, "strain:TU|isolate:not applicable|breed:not applicable|cultivar:not applicable|ecotype:not applicable|age:8 month|dev stage:8 month|sex:pooled male and female|tissue:kidney marrow|genotype:Transgenic Runx1:FLT3ITDIDH2R172K|BioSampleModel:Model organism or animal", null, null, null, null, null, null, null, null, "Single cell RNA seq of Danio rerio: Transgenic FLT3 ITD IDH2 R172K", "ITD172K", "ITD172K", "Single cell RNA seq library.Single viable KM cells were collected from the transgenic double mutant n=3; pooled and WT n=3; pooled fish at 7 mpf into 0.9X PBS with 5% FBS. Their viability was examined by 0.4% Trypan blue staining under microscopy. The single cell library was constructed using the ChromiumTM Controller and ChromiumTM Next GEM Single Cell 3 Kit v3.1 10x Genomics  Pleasanton  CA. Complementary DNA cDNA was synthesized from the fragmentated RNAs using N6 random primers  followed by end repair and ligation to BGISEQ sequencer compatible adapters. Quality control of the final library was performed by checking the distribution of the fragments size using the Agilent 2100 bioanalyzer and quantification was performed by real time quantitative PCR using TaqMan probes. The final products were sequenced using the DNBSEQTM platform BGI  HK  China.", null, null, "OTHER", "TRANSCRIPTOMIC", "other", "PAIRED", "DNBSEQ", "DNBSEQ-G400", null, "SRP412911", null, "loader:fastq load.py", "ITD140QA_S1_L004_I1_001.fastq.gz ITD140QA_S1_L004_R1_001.fastq.gz ITD140QA_S1_L004_R2_001.fastq.gz", "fastq fastq fastq", 28595025233.0, 225157679.0, "ITD140QA S1 L004 I1 001.fastq.gz", "0:8 1:28 2:91", "A:5628987577;C:4565848641;G:4959209904;T:5302394659;N:32908008", 8, 28, 91, null, 5628987577, 4565848641, 4959209904, 5302394659, 32908008, "SRX18683719", "SRS16126887", "SRA1558824", "The University of Hong Kong|Department of Medicine", "The University of Hong Kong", 1, 0.81404, null, 0.11315, null, 0.83327, null, 0.56222, null, 91, null, "B", null, "usable mapping rate", "bgi", "bgi", "unknown", "random_priming", "unknown", "sc", "single_cell_droplet", "10x", null, "China", "2022-12-13", "Adult", "Adult", "Kidney", "Renal System"], [72563, "SRR22722192", "SRX18683718", "SRS16126886", "SRP412911", "PRJNA911847", "Transgenic IDH2 R172K and IDH2 R140Q zebrafish models recapitulated features of human acute myeloid leukaemia", "PRJNA911847", "Other", "Isocitrate dehydrogenase 2 IDH2 mutations occur in more than 15% of cytogenetically normal acute myeloid leukemia CN AML but comparative studies of their roles in leukemogenesis have been scarce. We generated zebrafish models of IDH2R172K and IDH2R140Q AML and reported their pathologic  functional and transcriptomic features and therapeutic responses to target therapies. Transgenic embryos co expressing FLT3ITD and IDH2 mutations showed accentuation of myelopoiesis. As these embryos were raised to maturity  full blown leukemia ensued with multi lineage dysplasia  increase in myeloblasts and marrow cellularity and splenomegaly. The leukemia cells were transplantable into primary and secondary recipients and resulted in more aggressive disease. TgRunx1:FLT3ITDIDH2R172K but not TgRunx1:FLT3ITDIDH2R140Q zebrafish showed increase in T cell development at embryonic and adult stage. Single cell transcriptomic analysis revealed increased myeloid skewing  differentiation blockade and enrichment of leukemia associated gene signatures in both zebrafish models. TgRunx1:FLT3ITDIDH2R172K but not TgRunx1:FLT3ITDIDH2R140Q zebrafish showed increase in interferon signals at adult stage. Leukemic phenotypes in both zebrafish could be ameliorated by quizartinib and enasidenib. In conclusion  the zebrafish models of IDH2 mutated AML recapitulated the morphologic  clinical  functional and transcriptomic characteristics of human diseases  and provided the prototype for developing zebrafish leukemia models of other genotypes that would become a platform for high throughput drug screening", null, null, null, null, "Wild type", null, "strain:TU|isolate:not applicable|breed:not applicable|cultivar:not applicable|ecotype:not applicable|age:8 month|dev stage:8 month|sex:pooled male and female|tissue:kidney marrow|genotype:Wild type|BioSampleModel:Model organism or animal", null, null, null, null, null, null, null, null, "Single cell RNA seq of Danio rerio: Wild type", "Control", "Control", "Single cell RNA seq library.Single viable KM cells were collected from the transgenic double mutant n=3; pooled and WT n=3; pooled fish at 7 mpf into 0.9X PBS with 5% FBS. Their viability was examined by 0.4% Trypan blue staining under microscopy. The single cell library was constructed using the ChromiumTM Controller and ChromiumTM Next GEM Single Cell 3 Kit v3.1 10x Genomics  Pleasanton  CA. Complementary DNA cDNA was synthesized from the fragmentated RNAs using N6 random primers  followed by end repair and ligation to BGISEQ sequencer compatible adapters. Quality control of the final library was performed by checking the distribution of the fragments size using the Agilent 2100 bioanalyzer and quantification was performed by real time quantitative PCR using TaqMan probes. The final products were sequenced using the DNBSEQTM platform BGI  HK  China.", null, null, "OTHER", "TRANSCRIPTOMIC", "other", "PAIRED", "DNBSEQ", "DNBSEQ-G400", null, "SRP412911", null, "loader:fastq load.py", "ControlA_S1_L003_R2_001.fastq.gz ControlA_S1_L003_R1_001.fastq.gz ControlA_S1_L003_I1_001.fastq.gz", "fastq fastq fastq", 37892727491.0, 298367933.0, "ControlA S1 L003 I1 001.fastq.gz", "0:8 1:28 2:91", "A:7386602298;C:6174680460;G:6579652828;T:6955791213;N:54755104", 8, 28, 91, null, 7386602298, 6174680460, 6579652828, 6955791213, 54755104, "SRX18683718", "SRS16126886", "SRA1558824", "The University of Hong Kong|Department of Medicine", "The University of Hong Kong", 1, 0.81686, null, 0.11049, null, 0.84139, null, 0.46084, null, 91, null, "B", null, "usable mapping rate", "bgi", "bgi", "unknown", "random_priming", "unknown", "sc", "single_cell_droplet", "10x", null, "China", "2022-12-14", "Adult", "Adult", "Kidney", "Renal System"]], "truncated": false, 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