Plasmid Preparation:Article Title: Retinal determination network reactivation drives chemoresistance and blocks myeloid differentiation in acute myeloid leukemia.
Article Snippet: .. REAGENT or RESOURCE SOURCE IDENTIFIER MSCV-HA:mEYA1L505R-IRES-Tomato This study N/A pCMVR8.74 Addgene Cat# #22036; RRID:Addgene_22036 CRISPRi/a V2 library parental plasmid Addgene Addgene #84832) LRG2.1 Addgene Addgene#108098 LT3GEPIR Addgene Addgene #111177 LentiV_Cas9_puro Addgene Addgene#108100 Software and algorithms Synergy finder Ianevski et al.81 Ianevski et al., 202252 https://synergyfinder.fimm.fi/synergy/ 20241024153248019426/ FACS Diva v8.0.1 BD BioSciences N/A FlowJo v10 BD BioSciences N/A Prism 7 GraphPad N/A MetaMorph Microscopy Automation & Image Analysis Molecular Devices N/A Leica Application Suite Advanced Fluorescence Leica N/A CellProfiler Dao et al.82 N/A CellProfiler Analyst Lamprecht et al.83 N/A Integrated Genome Browser N/A https://bioviz.org/ Gene Set Enrichment Analysis (GSEA) Subramanian et al.84 https://www.gsea-msigdb.org/gsea/index.jsp EnrichR Kuleshov et al.85 https://amp.pharm.mssm.edu/Enrichr/ ChIP peak Anno package v3.20.1 Zhu et al.86 N/A PASHA Fenouil et al.87 N/A Bowtie2 Langmead and Salzberg.88 http://bowtie-bio.sourceforge.net/ bowtie2/index.shtml Salmon v0.13.0 Patro et al.89 N/A DESeq2package v1.26.0 Love et al.90 N/A Scater v1.14.6 McCarthy et al.91 N/A ImageJ Schneider et al.92 https://imagej.nih.gov/ij/ Workflow: Nextflow: 23.04.2, nf-core/chipseq: 2.0.0 N/A https://zenodo.org/records/13899404 TxDb.Hsapiens.UCSC.hg19.knownGene Bioconductor https://bioconductor.org/packages/devel/ data/annotation/html/TxDb.Hsapiens. ..
FACS:Article Title: Retinal determination network reactivation drives chemoresistance and blocks myeloid differentiation in acute myeloid leukemia.
Article Snippet: .. REAGENT or RESOURCE SOURCE IDENTIFIER MSCV-HA:mEYA1L505R-IRES-Tomato This study N/A pCMVR8.74 Addgene Cat# #22036; RRID:Addgene_22036 CRISPRi/a V2 library parental plasmid Addgene Addgene #84832) LRG2.1 Addgene Addgene#108098 LT3GEPIR Addgene Addgene #111177 LentiV_Cas9_puro Addgene Addgene#108100 Software and algorithms Synergy finder Ianevski et al.81 Ianevski et al., 202252 https://synergyfinder.fimm.fi/synergy/ 20241024153248019426/ FACS Diva v8.0.1 BD BioSciences N/A FlowJo v10 BD BioSciences N/A Prism 7 GraphPad N/A MetaMorph Microscopy Automation & Image Analysis Molecular Devices N/A Leica Application Suite Advanced Fluorescence Leica N/A CellProfiler Dao et al.82 N/A CellProfiler Analyst Lamprecht et al.83 N/A Integrated Genome Browser N/A https://bioviz.org/ Gene Set Enrichment Analysis (GSEA) Subramanian et al.84 https://www.gsea-msigdb.org/gsea/index.jsp EnrichR Kuleshov et al.85 https://amp.pharm.mssm.edu/Enrichr/ ChIP peak Anno package v3.20.1 Zhu et al.86 N/A PASHA Fenouil et al.87 N/A Bowtie2 Langmead and Salzberg.88 http://bowtie-bio.sourceforge.net/ bowtie2/index.shtml Salmon v0.13.0 Patro et al.89 N/A DESeq2package v1.26.0 Love et al.90 N/A Scater v1.14.6 McCarthy et al.91 N/A ImageJ Schneider et al.92 https://imagej.nih.gov/ij/ Workflow: Nextflow: 23.04.2, nf-core/chipseq: 2.0.0 N/A https://zenodo.org/records/13899404 TxDb.Hsapiens.UCSC.hg19.knownGene Bioconductor https://bioconductor.org/packages/devel/ data/annotation/html/TxDb.Hsapiens. ..
Microscopy:Article Title: Retinal determination network reactivation drives chemoresistance and blocks myeloid differentiation in acute myeloid leukemia.
Article Snippet: .. REAGENT or RESOURCE SOURCE IDENTIFIER MSCV-HA:mEYA1L505R-IRES-Tomato This study N/A pCMVR8.74 Addgene Cat# #22036; RRID:Addgene_22036 CRISPRi/a V2 library parental plasmid Addgene Addgene #84832) LRG2.1 Addgene Addgene#108098 LT3GEPIR Addgene Addgene #111177 LentiV_Cas9_puro Addgene Addgene#108100 Software and algorithms Synergy finder Ianevski et al.81 Ianevski et al., 202252 https://synergyfinder.fimm.fi/synergy/ 20241024153248019426/ FACS Diva v8.0.1 BD BioSciences N/A FlowJo v10 BD BioSciences N/A Prism 7 GraphPad N/A MetaMorph Microscopy Automation & Image Analysis Molecular Devices N/A Leica Application Suite Advanced Fluorescence Leica N/A CellProfiler Dao et al.82 N/A CellProfiler Analyst Lamprecht et al.83 N/A Integrated Genome Browser N/A https://bioviz.org/ Gene Set Enrichment Analysis (GSEA) Subramanian et al.84 https://www.gsea-msigdb.org/gsea/index.jsp EnrichR Kuleshov et al.85 https://amp.pharm.mssm.edu/Enrichr/ ChIP peak Anno package v3.20.1 Zhu et al.86 N/A PASHA Fenouil et al.87 N/A Bowtie2 Langmead and Salzberg.88 http://bowtie-bio.sourceforge.net/ bowtie2/index.shtml Salmon v0.13.0 Patro et al.89 N/A DESeq2package v1.26.0 Love et al.90 N/A Scater v1.14.6 McCarthy et al.91 N/A ImageJ Schneider et al.92 https://imagej.nih.gov/ij/ Workflow: Nextflow: 23.04.2, nf-core/chipseq: 2.0.0 N/A https://zenodo.org/records/13899404 TxDb.Hsapiens.UCSC.hg19.knownGene Bioconductor https://bioconductor.org/packages/devel/ data/annotation/html/TxDb.Hsapiens. ..
Fluorescence:Article Title: Retinal determination network reactivation drives chemoresistance and blocks myeloid differentiation in acute myeloid leukemia.
Article Snippet: .. REAGENT or RESOURCE SOURCE IDENTIFIER MSCV-HA:mEYA1L505R-IRES-Tomato This study N/A pCMVR8.74 Addgene Cat# #22036; RRID:Addgene_22036 CRISPRi/a V2 library parental plasmid Addgene Addgene #84832) LRG2.1 Addgene Addgene#108098 LT3GEPIR Addgene Addgene #111177 LentiV_Cas9_puro Addgene Addgene#108100 Software and algorithms Synergy finder Ianevski et al.81 Ianevski et al., 202252 https://synergyfinder.fimm.fi/synergy/ 20241024153248019426/ FACS Diva v8.0.1 BD BioSciences N/A FlowJo v10 BD BioSciences N/A Prism 7 GraphPad N/A MetaMorph Microscopy Automation & Image Analysis Molecular Devices N/A Leica Application Suite Advanced Fluorescence Leica N/A CellProfiler Dao et al.82 N/A CellProfiler Analyst Lamprecht et al.83 N/A Integrated Genome Browser N/A https://bioviz.org/ Gene Set Enrichment Analysis (GSEA) Subramanian et al.84 https://www.gsea-msigdb.org/gsea/index.jsp EnrichR Kuleshov et al.85 https://amp.pharm.mssm.edu/Enrichr/ ChIP peak Anno package v3.20.1 Zhu et al.86 N/A PASHA Fenouil et al.87 N/A Bowtie2 Langmead and Salzberg.88 http://bowtie-bio.sourceforge.net/ bowtie2/index.shtml Salmon v0.13.0 Patro et al.89 N/A DESeq2package v1.26.0 Love et al.90 N/A Scater v1.14.6 McCarthy et al.91 N/A ImageJ Schneider et al.92 https://imagej.nih.gov/ij/ Workflow: Nextflow: 23.04.2, nf-core/chipseq: 2.0.0 N/A https://zenodo.org/records/13899404 TxDb.Hsapiens.UCSC.hg19.knownGene Bioconductor https://bioconductor.org/packages/devel/ data/annotation/html/TxDb.Hsapiens. ..
Chromatin Immunoprecipitation:Article Title: Retinal determination network reactivation drives chemoresistance and blocks myeloid differentiation in acute myeloid leukemia.
Article Snippet: .. REAGENT or RESOURCE SOURCE IDENTIFIER MSCV-HA:mEYA1L505R-IRES-Tomato This study N/A pCMVR8.74 Addgene Cat# #22036; RRID:Addgene_22036 CRISPRi/a V2 library parental plasmid Addgene Addgene #84832) LRG2.1 Addgene Addgene#108098 LT3GEPIR Addgene Addgene #111177 LentiV_Cas9_puro Addgene Addgene#108100 Software and algorithms Synergy finder Ianevski et al.81 Ianevski et al., 202252 https://synergyfinder.fimm.fi/synergy/ 20241024153248019426/ FACS Diva v8.0.1 BD BioSciences N/A FlowJo v10 BD BioSciences N/A Prism 7 GraphPad N/A MetaMorph Microscopy Automation & Image Analysis Molecular Devices N/A Leica Application Suite Advanced Fluorescence Leica N/A CellProfiler Dao et al.82 N/A CellProfiler Analyst Lamprecht et al.83 N/A Integrated Genome Browser N/A https://bioviz.org/ Gene Set Enrichment Analysis (GSEA) Subramanian et al.84 https://www.gsea-msigdb.org/gsea/index.jsp EnrichR Kuleshov et al.85 https://amp.pharm.mssm.edu/Enrichr/ ChIP peak Anno package v3.20.1 Zhu et al.86 N/A PASHA Fenouil et al.87 N/A Bowtie2 Langmead and Salzberg.88 http://bowtie-bio.sourceforge.net/ bowtie2/index.shtml Salmon v0.13.0 Patro et al.89 N/A DESeq2package v1.26.0 Love et al.90 N/A Scater v1.14.6 McCarthy et al.91 N/A ImageJ Schneider et al.92 https://imagej.nih.gov/ij/ Workflow: Nextflow: 23.04.2, nf-core/chipseq: 2.0.0 N/A https://zenodo.org/records/13899404 TxDb.Hsapiens.UCSC.hg19.knownGene Bioconductor https://bioconductor.org/packages/devel/ data/annotation/html/TxDb.Hsapiens. ..
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