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    10X Genomics python custom code python
    Python Custom Code Python, supplied by 10X Genomics, used in various techniques. Bioz Stars score: 86/100, based on 1 PubMed citations. ZERO BIAS - scores, article reviews, protocol conditions and more
    https://www.bioz.com/product/software+brainwave+4/code+custom+python+python/pm38029745-258-150-168
    Average 86 stars, based on 1 article reviews
    python custom code python - by Bioz Stars, 2026-09
    86/100 stars

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    Recombinant:

    Article Title: Multi-chamber cardioids unravel human heart development and cardiac defects.
    Article Snippet: Signal Propagation Analysis Pipeline Original Code [Zenodo]: [doi.org/10.5281/zenodo.8354912] Experimental models: Cell lines H9 WiCell N/A 178/5 iPSC IMBA Stem Cell Core Facility in-house CAG-GCaMP6fWTC iPSC HeartBeat.Bio in-house TNNT2-GCaMP6f WTC iPSC HeartBeat.Bio in-house (Continued on next page) ll OPEN ACCESS e3 Cell 186, 5587–5605.e1–e13, December 7, 2023 Resource .. REAGENT or RESOURCE SOURCE IDENTIFIER TNNT2-GFP WTC iPSC HeartBeat.Bio in-house Wild-Type WTC iPSC Coriell Institute for Medical Research GM25256 MYL7-GFP WTC iPSC Allen Institute for Cell Science AICS-0052-003 TNNI1-GFP WTC iPSC Allen Institute for Cell Science AICS-0037-172 HIST1H2BJ-GFP WTC iPSC Allen Institute for Cell Science AICS-0061-036 LMNB1-WTC iPSC Allen Institute for Cell Science AICS-0034-062 ISL1 KO WTC iPSC This paper N/A TBX5 KO WTC iPSC This paper N/A FOXF1 KO WTC iPSC This paper N/A GCaMP6f WTC iPSC This paper N/A Oligonucleotides See Table S3 for all oligonucleotide and RNA sequences Recombinant DNA pAAVS1-PC-GCaMP6f Bruce Conklin Lab Addgene plasmid ##73503 AAVS1 TALEN L & R Hofbauer et al.16 N/A Software and algorithms Fiji/ImageJ V2.0 Schindelin et al.64 https://imagej.net/Fiji.html FlowJo V10 FlowJo, LLC https://www.flowjo.com/ Adobe Creative Suite Adobe https://www.adobe.com/creativecloud.html# pCLAMP software v.10.0 Molecular Devices https://www.moleculardevices.com/systems/ conventional-patch-clamp/pclamp-10-software Rstudio Rstudio https://rstudio.com Matlab custom code Mathworks https://www.mathworks.com/products/ matlab.html Prism 8 Graphpad Software Inc. https://www.graphpad.com Python Custom Code Python https://www.python.org/ PATCHMASTER NEXT software HEKA Elektronik GmbH N/A BrainWave 4 3Brain N/A Cellranger v7.1.0 10X Genomics https://support.10xgenomics.com/ single-cell-gene-expression/software/pipelines/ latest/installation Size and Sorting Analysis HeartBeat.Bio N/A Other Ultra-Low Cluster, U-bottom 96-well plates Corning #7007 35mm tissue culture-treated dishes Corning #430165 96 well plate Greiner Bio-One #655182 ART Wide Bore Filtered Pipette Tips Thermo Scientific #2069G Chromium Next GEM Single Cell Fixed RNA Sample Preparation Kit 10x Genomics PN-1000414 Multiplex-compatible Chromium Next GEM Single Cell Fixed RNA Human Transcriptome Probe kits 10x Genomics PN-1000420/1000456 Chromium Next GEM Single Cell Fixed RNA Gel Bead Kit, 10x Genomics PN-1000421 Chromium Next GEM Chip Q Single Cell Kit 10x Genomics PN-1000422 Chromium Next GEM Single Cell Fixed RNA Hybridization & Library Kit, 10x Genomics PN-1000415 Polypropylene Fibers Sterlitech #10047100 MEA anchors 3Brain or IMBA workshop N/A Glass capillaries Harvard Apparatus #BS4 64-0792 ll OPEN ACCESS Cell 186, 5587–5605.e1–e13, December 7, 2023 e4 Resource ll OPEN ACCESS Resource ..

    Plasmid Preparation:

    Article Title: Multi-chamber cardioids unravel human heart development and cardiac defects.
    Article Snippet: Signal Propagation Analysis Pipeline Original Code [Zenodo]: [doi.org/10.5281/zenodo.8354912] Experimental models: Cell lines H9 WiCell N/A 178/5 iPSC IMBA Stem Cell Core Facility in-house CAG-GCaMP6fWTC iPSC HeartBeat.Bio in-house TNNT2-GCaMP6f WTC iPSC HeartBeat.Bio in-house (Continued on next page) ll OPEN ACCESS e3 Cell 186, 5587–5605.e1–e13, December 7, 2023 Resource .. REAGENT or RESOURCE SOURCE IDENTIFIER TNNT2-GFP WTC iPSC HeartBeat.Bio in-house Wild-Type WTC iPSC Coriell Institute for Medical Research GM25256 MYL7-GFP WTC iPSC Allen Institute for Cell Science AICS-0052-003 TNNI1-GFP WTC iPSC Allen Institute for Cell Science AICS-0037-172 HIST1H2BJ-GFP WTC iPSC Allen Institute for Cell Science AICS-0061-036 LMNB1-WTC iPSC Allen Institute for Cell Science AICS-0034-062 ISL1 KO WTC iPSC This paper N/A TBX5 KO WTC iPSC This paper N/A FOXF1 KO WTC iPSC This paper N/A GCaMP6f WTC iPSC This paper N/A Oligonucleotides See Table S3 for all oligonucleotide and RNA sequences Recombinant DNA pAAVS1-PC-GCaMP6f Bruce Conklin Lab Addgene plasmid ##73503 AAVS1 TALEN L & R Hofbauer et al.16 N/A Software and algorithms Fiji/ImageJ V2.0 Schindelin et al.64 https://imagej.net/Fiji.html FlowJo V10 FlowJo, LLC https://www.flowjo.com/ Adobe Creative Suite Adobe https://www.adobe.com/creativecloud.html# pCLAMP software v.10.0 Molecular Devices https://www.moleculardevices.com/systems/ conventional-patch-clamp/pclamp-10-software Rstudio Rstudio https://rstudio.com Matlab custom code Mathworks https://www.mathworks.com/products/ matlab.html Prism 8 Graphpad Software Inc. https://www.graphpad.com Python Custom Code Python https://www.python.org/ PATCHMASTER NEXT software HEKA Elektronik GmbH N/A BrainWave 4 3Brain N/A Cellranger v7.1.0 10X Genomics https://support.10xgenomics.com/ single-cell-gene-expression/software/pipelines/ latest/installation Size and Sorting Analysis HeartBeat.Bio N/A Other Ultra-Low Cluster, U-bottom 96-well plates Corning #7007 35mm tissue culture-treated dishes Corning #430165 96 well plate Greiner Bio-One #655182 ART Wide Bore Filtered Pipette Tips Thermo Scientific #2069G Chromium Next GEM Single Cell Fixed RNA Sample Preparation Kit 10x Genomics PN-1000414 Multiplex-compatible Chromium Next GEM Single Cell Fixed RNA Human Transcriptome Probe kits 10x Genomics PN-1000420/1000456 Chromium Next GEM Single Cell Fixed RNA Gel Bead Kit, 10x Genomics PN-1000421 Chromium Next GEM Chip Q Single Cell Kit 10x Genomics PN-1000422 Chromium Next GEM Single Cell Fixed RNA Hybridization & Library Kit, 10x Genomics PN-1000415 Polypropylene Fibers Sterlitech #10047100 MEA anchors 3Brain or IMBA workshop N/A Glass capillaries Harvard Apparatus #BS4 64-0792 ll OPEN ACCESS Cell 186, 5587–5605.e1–e13, December 7, 2023 e4 Resource ll OPEN ACCESS Resource ..

    Software:

    Article Title: Multi-chamber cardioids unravel human heart development and cardiac defects.
    Article Snippet: Signal Propagation Analysis Pipeline Original Code [Zenodo]: [doi.org/10.5281/zenodo.8354912] Experimental models: Cell lines H9 WiCell N/A 178/5 iPSC IMBA Stem Cell Core Facility in-house CAG-GCaMP6fWTC iPSC HeartBeat.Bio in-house TNNT2-GCaMP6f WTC iPSC HeartBeat.Bio in-house (Continued on next page) ll OPEN ACCESS e3 Cell 186, 5587–5605.e1–e13, December 7, 2023 Resource .. REAGENT or RESOURCE SOURCE IDENTIFIER TNNT2-GFP WTC iPSC HeartBeat.Bio in-house Wild-Type WTC iPSC Coriell Institute for Medical Research GM25256 MYL7-GFP WTC iPSC Allen Institute for Cell Science AICS-0052-003 TNNI1-GFP WTC iPSC Allen Institute for Cell Science AICS-0037-172 HIST1H2BJ-GFP WTC iPSC Allen Institute for Cell Science AICS-0061-036 LMNB1-WTC iPSC Allen Institute for Cell Science AICS-0034-062 ISL1 KO WTC iPSC This paper N/A TBX5 KO WTC iPSC This paper N/A FOXF1 KO WTC iPSC This paper N/A GCaMP6f WTC iPSC This paper N/A Oligonucleotides See Table S3 for all oligonucleotide and RNA sequences Recombinant DNA pAAVS1-PC-GCaMP6f Bruce Conklin Lab Addgene plasmid ##73503 AAVS1 TALEN L & R Hofbauer et al.16 N/A Software and algorithms Fiji/ImageJ V2.0 Schindelin et al.64 https://imagej.net/Fiji.html FlowJo V10 FlowJo, LLC https://www.flowjo.com/ Adobe Creative Suite Adobe https://www.adobe.com/creativecloud.html# pCLAMP software v.10.0 Molecular Devices https://www.moleculardevices.com/systems/ conventional-patch-clamp/pclamp-10-software Rstudio Rstudio https://rstudio.com Matlab custom code Mathworks https://www.mathworks.com/products/ matlab.html Prism 8 Graphpad Software Inc. https://www.graphpad.com Python Custom Code Python https://www.python.org/ PATCHMASTER NEXT software HEKA Elektronik GmbH N/A BrainWave 4 3Brain N/A Cellranger v7.1.0 10X Genomics https://support.10xgenomics.com/ single-cell-gene-expression/software/pipelines/ latest/installation Size and Sorting Analysis HeartBeat.Bio N/A Other Ultra-Low Cluster, U-bottom 96-well plates Corning #7007 35mm tissue culture-treated dishes Corning #430165 96 well plate Greiner Bio-One #655182 ART Wide Bore Filtered Pipette Tips Thermo Scientific #2069G Chromium Next GEM Single Cell Fixed RNA Sample Preparation Kit 10x Genomics PN-1000414 Multiplex-compatible Chromium Next GEM Single Cell Fixed RNA Human Transcriptome Probe kits 10x Genomics PN-1000420/1000456 Chromium Next GEM Single Cell Fixed RNA Gel Bead Kit, 10x Genomics PN-1000421 Chromium Next GEM Chip Q Single Cell Kit 10x Genomics PN-1000422 Chromium Next GEM Single Cell Fixed RNA Hybridization & Library Kit, 10x Genomics PN-1000415 Polypropylene Fibers Sterlitech #10047100 MEA anchors 3Brain or IMBA workshop N/A Glass capillaries Harvard Apparatus #BS4 64-0792 ll OPEN ACCESS Cell 186, 5587–5605.e1–e13, December 7, 2023 e4 Resource ll OPEN ACCESS Resource ..

    Transferring:

    Article Title: Multi-chamber cardioids unravel human heart development and cardiac defects.
    Article Snippet: Signal Propagation Analysis Pipeline Original Code [Zenodo]: [doi.org/10.5281/zenodo.8354912] Experimental models: Cell lines H9 WiCell N/A 178/5 iPSC IMBA Stem Cell Core Facility in-house CAG-GCaMP6fWTC iPSC HeartBeat.Bio in-house TNNT2-GCaMP6f WTC iPSC HeartBeat.Bio in-house (Continued on next page) ll OPEN ACCESS e3 Cell 186, 5587–5605.e1–e13, December 7, 2023 Resource .. REAGENT or RESOURCE SOURCE IDENTIFIER TNNT2-GFP WTC iPSC HeartBeat.Bio in-house Wild-Type WTC iPSC Coriell Institute for Medical Research GM25256 MYL7-GFP WTC iPSC Allen Institute for Cell Science AICS-0052-003 TNNI1-GFP WTC iPSC Allen Institute for Cell Science AICS-0037-172 HIST1H2BJ-GFP WTC iPSC Allen Institute for Cell Science AICS-0061-036 LMNB1-WTC iPSC Allen Institute for Cell Science AICS-0034-062 ISL1 KO WTC iPSC This paper N/A TBX5 KO WTC iPSC This paper N/A FOXF1 KO WTC iPSC This paper N/A GCaMP6f WTC iPSC This paper N/A Oligonucleotides See Table S3 for all oligonucleotide and RNA sequences Recombinant DNA pAAVS1-PC-GCaMP6f Bruce Conklin Lab Addgene plasmid ##73503 AAVS1 TALEN L & R Hofbauer et al.16 N/A Software and algorithms Fiji/ImageJ V2.0 Schindelin et al.64 https://imagej.net/Fiji.html FlowJo V10 FlowJo, LLC https://www.flowjo.com/ Adobe Creative Suite Adobe https://www.adobe.com/creativecloud.html# pCLAMP software v.10.0 Molecular Devices https://www.moleculardevices.com/systems/ conventional-patch-clamp/pclamp-10-software Rstudio Rstudio https://rstudio.com Matlab custom code Mathworks https://www.mathworks.com/products/ matlab.html Prism 8 Graphpad Software Inc. https://www.graphpad.com Python Custom Code Python https://www.python.org/ PATCHMASTER NEXT software HEKA Elektronik GmbH N/A BrainWave 4 3Brain N/A Cellranger v7.1.0 10X Genomics https://support.10xgenomics.com/ single-cell-gene-expression/software/pipelines/ latest/installation Size and Sorting Analysis HeartBeat.Bio N/A Other Ultra-Low Cluster, U-bottom 96-well plates Corning #7007 35mm tissue culture-treated dishes Corning #430165 96 well plate Greiner Bio-One #655182 ART Wide Bore Filtered Pipette Tips Thermo Scientific #2069G Chromium Next GEM Single Cell Fixed RNA Sample Preparation Kit 10x Genomics PN-1000414 Multiplex-compatible Chromium Next GEM Single Cell Fixed RNA Human Transcriptome Probe kits 10x Genomics PN-1000420/1000456 Chromium Next GEM Single Cell Fixed RNA Gel Bead Kit, 10x Genomics PN-1000421 Chromium Next GEM Chip Q Single Cell Kit 10x Genomics PN-1000422 Chromium Next GEM Single Cell Fixed RNA Hybridization & Library Kit, 10x Genomics PN-1000415 Polypropylene Fibers Sterlitech #10047100 MEA anchors 3Brain or IMBA workshop N/A Glass capillaries Harvard Apparatus #BS4 64-0792 ll OPEN ACCESS Cell 186, 5587–5605.e1–e13, December 7, 2023 e4 Resource ll OPEN ACCESS Resource ..

    Single Cell:

    Article Title: Multi-chamber cardioids unravel human heart development and cardiac defects.
    Article Snippet: Signal Propagation Analysis Pipeline Original Code [Zenodo]: [doi.org/10.5281/zenodo.8354912] Experimental models: Cell lines H9 WiCell N/A 178/5 iPSC IMBA Stem Cell Core Facility in-house CAG-GCaMP6fWTC iPSC HeartBeat.Bio in-house TNNT2-GCaMP6f WTC iPSC HeartBeat.Bio in-house (Continued on next page) ll OPEN ACCESS e3 Cell 186, 5587–5605.e1–e13, December 7, 2023 Resource .. REAGENT or RESOURCE SOURCE IDENTIFIER TNNT2-GFP WTC iPSC HeartBeat.Bio in-house Wild-Type WTC iPSC Coriell Institute for Medical Research GM25256 MYL7-GFP WTC iPSC Allen Institute for Cell Science AICS-0052-003 TNNI1-GFP WTC iPSC Allen Institute for Cell Science AICS-0037-172 HIST1H2BJ-GFP WTC iPSC Allen Institute for Cell Science AICS-0061-036 LMNB1-WTC iPSC Allen Institute for Cell Science AICS-0034-062 ISL1 KO WTC iPSC This paper N/A TBX5 KO WTC iPSC This paper N/A FOXF1 KO WTC iPSC This paper N/A GCaMP6f WTC iPSC This paper N/A Oligonucleotides See Table S3 for all oligonucleotide and RNA sequences Recombinant DNA pAAVS1-PC-GCaMP6f Bruce Conklin Lab Addgene plasmid ##73503 AAVS1 TALEN L & R Hofbauer et al.16 N/A Software and algorithms Fiji/ImageJ V2.0 Schindelin et al.64 https://imagej.net/Fiji.html FlowJo V10 FlowJo, LLC https://www.flowjo.com/ Adobe Creative Suite Adobe https://www.adobe.com/creativecloud.html# pCLAMP software v.10.0 Molecular Devices https://www.moleculardevices.com/systems/ conventional-patch-clamp/pclamp-10-software Rstudio Rstudio https://rstudio.com Matlab custom code Mathworks https://www.mathworks.com/products/ matlab.html Prism 8 Graphpad Software Inc. https://www.graphpad.com Python Custom Code Python https://www.python.org/ PATCHMASTER NEXT software HEKA Elektronik GmbH N/A BrainWave 4 3Brain N/A Cellranger v7.1.0 10X Genomics https://support.10xgenomics.com/ single-cell-gene-expression/software/pipelines/ latest/installation Size and Sorting Analysis HeartBeat.Bio N/A Other Ultra-Low Cluster, U-bottom 96-well plates Corning #7007 35mm tissue culture-treated dishes Corning #430165 96 well plate Greiner Bio-One #655182 ART Wide Bore Filtered Pipette Tips Thermo Scientific #2069G Chromium Next GEM Single Cell Fixed RNA Sample Preparation Kit 10x Genomics PN-1000414 Multiplex-compatible Chromium Next GEM Single Cell Fixed RNA Human Transcriptome Probe kits 10x Genomics PN-1000420/1000456 Chromium Next GEM Single Cell Fixed RNA Gel Bead Kit, 10x Genomics PN-1000421 Chromium Next GEM Chip Q Single Cell Kit 10x Genomics PN-1000422 Chromium Next GEM Single Cell Fixed RNA Hybridization & Library Kit, 10x Genomics PN-1000415 Polypropylene Fibers Sterlitech #10047100 MEA anchors 3Brain or IMBA workshop N/A Glass capillaries Harvard Apparatus #BS4 64-0792 ll OPEN ACCESS Cell 186, 5587–5605.e1–e13, December 7, 2023 e4 Resource ll OPEN ACCESS Resource ..

    Sample Prep:

    Article Title: Multi-chamber cardioids unravel human heart development and cardiac defects.
    Article Snippet: Signal Propagation Analysis Pipeline Original Code [Zenodo]: [doi.org/10.5281/zenodo.8354912] Experimental models: Cell lines H9 WiCell N/A 178/5 iPSC IMBA Stem Cell Core Facility in-house CAG-GCaMP6fWTC iPSC HeartBeat.Bio in-house TNNT2-GCaMP6f WTC iPSC HeartBeat.Bio in-house (Continued on next page) ll OPEN ACCESS e3 Cell 186, 5587–5605.e1–e13, December 7, 2023 Resource .. REAGENT or RESOURCE SOURCE IDENTIFIER TNNT2-GFP WTC iPSC HeartBeat.Bio in-house Wild-Type WTC iPSC Coriell Institute for Medical Research GM25256 MYL7-GFP WTC iPSC Allen Institute for Cell Science AICS-0052-003 TNNI1-GFP WTC iPSC Allen Institute for Cell Science AICS-0037-172 HIST1H2BJ-GFP WTC iPSC Allen Institute for Cell Science AICS-0061-036 LMNB1-WTC iPSC Allen Institute for Cell Science AICS-0034-062 ISL1 KO WTC iPSC This paper N/A TBX5 KO WTC iPSC This paper N/A FOXF1 KO WTC iPSC This paper N/A GCaMP6f WTC iPSC This paper N/A Oligonucleotides See Table S3 for all oligonucleotide and RNA sequences Recombinant DNA pAAVS1-PC-GCaMP6f Bruce Conklin Lab Addgene plasmid ##73503 AAVS1 TALEN L & R Hofbauer et al.16 N/A Software and algorithms Fiji/ImageJ V2.0 Schindelin et al.64 https://imagej.net/Fiji.html FlowJo V10 FlowJo, LLC https://www.flowjo.com/ Adobe Creative Suite Adobe https://www.adobe.com/creativecloud.html# pCLAMP software v.10.0 Molecular Devices https://www.moleculardevices.com/systems/ conventional-patch-clamp/pclamp-10-software Rstudio Rstudio https://rstudio.com Matlab custom code Mathworks https://www.mathworks.com/products/ matlab.html Prism 8 Graphpad Software Inc. https://www.graphpad.com Python Custom Code Python https://www.python.org/ PATCHMASTER NEXT software HEKA Elektronik GmbH N/A BrainWave 4 3Brain N/A Cellranger v7.1.0 10X Genomics https://support.10xgenomics.com/ single-cell-gene-expression/software/pipelines/ latest/installation Size and Sorting Analysis HeartBeat.Bio N/A Other Ultra-Low Cluster, U-bottom 96-well plates Corning #7007 35mm tissue culture-treated dishes Corning #430165 96 well plate Greiner Bio-One #655182 ART Wide Bore Filtered Pipette Tips Thermo Scientific #2069G Chromium Next GEM Single Cell Fixed RNA Sample Preparation Kit 10x Genomics PN-1000414 Multiplex-compatible Chromium Next GEM Single Cell Fixed RNA Human Transcriptome Probe kits 10x Genomics PN-1000420/1000456 Chromium Next GEM Single Cell Fixed RNA Gel Bead Kit, 10x Genomics PN-1000421 Chromium Next GEM Chip Q Single Cell Kit 10x Genomics PN-1000422 Chromium Next GEM Single Cell Fixed RNA Hybridization & Library Kit, 10x Genomics PN-1000415 Polypropylene Fibers Sterlitech #10047100 MEA anchors 3Brain or IMBA workshop N/A Glass capillaries Harvard Apparatus #BS4 64-0792 ll OPEN ACCESS Cell 186, 5587–5605.e1–e13, December 7, 2023 e4 Resource ll OPEN ACCESS Resource ..

    Multiplex Assay:

    Article Title: Multi-chamber cardioids unravel human heart development and cardiac defects.
    Article Snippet: Signal Propagation Analysis Pipeline Original Code [Zenodo]: [doi.org/10.5281/zenodo.8354912] Experimental models: Cell lines H9 WiCell N/A 178/5 iPSC IMBA Stem Cell Core Facility in-house CAG-GCaMP6fWTC iPSC HeartBeat.Bio in-house TNNT2-GCaMP6f WTC iPSC HeartBeat.Bio in-house (Continued on next page) ll OPEN ACCESS e3 Cell 186, 5587–5605.e1–e13, December 7, 2023 Resource .. REAGENT or RESOURCE SOURCE IDENTIFIER TNNT2-GFP WTC iPSC HeartBeat.Bio in-house Wild-Type WTC iPSC Coriell Institute for Medical Research GM25256 MYL7-GFP WTC iPSC Allen Institute for Cell Science AICS-0052-003 TNNI1-GFP WTC iPSC Allen Institute for Cell Science AICS-0037-172 HIST1H2BJ-GFP WTC iPSC Allen Institute for Cell Science AICS-0061-036 LMNB1-WTC iPSC Allen Institute for Cell Science AICS-0034-062 ISL1 KO WTC iPSC This paper N/A TBX5 KO WTC iPSC This paper N/A FOXF1 KO WTC iPSC This paper N/A GCaMP6f WTC iPSC This paper N/A Oligonucleotides See Table S3 for all oligonucleotide and RNA sequences Recombinant DNA pAAVS1-PC-GCaMP6f Bruce Conklin Lab Addgene plasmid ##73503 AAVS1 TALEN L & R Hofbauer et al.16 N/A Software and algorithms Fiji/ImageJ V2.0 Schindelin et al.64 https://imagej.net/Fiji.html FlowJo V10 FlowJo, LLC https://www.flowjo.com/ Adobe Creative Suite Adobe https://www.adobe.com/creativecloud.html# pCLAMP software v.10.0 Molecular Devices https://www.moleculardevices.com/systems/ conventional-patch-clamp/pclamp-10-software Rstudio Rstudio https://rstudio.com Matlab custom code Mathworks https://www.mathworks.com/products/ matlab.html Prism 8 Graphpad Software Inc. https://www.graphpad.com Python Custom Code Python https://www.python.org/ PATCHMASTER NEXT software HEKA Elektronik GmbH N/A BrainWave 4 3Brain N/A Cellranger v7.1.0 10X Genomics https://support.10xgenomics.com/ single-cell-gene-expression/software/pipelines/ latest/installation Size and Sorting Analysis HeartBeat.Bio N/A Other Ultra-Low Cluster, U-bottom 96-well plates Corning #7007 35mm tissue culture-treated dishes Corning #430165 96 well plate Greiner Bio-One #655182 ART Wide Bore Filtered Pipette Tips Thermo Scientific #2069G Chromium Next GEM Single Cell Fixed RNA Sample Preparation Kit 10x Genomics PN-1000414 Multiplex-compatible Chromium Next GEM Single Cell Fixed RNA Human Transcriptome Probe kits 10x Genomics PN-1000420/1000456 Chromium Next GEM Single Cell Fixed RNA Gel Bead Kit, 10x Genomics PN-1000421 Chromium Next GEM Chip Q Single Cell Kit 10x Genomics PN-1000422 Chromium Next GEM Single Cell Fixed RNA Hybridization & Library Kit, 10x Genomics PN-1000415 Polypropylene Fibers Sterlitech #10047100 MEA anchors 3Brain or IMBA workshop N/A Glass capillaries Harvard Apparatus #BS4 64-0792 ll OPEN ACCESS Cell 186, 5587–5605.e1–e13, December 7, 2023 e4 Resource ll OPEN ACCESS Resource ..

    Hybridization:

    Article Title: Multi-chamber cardioids unravel human heart development and cardiac defects.
    Article Snippet: Signal Propagation Analysis Pipeline Original Code [Zenodo]: [doi.org/10.5281/zenodo.8354912] Experimental models: Cell lines H9 WiCell N/A 178/5 iPSC IMBA Stem Cell Core Facility in-house CAG-GCaMP6fWTC iPSC HeartBeat.Bio in-house TNNT2-GCaMP6f WTC iPSC HeartBeat.Bio in-house (Continued on next page) ll OPEN ACCESS e3 Cell 186, 5587–5605.e1–e13, December 7, 2023 Resource .. REAGENT or RESOURCE SOURCE IDENTIFIER TNNT2-GFP WTC iPSC HeartBeat.Bio in-house Wild-Type WTC iPSC Coriell Institute for Medical Research GM25256 MYL7-GFP WTC iPSC Allen Institute for Cell Science AICS-0052-003 TNNI1-GFP WTC iPSC Allen Institute for Cell Science AICS-0037-172 HIST1H2BJ-GFP WTC iPSC Allen Institute for Cell Science AICS-0061-036 LMNB1-WTC iPSC Allen Institute for Cell Science AICS-0034-062 ISL1 KO WTC iPSC This paper N/A TBX5 KO WTC iPSC This paper N/A FOXF1 KO WTC iPSC This paper N/A GCaMP6f WTC iPSC This paper N/A Oligonucleotides See Table S3 for all oligonucleotide and RNA sequences Recombinant DNA pAAVS1-PC-GCaMP6f Bruce Conklin Lab Addgene plasmid ##73503 AAVS1 TALEN L & R Hofbauer et al.16 N/A Software and algorithms Fiji/ImageJ V2.0 Schindelin et al.64 https://imagej.net/Fiji.html FlowJo V10 FlowJo, LLC https://www.flowjo.com/ Adobe Creative Suite Adobe https://www.adobe.com/creativecloud.html# pCLAMP software v.10.0 Molecular Devices https://www.moleculardevices.com/systems/ conventional-patch-clamp/pclamp-10-software Rstudio Rstudio https://rstudio.com Matlab custom code Mathworks https://www.mathworks.com/products/ matlab.html Prism 8 Graphpad Software Inc. https://www.graphpad.com Python Custom Code Python https://www.python.org/ PATCHMASTER NEXT software HEKA Elektronik GmbH N/A BrainWave 4 3Brain N/A Cellranger v7.1.0 10X Genomics https://support.10xgenomics.com/ single-cell-gene-expression/software/pipelines/ latest/installation Size and Sorting Analysis HeartBeat.Bio N/A Other Ultra-Low Cluster, U-bottom 96-well plates Corning #7007 35mm tissue culture-treated dishes Corning #430165 96 well plate Greiner Bio-One #655182 ART Wide Bore Filtered Pipette Tips Thermo Scientific #2069G Chromium Next GEM Single Cell Fixed RNA Sample Preparation Kit 10x Genomics PN-1000414 Multiplex-compatible Chromium Next GEM Single Cell Fixed RNA Human Transcriptome Probe kits 10x Genomics PN-1000420/1000456 Chromium Next GEM Single Cell Fixed RNA Gel Bead Kit, 10x Genomics PN-1000421 Chromium Next GEM Chip Q Single Cell Kit 10x Genomics PN-1000422 Chromium Next GEM Single Cell Fixed RNA Hybridization & Library Kit, 10x Genomics PN-1000415 Polypropylene Fibers Sterlitech #10047100 MEA anchors 3Brain or IMBA workshop N/A Glass capillaries Harvard Apparatus #BS4 64-0792 ll OPEN ACCESS Cell 186, 5587–5605.e1–e13, December 7, 2023 e4 Resource ll OPEN ACCESS Resource ..

    Microelectrode Array:

    Article Title: Multi-chamber cardioids unravel human heart development and cardiac defects.
    Article Snippet: Signal Propagation Analysis Pipeline Original Code [Zenodo]: [doi.org/10.5281/zenodo.8354912] Experimental models: Cell lines H9 WiCell N/A 178/5 iPSC IMBA Stem Cell Core Facility in-house CAG-GCaMP6fWTC iPSC HeartBeat.Bio in-house TNNT2-GCaMP6f WTC iPSC HeartBeat.Bio in-house (Continued on next page) ll OPEN ACCESS e3 Cell 186, 5587–5605.e1–e13, December 7, 2023 Resource .. REAGENT or RESOURCE SOURCE IDENTIFIER TNNT2-GFP WTC iPSC HeartBeat.Bio in-house Wild-Type WTC iPSC Coriell Institute for Medical Research GM25256 MYL7-GFP WTC iPSC Allen Institute for Cell Science AICS-0052-003 TNNI1-GFP WTC iPSC Allen Institute for Cell Science AICS-0037-172 HIST1H2BJ-GFP WTC iPSC Allen Institute for Cell Science AICS-0061-036 LMNB1-WTC iPSC Allen Institute for Cell Science AICS-0034-062 ISL1 KO WTC iPSC This paper N/A TBX5 KO WTC iPSC This paper N/A FOXF1 KO WTC iPSC This paper N/A GCaMP6f WTC iPSC This paper N/A Oligonucleotides See Table S3 for all oligonucleotide and RNA sequences Recombinant DNA pAAVS1-PC-GCaMP6f Bruce Conklin Lab Addgene plasmid ##73503 AAVS1 TALEN L & R Hofbauer et al.16 N/A Software and algorithms Fiji/ImageJ V2.0 Schindelin et al.64 https://imagej.net/Fiji.html FlowJo V10 FlowJo, LLC https://www.flowjo.com/ Adobe Creative Suite Adobe https://www.adobe.com/creativecloud.html# pCLAMP software v.10.0 Molecular Devices https://www.moleculardevices.com/systems/ conventional-patch-clamp/pclamp-10-software Rstudio Rstudio https://rstudio.com Matlab custom code Mathworks https://www.mathworks.com/products/ matlab.html Prism 8 Graphpad Software Inc. https://www.graphpad.com Python Custom Code Python https://www.python.org/ PATCHMASTER NEXT software HEKA Elektronik GmbH N/A BrainWave 4 3Brain N/A Cellranger v7.1.0 10X Genomics https://support.10xgenomics.com/ single-cell-gene-expression/software/pipelines/ latest/installation Size and Sorting Analysis HeartBeat.Bio N/A Other Ultra-Low Cluster, U-bottom 96-well plates Corning #7007 35mm tissue culture-treated dishes Corning #430165 96 well plate Greiner Bio-One #655182 ART Wide Bore Filtered Pipette Tips Thermo Scientific #2069G Chromium Next GEM Single Cell Fixed RNA Sample Preparation Kit 10x Genomics PN-1000414 Multiplex-compatible Chromium Next GEM Single Cell Fixed RNA Human Transcriptome Probe kits 10x Genomics PN-1000420/1000456 Chromium Next GEM Single Cell Fixed RNA Gel Bead Kit, 10x Genomics PN-1000421 Chromium Next GEM Chip Q Single Cell Kit 10x Genomics PN-1000422 Chromium Next GEM Single Cell Fixed RNA Hybridization & Library Kit, 10x Genomics PN-1000415 Polypropylene Fibers Sterlitech #10047100 MEA anchors 3Brain or IMBA workshop N/A Glass capillaries Harvard Apparatus #BS4 64-0792 ll OPEN ACCESS Cell 186, 5587–5605.e1–e13, December 7, 2023 e4 Resource ll OPEN ACCESS Resource ..



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