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superscript iv vilo master mix kit ezdnase enzyme  (Thermo Fisher)


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    Thermo Fisher superscript iv vilo master mix kit ezdnase enzyme

    Superscript Iv Vilo Master Mix Kit Ezdnase Enzyme, supplied by Thermo Fisher, used in various techniques. Bioz Stars score: 90/100, based on 1 PubMed citations. ZERO BIAS - scores, article reviews, protocol conditions and more
    https://www.bioz.com/product/superscript+iv+vilo+master+mix+kit+with+ezdnase+enzyme/pmc11455614-304-38-40
    Average 90 stars, based on 1 article reviews
    superscript iv vilo master mix kit ezdnase enzyme - by Bioz Stars, 2026-10
    90/100 stars

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    1) Product Images from "Thyroid hormone remodels cortex to coordinate body-wide metabolism and exploration"

    Article Title: Thyroid hormone remodels cortex to coordinate body-wide metabolism and exploration

    Journal: Cell

    doi: 10.1016/j.cell.2024.07.041


    Figure Legend Snippet:

    Techniques Used: Virus, Plasmid Preparation, Recombinant, Control, Protease Inhibitor, RNAscope, Multiplex Assay, Negative Control, Software, Modification

    Related Articles

    Reverse Transcription:

    Article Title: Dynamic changes in histone deacetylases following kidney ischemia-reperfusion injury are critical for promoting proximal tubule proliferation
    Article Snippet: .. RNA was extracted from kidney cortex samples as previously reported ( 18 ). cDNA was reverse-transcribed from 2.5 μg using a SuperScript IV VILO Master Mix kit with ezDNase Enzyme (Thermo Fisher Scientific). .. SYBR Green-based quantitative real-time PCR was run using Bio-Rad SsoAdvanced Universal master mix and primers.

    Article Title: Dynamic changes in histone deacetylases following kidney ischemia-reperfusion injury are critical for promoting proximal tubule proliferation.
    Article Snippet: .. RNA was extracted from kidney cortex samples as previously reported (18). cDNA was reverse-transcribed from 2.5 g using a SuperScript IV VILO Master Mix kit with ezDNase Enzyme (Thermo Fisher Scientific). .. SYBR Green-based quantitative real-time PCR was run using Bio-Rad SsoAdvanced Universal master mix and primers.

    Virus:

    Article Title: Thyroid hormone remodels cortex to coordinate body-wide metabolism and exploration.
    Article Snippet: .. REAGENT or RESOURCE SOURCE IDENTIFIER Antibodies Rat anti-HA Roche Cat# 1186742300; RRID: AB_390918 Chicken anti-GFP Abcam Cat# Ab13970; RRID: AB_300798 Rabbit anti-NeuN Sigma Aldrich Cat# ABN78; RRID: AB_10807945 Mouse anti-Robo3 R&D Systems Cat# AF3155; RRID: AB_10644167 Mouse anti-GluN1 SySy Cat# 114011; RRID: AB_887750 Goat anti-rat Alexa 555 ThermoFisher Cat# A21434; RRID: AB_2535855 Goat anti-chicken Alexa 488 ThermoFisher Cat# A11039; RRID: AB_2534096 Goat anti-mouse Alexa 647 ThermoFisher Cat# A21235; RRID: AB_2535804 Streptavidin Alexa 647 ThermoFisher Cat# S32357 Bacterial and virus strains scAAV9-hSyn-iCre-HA Boston Children’s Hospital Viral Core N/A scAAV9-hSyn-DiCre-HA Boston Children’s Hospital Viral Core N/A AAV9-hSyn-DN-THR Boston Children’s Hospital Viral Core N/A AAV9-hSyn-WT-THR Boston Children’s Hospital Viral Core N/A AAV9-SIO-nEF-DN-Thrb Janelia Viral Tools N/A AAV9-SIO-nEF-WT-Thrb Janelia Viral Tools N/A AAV9-hSyn-FLEX-CoChR-GFP UNC GTC Vector Core N/A AAVretro-CAG-Cre UNC GTC Vector Core N/A AAV9-hSyn-CoChR-GFP UNC GTC Vector Core N/A pENN.AAV_PHPeB.hSyn.HI.eGFP-Cre.WPRE.SV40 Addgene Addgene 105540 AAV9-S5E2-ChR2-mCherry Addgene Addgene 135634 Chemicals, peptides, and recombinant proteins 3,3’,5-Triiodo-L-thyronine Sigma-Aldrich Cat# T6397 Sobetirome Thomas Scanlan N/A Kolliphor Sigma-Aldrich Cat# C5135 NMP Sigma-Aldrich Cat# 328634 0.15% PTU Diet Inotiv Cat# TD.95125 Control Diet Inotiv Cat# TD.97350 Trizol Life Technologies Cat# 15596018 RIPA buffer ThermoFisher Cat# 89900 cOmplete, Mini, EDTA-free Protease Inhibitor Cocktail Roche Cat# 11836170001 Biocytin Sigma Aldrich Cat# B4261 Critical commercial assays Chromium Next GEM Single Cell 3’ Kit v3 10X Genomics Cat#1000268 RNEasy Micro Kit Qiagen Cat#74004 SuperScript IV VILO Master Mix Kit with ezDNAse enzyme ThermoFisher Cat#11766050 RNAscope Multiplex Fluorescent Reagent Kit v1 (discontinued) and v2 Advanced Cell Diagnostics Cat#323100 (Continued on next page) e1 Cell 187, 1–19.e1–e11, October 3, 2024 .. REAGENT or RESOURCE SOURCE IDENTIFIER Deposited data snRNA-seq datasets This paper GEO: GSE271421 snRNA-seq datasets This paper https://cellxgene.cziscience.com/ collections/c450e15d-321a-42d6986b-11409d04896d Moseq, electrophysiology, and 2ABT datasets This paper https://dataverse.harvard.edu/ dataverse/2024_hochbaum_thyroid Experimental models: Organisms/strains Mouse: C57BL/6J The Jackson Laboratory Cat# 664; RRID:IMSR_JAX:000664 Mouse: Robo3 fl/fl: Robo3tm1.1Ache Alain Chédotal111 MGI:4441335 Oligonucleotides TaqMan probe for Hr: (Mm00498963_m1) ThermoFisher Cat# 4331182 TaqMan probe for Dio1: (Mm00839358_m1) ThermoFisher Cat# 4331182 TaqMan probe for Ier5: (Mm01295615_s1) ThermoFisher Cat# 4331182 TaqMan probe for Gapdh: (Mm99999915_g1) ThermoFisher Cat# 4351370 TaqMan probe for Cyp11a1: (Mm00490735_m1) ThermoFisher Cat# 4331182 FISH probe for Hr Advanced Cell Diagnostics Cat# 883311 FISH probe for Ier5 Advanced Cell Diagnostics Cat# 530401-C3 FISH probe for Robo3 Advanced Cell Diagnostics Cat# 558811-C2 4-plex positive probe Advanced Cell Diagnostics Cat# 321811 4-plex negative control probe Advanced Cell Diagnostics Cat# 321831 Recombinant DNA DRH001_scAAV-hSyn-iCre-HA This paper Addgene 225086 DRH002_scAAV-hSyn-DiCre-HA This paper Addgene 225087 DRH015_ AAV-hSyn-WT-THR This paper Addgene 225088 DRH016_ AAV-hSyn-DN-THR This paper Addgene 225089 DRH031_ AAV-SIO-nEF-WT-THR This paper Addgene 225090 DRH032_ AAV-SIO-nEF-DN-THR This paper Addgene 225091 Software and algorithms Custom software This paper https://github.com/bernardosabatinilab/ hochbaum_thyroid_2024 NeuroInfo MBF Bioscience https://www.mbfbioscience.com/ products/neuroinfo/; RRID:SCR_017346 MoSeq behavior analysis pipeline Lin et al.54 http://www.moseq4all.org/ ImageJ (Fiji) Schindelin et al.112 https://imagej.net/; RRID: SCR_003070 CellRanger v.5 pipeline 10x Genomics https://www.10xgenomics.com/support/ software/cell-ranger/latest Modified Seurat v.2 workflow Gazestani et al.113 N/A fGSEA package version 1.24.0 Korotkevich et al.114 N/A MATLAB version R2021b MathWorks https://www.mathworks.com/ products/matlab.html R version 4.2.2 R Foundation https://cran.r-project.org/bin/ windows/base/old/4.2.2/ Python version 3.9 Python Software Foundation https://www.python.org ll OPEN ACCESS Please cite this article in press as: Hochbaum et al., Thyroid hormone remodels cortex to coordinate body-wide metabolism and exploration, Cell (2024), https://doi.org/10.1016/j.cell.2024.07.041

    Recombinant:

    Article Title: Thyroid hormone remodels cortex to coordinate body-wide metabolism and exploration.
    Article Snippet: .. REAGENT or RESOURCE SOURCE IDENTIFIER Antibodies Rat anti-HA Roche Cat# 1186742300; RRID: AB_390918 Chicken anti-GFP Abcam Cat# Ab13970; RRID: AB_300798 Rabbit anti-NeuN Sigma Aldrich Cat# ABN78; RRID: AB_10807945 Mouse anti-Robo3 R&D Systems Cat# AF3155; RRID: AB_10644167 Mouse anti-GluN1 SySy Cat# 114011; RRID: AB_887750 Goat anti-rat Alexa 555 ThermoFisher Cat# A21434; RRID: AB_2535855 Goat anti-chicken Alexa 488 ThermoFisher Cat# A11039; RRID: AB_2534096 Goat anti-mouse Alexa 647 ThermoFisher Cat# A21235; RRID: AB_2535804 Streptavidin Alexa 647 ThermoFisher Cat# S32357 Bacterial and virus strains scAAV9-hSyn-iCre-HA Boston Children’s Hospital Viral Core N/A scAAV9-hSyn-DiCre-HA Boston Children’s Hospital Viral Core N/A AAV9-hSyn-DN-THR Boston Children’s Hospital Viral Core N/A AAV9-hSyn-WT-THR Boston Children’s Hospital Viral Core N/A AAV9-SIO-nEF-DN-Thrb Janelia Viral Tools N/A AAV9-SIO-nEF-WT-Thrb Janelia Viral Tools N/A AAV9-hSyn-FLEX-CoChR-GFP UNC GTC Vector Core N/A AAVretro-CAG-Cre UNC GTC Vector Core N/A AAV9-hSyn-CoChR-GFP UNC GTC Vector Core N/A pENN.AAV_PHPeB.hSyn.HI.eGFP-Cre.WPRE.SV40 Addgene Addgene 105540 AAV9-S5E2-ChR2-mCherry Addgene Addgene 135634 Chemicals, peptides, and recombinant proteins 3,3’,5-Triiodo-L-thyronine Sigma-Aldrich Cat# T6397 Sobetirome Thomas Scanlan N/A Kolliphor Sigma-Aldrich Cat# C5135 NMP Sigma-Aldrich Cat# 328634 0.15% PTU Diet Inotiv Cat# TD.95125 Control Diet Inotiv Cat# TD.97350 Trizol Life Technologies Cat# 15596018 RIPA buffer ThermoFisher Cat# 89900 cOmplete, Mini, EDTA-free Protease Inhibitor Cocktail Roche Cat# 11836170001 Biocytin Sigma Aldrich Cat# B4261 Critical commercial assays Chromium Next GEM Single Cell 3’ Kit v3 10X Genomics Cat#1000268 RNEasy Micro Kit Qiagen Cat#74004 SuperScript IV VILO Master Mix Kit with ezDNAse enzyme ThermoFisher Cat#11766050 RNAscope Multiplex Fluorescent Reagent Kit v1 (discontinued) and v2 Advanced Cell Diagnostics Cat#323100 (Continued on next page) e1 Cell 187, 1–19.e1–e11, October 3, 2024 .. REAGENT or RESOURCE SOURCE IDENTIFIER Deposited data snRNA-seq datasets This paper GEO: GSE271421 snRNA-seq datasets This paper https://cellxgene.cziscience.com/ collections/c450e15d-321a-42d6986b-11409d04896d Moseq, electrophysiology, and 2ABT datasets This paper https://dataverse.harvard.edu/ dataverse/2024_hochbaum_thyroid Experimental models: Organisms/strains Mouse: C57BL/6J The Jackson Laboratory Cat# 664; RRID:IMSR_JAX:000664 Mouse: Robo3 fl/fl: Robo3tm1.1Ache Alain Chédotal111 MGI:4441335 Oligonucleotides TaqMan probe for Hr: (Mm00498963_m1) ThermoFisher Cat# 4331182 TaqMan probe for Dio1: (Mm00839358_m1) ThermoFisher Cat# 4331182 TaqMan probe for Ier5: (Mm01295615_s1) ThermoFisher Cat# 4331182 TaqMan probe for Gapdh: (Mm99999915_g1) ThermoFisher Cat# 4351370 TaqMan probe for Cyp11a1: (Mm00490735_m1) ThermoFisher Cat# 4331182 FISH probe for Hr Advanced Cell Diagnostics Cat# 883311 FISH probe for Ier5 Advanced Cell Diagnostics Cat# 530401-C3 FISH probe for Robo3 Advanced Cell Diagnostics Cat# 558811-C2 4-plex positive probe Advanced Cell Diagnostics Cat# 321811 4-plex negative control probe Advanced Cell Diagnostics Cat# 321831 Recombinant DNA DRH001_scAAV-hSyn-iCre-HA This paper Addgene 225086 DRH002_scAAV-hSyn-DiCre-HA This paper Addgene 225087 DRH015_ AAV-hSyn-WT-THR This paper Addgene 225088 DRH016_ AAV-hSyn-DN-THR This paper Addgene 225089 DRH031_ AAV-SIO-nEF-WT-THR This paper Addgene 225090 DRH032_ AAV-SIO-nEF-DN-THR This paper Addgene 225091 Software and algorithms Custom software This paper https://github.com/bernardosabatinilab/ hochbaum_thyroid_2024 NeuroInfo MBF Bioscience https://www.mbfbioscience.com/ products/neuroinfo/; RRID:SCR_017346 MoSeq behavior analysis pipeline Lin et al.54 http://www.moseq4all.org/ ImageJ (Fiji) Schindelin et al.112 https://imagej.net/; RRID: SCR_003070 CellRanger v.5 pipeline 10x Genomics https://www.10xgenomics.com/support/ software/cell-ranger/latest Modified Seurat v.2 workflow Gazestani et al.113 N/A fGSEA package version 1.24.0 Korotkevich et al.114 N/A MATLAB version R2021b MathWorks https://www.mathworks.com/ products/matlab.html R version 4.2.2 R Foundation https://cran.r-project.org/bin/ windows/base/old/4.2.2/ Python version 3.9 Python Software Foundation https://www.python.org ll OPEN ACCESS Please cite this article in press as: Hochbaum et al., Thyroid hormone remodels cortex to coordinate body-wide metabolism and exploration, Cell (2024), https://doi.org/10.1016/j.cell.2024.07.041

    Control:

    Article Title: Thyroid hormone remodels cortex to coordinate body-wide metabolism and exploration.
    Article Snippet: .. REAGENT or RESOURCE SOURCE IDENTIFIER Antibodies Rat anti-HA Roche Cat# 1186742300; RRID: AB_390918 Chicken anti-GFP Abcam Cat# Ab13970; RRID: AB_300798 Rabbit anti-NeuN Sigma Aldrich Cat# ABN78; RRID: AB_10807945 Mouse anti-Robo3 R&D Systems Cat# AF3155; RRID: AB_10644167 Mouse anti-GluN1 SySy Cat# 114011; RRID: AB_887750 Goat anti-rat Alexa 555 ThermoFisher Cat# A21434; RRID: AB_2535855 Goat anti-chicken Alexa 488 ThermoFisher Cat# A11039; RRID: AB_2534096 Goat anti-mouse Alexa 647 ThermoFisher Cat# A21235; RRID: AB_2535804 Streptavidin Alexa 647 ThermoFisher Cat# S32357 Bacterial and virus strains scAAV9-hSyn-iCre-HA Boston Children’s Hospital Viral Core N/A scAAV9-hSyn-DiCre-HA Boston Children’s Hospital Viral Core N/A AAV9-hSyn-DN-THR Boston Children’s Hospital Viral Core N/A AAV9-hSyn-WT-THR Boston Children’s Hospital Viral Core N/A AAV9-SIO-nEF-DN-Thrb Janelia Viral Tools N/A AAV9-SIO-nEF-WT-Thrb Janelia Viral Tools N/A AAV9-hSyn-FLEX-CoChR-GFP UNC GTC Vector Core N/A AAVretro-CAG-Cre UNC GTC Vector Core N/A AAV9-hSyn-CoChR-GFP UNC GTC Vector Core N/A pENN.AAV_PHPeB.hSyn.HI.eGFP-Cre.WPRE.SV40 Addgene Addgene 105540 AAV9-S5E2-ChR2-mCherry Addgene Addgene 135634 Chemicals, peptides, and recombinant proteins 3,3’,5-Triiodo-L-thyronine Sigma-Aldrich Cat# T6397 Sobetirome Thomas Scanlan N/A Kolliphor Sigma-Aldrich Cat# C5135 NMP Sigma-Aldrich Cat# 328634 0.15% PTU Diet Inotiv Cat# TD.95125 Control Diet Inotiv Cat# TD.97350 Trizol Life Technologies Cat# 15596018 RIPA buffer ThermoFisher Cat# 89900 cOmplete, Mini, EDTA-free Protease Inhibitor Cocktail Roche Cat# 11836170001 Biocytin Sigma Aldrich Cat# B4261 Critical commercial assays Chromium Next GEM Single Cell 3’ Kit v3 10X Genomics Cat#1000268 RNEasy Micro Kit Qiagen Cat#74004 SuperScript IV VILO Master Mix Kit with ezDNAse enzyme ThermoFisher Cat#11766050 RNAscope Multiplex Fluorescent Reagent Kit v1 (discontinued) and v2 Advanced Cell Diagnostics Cat#323100 (Continued on next page) e1 Cell 187, 1–19.e1–e11, October 3, 2024 .. REAGENT or RESOURCE SOURCE IDENTIFIER Deposited data snRNA-seq datasets This paper GEO: GSE271421 snRNA-seq datasets This paper https://cellxgene.cziscience.com/ collections/c450e15d-321a-42d6986b-11409d04896d Moseq, electrophysiology, and 2ABT datasets This paper https://dataverse.harvard.edu/ dataverse/2024_hochbaum_thyroid Experimental models: Organisms/strains Mouse: C57BL/6J The Jackson Laboratory Cat# 664; RRID:IMSR_JAX:000664 Mouse: Robo3 fl/fl: Robo3tm1.1Ache Alain Chédotal111 MGI:4441335 Oligonucleotides TaqMan probe for Hr: (Mm00498963_m1) ThermoFisher Cat# 4331182 TaqMan probe for Dio1: (Mm00839358_m1) ThermoFisher Cat# 4331182 TaqMan probe for Ier5: (Mm01295615_s1) ThermoFisher Cat# 4331182 TaqMan probe for Gapdh: (Mm99999915_g1) ThermoFisher Cat# 4351370 TaqMan probe for Cyp11a1: (Mm00490735_m1) ThermoFisher Cat# 4331182 FISH probe for Hr Advanced Cell Diagnostics Cat# 883311 FISH probe for Ier5 Advanced Cell Diagnostics Cat# 530401-C3 FISH probe for Robo3 Advanced Cell Diagnostics Cat# 558811-C2 4-plex positive probe Advanced Cell Diagnostics Cat# 321811 4-plex negative control probe Advanced Cell Diagnostics Cat# 321831 Recombinant DNA DRH001_scAAV-hSyn-iCre-HA This paper Addgene 225086 DRH002_scAAV-hSyn-DiCre-HA This paper Addgene 225087 DRH015_ AAV-hSyn-WT-THR This paper Addgene 225088 DRH016_ AAV-hSyn-DN-THR This paper Addgene 225089 DRH031_ AAV-SIO-nEF-WT-THR This paper Addgene 225090 DRH032_ AAV-SIO-nEF-DN-THR This paper Addgene 225091 Software and algorithms Custom software This paper https://github.com/bernardosabatinilab/ hochbaum_thyroid_2024 NeuroInfo MBF Bioscience https://www.mbfbioscience.com/ products/neuroinfo/; RRID:SCR_017346 MoSeq behavior analysis pipeline Lin et al.54 http://www.moseq4all.org/ ImageJ (Fiji) Schindelin et al.112 https://imagej.net/; RRID: SCR_003070 CellRanger v.5 pipeline 10x Genomics https://www.10xgenomics.com/support/ software/cell-ranger/latest Modified Seurat v.2 workflow Gazestani et al.113 N/A fGSEA package version 1.24.0 Korotkevich et al.114 N/A MATLAB version R2021b MathWorks https://www.mathworks.com/ products/matlab.html R version 4.2.2 R Foundation https://cran.r-project.org/bin/ windows/base/old/4.2.2/ Python version 3.9 Python Software Foundation https://www.python.org ll OPEN ACCESS Please cite this article in press as: Hochbaum et al., Thyroid hormone remodels cortex to coordinate body-wide metabolism and exploration, Cell (2024), https://doi.org/10.1016/j.cell.2024.07.041

    Protease Inhibitor:

    Article Title: Thyroid hormone remodels cortex to coordinate body-wide metabolism and exploration.
    Article Snippet: .. REAGENT or RESOURCE SOURCE IDENTIFIER Antibodies Rat anti-HA Roche Cat# 1186742300; RRID: AB_390918 Chicken anti-GFP Abcam Cat# Ab13970; RRID: AB_300798 Rabbit anti-NeuN Sigma Aldrich Cat# ABN78; RRID: AB_10807945 Mouse anti-Robo3 R&D Systems Cat# AF3155; RRID: AB_10644167 Mouse anti-GluN1 SySy Cat# 114011; RRID: AB_887750 Goat anti-rat Alexa 555 ThermoFisher Cat# A21434; RRID: AB_2535855 Goat anti-chicken Alexa 488 ThermoFisher Cat# A11039; RRID: AB_2534096 Goat anti-mouse Alexa 647 ThermoFisher Cat# A21235; RRID: AB_2535804 Streptavidin Alexa 647 ThermoFisher Cat# S32357 Bacterial and virus strains scAAV9-hSyn-iCre-HA Boston Children’s Hospital Viral Core N/A scAAV9-hSyn-DiCre-HA Boston Children’s Hospital Viral Core N/A AAV9-hSyn-DN-THR Boston Children’s Hospital Viral Core N/A AAV9-hSyn-WT-THR Boston Children’s Hospital Viral Core N/A AAV9-SIO-nEF-DN-Thrb Janelia Viral Tools N/A AAV9-SIO-nEF-WT-Thrb Janelia Viral Tools N/A AAV9-hSyn-FLEX-CoChR-GFP UNC GTC Vector Core N/A AAVretro-CAG-Cre UNC GTC Vector Core N/A AAV9-hSyn-CoChR-GFP UNC GTC Vector Core N/A pENN.AAV_PHPeB.hSyn.HI.eGFP-Cre.WPRE.SV40 Addgene Addgene 105540 AAV9-S5E2-ChR2-mCherry Addgene Addgene 135634 Chemicals, peptides, and recombinant proteins 3,3’,5-Triiodo-L-thyronine Sigma-Aldrich Cat# T6397 Sobetirome Thomas Scanlan N/A Kolliphor Sigma-Aldrich Cat# C5135 NMP Sigma-Aldrich Cat# 328634 0.15% PTU Diet Inotiv Cat# TD.95125 Control Diet Inotiv Cat# TD.97350 Trizol Life Technologies Cat# 15596018 RIPA buffer ThermoFisher Cat# 89900 cOmplete, Mini, EDTA-free Protease Inhibitor Cocktail Roche Cat# 11836170001 Biocytin Sigma Aldrich Cat# B4261 Critical commercial assays Chromium Next GEM Single Cell 3’ Kit v3 10X Genomics Cat#1000268 RNEasy Micro Kit Qiagen Cat#74004 SuperScript IV VILO Master Mix Kit with ezDNAse enzyme ThermoFisher Cat#11766050 RNAscope Multiplex Fluorescent Reagent Kit v1 (discontinued) and v2 Advanced Cell Diagnostics Cat#323100 (Continued on next page) e1 Cell 187, 1–19.e1–e11, October 3, 2024 .. REAGENT or RESOURCE SOURCE IDENTIFIER Deposited data snRNA-seq datasets This paper GEO: GSE271421 snRNA-seq datasets This paper https://cellxgene.cziscience.com/ collections/c450e15d-321a-42d6986b-11409d04896d Moseq, electrophysiology, and 2ABT datasets This paper https://dataverse.harvard.edu/ dataverse/2024_hochbaum_thyroid Experimental models: Organisms/strains Mouse: C57BL/6J The Jackson Laboratory Cat# 664; RRID:IMSR_JAX:000664 Mouse: Robo3 fl/fl: Robo3tm1.1Ache Alain Chédotal111 MGI:4441335 Oligonucleotides TaqMan probe for Hr: (Mm00498963_m1) ThermoFisher Cat# 4331182 TaqMan probe for Dio1: (Mm00839358_m1) ThermoFisher Cat# 4331182 TaqMan probe for Ier5: (Mm01295615_s1) ThermoFisher Cat# 4331182 TaqMan probe for Gapdh: (Mm99999915_g1) ThermoFisher Cat# 4351370 TaqMan probe for Cyp11a1: (Mm00490735_m1) ThermoFisher Cat# 4331182 FISH probe for Hr Advanced Cell Diagnostics Cat# 883311 FISH probe for Ier5 Advanced Cell Diagnostics Cat# 530401-C3 FISH probe for Robo3 Advanced Cell Diagnostics Cat# 558811-C2 4-plex positive probe Advanced Cell Diagnostics Cat# 321811 4-plex negative control probe Advanced Cell Diagnostics Cat# 321831 Recombinant DNA DRH001_scAAV-hSyn-iCre-HA This paper Addgene 225086 DRH002_scAAV-hSyn-DiCre-HA This paper Addgene 225087 DRH015_ AAV-hSyn-WT-THR This paper Addgene 225088 DRH016_ AAV-hSyn-DN-THR This paper Addgene 225089 DRH031_ AAV-SIO-nEF-WT-THR This paper Addgene 225090 DRH032_ AAV-SIO-nEF-DN-THR This paper Addgene 225091 Software and algorithms Custom software This paper https://github.com/bernardosabatinilab/ hochbaum_thyroid_2024 NeuroInfo MBF Bioscience https://www.mbfbioscience.com/ products/neuroinfo/; RRID:SCR_017346 MoSeq behavior analysis pipeline Lin et al.54 http://www.moseq4all.org/ ImageJ (Fiji) Schindelin et al.112 https://imagej.net/; RRID: SCR_003070 CellRanger v.5 pipeline 10x Genomics https://www.10xgenomics.com/support/ software/cell-ranger/latest Modified Seurat v.2 workflow Gazestani et al.113 N/A fGSEA package version 1.24.0 Korotkevich et al.114 N/A MATLAB version R2021b MathWorks https://www.mathworks.com/ products/matlab.html R version 4.2.2 R Foundation https://cran.r-project.org/bin/ windows/base/old/4.2.2/ Python version 3.9 Python Software Foundation https://www.python.org ll OPEN ACCESS Please cite this article in press as: Hochbaum et al., Thyroid hormone remodels cortex to coordinate body-wide metabolism and exploration, Cell (2024), https://doi.org/10.1016/j.cell.2024.07.041

    Single Cell:

    Article Title: Thyroid hormone remodels cortex to coordinate body-wide metabolism and exploration.
    Article Snippet: .. REAGENT or RESOURCE SOURCE IDENTIFIER Antibodies Rat anti-HA Roche Cat# 1186742300; RRID: AB_390918 Chicken anti-GFP Abcam Cat# Ab13970; RRID: AB_300798 Rabbit anti-NeuN Sigma Aldrich Cat# ABN78; RRID: AB_10807945 Mouse anti-Robo3 R&D Systems Cat# AF3155; RRID: AB_10644167 Mouse anti-GluN1 SySy Cat# 114011; RRID: AB_887750 Goat anti-rat Alexa 555 ThermoFisher Cat# A21434; RRID: AB_2535855 Goat anti-chicken Alexa 488 ThermoFisher Cat# A11039; RRID: AB_2534096 Goat anti-mouse Alexa 647 ThermoFisher Cat# A21235; RRID: AB_2535804 Streptavidin Alexa 647 ThermoFisher Cat# S32357 Bacterial and virus strains scAAV9-hSyn-iCre-HA Boston Children’s Hospital Viral Core N/A scAAV9-hSyn-DiCre-HA Boston Children’s Hospital Viral Core N/A AAV9-hSyn-DN-THR Boston Children’s Hospital Viral Core N/A AAV9-hSyn-WT-THR Boston Children’s Hospital Viral Core N/A AAV9-SIO-nEF-DN-Thrb Janelia Viral Tools N/A AAV9-SIO-nEF-WT-Thrb Janelia Viral Tools N/A AAV9-hSyn-FLEX-CoChR-GFP UNC GTC Vector Core N/A AAVretro-CAG-Cre UNC GTC Vector Core N/A AAV9-hSyn-CoChR-GFP UNC GTC Vector Core N/A pENN.AAV_PHPeB.hSyn.HI.eGFP-Cre.WPRE.SV40 Addgene Addgene 105540 AAV9-S5E2-ChR2-mCherry Addgene Addgene 135634 Chemicals, peptides, and recombinant proteins 3,3’,5-Triiodo-L-thyronine Sigma-Aldrich Cat# T6397 Sobetirome Thomas Scanlan N/A Kolliphor Sigma-Aldrich Cat# C5135 NMP Sigma-Aldrich Cat# 328634 0.15% PTU Diet Inotiv Cat# TD.95125 Control Diet Inotiv Cat# TD.97350 Trizol Life Technologies Cat# 15596018 RIPA buffer ThermoFisher Cat# 89900 cOmplete, Mini, EDTA-free Protease Inhibitor Cocktail Roche Cat# 11836170001 Biocytin Sigma Aldrich Cat# B4261 Critical commercial assays Chromium Next GEM Single Cell 3’ Kit v3 10X Genomics Cat#1000268 RNEasy Micro Kit Qiagen Cat#74004 SuperScript IV VILO Master Mix Kit with ezDNAse enzyme ThermoFisher Cat#11766050 RNAscope Multiplex Fluorescent Reagent Kit v1 (discontinued) and v2 Advanced Cell Diagnostics Cat#323100 (Continued on next page) e1 Cell 187, 1–19.e1–e11, October 3, 2024 .. REAGENT or RESOURCE SOURCE IDENTIFIER Deposited data snRNA-seq datasets This paper GEO: GSE271421 snRNA-seq datasets This paper https://cellxgene.cziscience.com/ collections/c450e15d-321a-42d6986b-11409d04896d Moseq, electrophysiology, and 2ABT datasets This paper https://dataverse.harvard.edu/ dataverse/2024_hochbaum_thyroid Experimental models: Organisms/strains Mouse: C57BL/6J The Jackson Laboratory Cat# 664; RRID:IMSR_JAX:000664 Mouse: Robo3 fl/fl: Robo3tm1.1Ache Alain Chédotal111 MGI:4441335 Oligonucleotides TaqMan probe for Hr: (Mm00498963_m1) ThermoFisher Cat# 4331182 TaqMan probe for Dio1: (Mm00839358_m1) ThermoFisher Cat# 4331182 TaqMan probe for Ier5: (Mm01295615_s1) ThermoFisher Cat# 4331182 TaqMan probe for Gapdh: (Mm99999915_g1) ThermoFisher Cat# 4351370 TaqMan probe for Cyp11a1: (Mm00490735_m1) ThermoFisher Cat# 4331182 FISH probe for Hr Advanced Cell Diagnostics Cat# 883311 FISH probe for Ier5 Advanced Cell Diagnostics Cat# 530401-C3 FISH probe for Robo3 Advanced Cell Diagnostics Cat# 558811-C2 4-plex positive probe Advanced Cell Diagnostics Cat# 321811 4-plex negative control probe Advanced Cell Diagnostics Cat# 321831 Recombinant DNA DRH001_scAAV-hSyn-iCre-HA This paper Addgene 225086 DRH002_scAAV-hSyn-DiCre-HA This paper Addgene 225087 DRH015_ AAV-hSyn-WT-THR This paper Addgene 225088 DRH016_ AAV-hSyn-DN-THR This paper Addgene 225089 DRH031_ AAV-SIO-nEF-WT-THR This paper Addgene 225090 DRH032_ AAV-SIO-nEF-DN-THR This paper Addgene 225091 Software and algorithms Custom software This paper https://github.com/bernardosabatinilab/ hochbaum_thyroid_2024 NeuroInfo MBF Bioscience https://www.mbfbioscience.com/ products/neuroinfo/; RRID:SCR_017346 MoSeq behavior analysis pipeline Lin et al.54 http://www.moseq4all.org/ ImageJ (Fiji) Schindelin et al.112 https://imagej.net/; RRID: SCR_003070 CellRanger v.5 pipeline 10x Genomics https://www.10xgenomics.com/support/ software/cell-ranger/latest Modified Seurat v.2 workflow Gazestani et al.113 N/A fGSEA package version 1.24.0 Korotkevich et al.114 N/A MATLAB version R2021b MathWorks https://www.mathworks.com/ products/matlab.html R version 4.2.2 R Foundation https://cran.r-project.org/bin/ windows/base/old/4.2.2/ Python version 3.9 Python Software Foundation https://www.python.org ll OPEN ACCESS Please cite this article in press as: Hochbaum et al., Thyroid hormone remodels cortex to coordinate body-wide metabolism and exploration, Cell (2024), https://doi.org/10.1016/j.cell.2024.07.041

    RNAscope:

    Article Title: Thyroid hormone remodels cortex to coordinate body-wide metabolism and exploration.
    Article Snippet: .. REAGENT or RESOURCE SOURCE IDENTIFIER Antibodies Rat anti-HA Roche Cat# 1186742300; RRID: AB_390918 Chicken anti-GFP Abcam Cat# Ab13970; RRID: AB_300798 Rabbit anti-NeuN Sigma Aldrich Cat# ABN78; RRID: AB_10807945 Mouse anti-Robo3 R&D Systems Cat# AF3155; RRID: AB_10644167 Mouse anti-GluN1 SySy Cat# 114011; RRID: AB_887750 Goat anti-rat Alexa 555 ThermoFisher Cat# A21434; RRID: AB_2535855 Goat anti-chicken Alexa 488 ThermoFisher Cat# A11039; RRID: AB_2534096 Goat anti-mouse Alexa 647 ThermoFisher Cat# A21235; RRID: AB_2535804 Streptavidin Alexa 647 ThermoFisher Cat# S32357 Bacterial and virus strains scAAV9-hSyn-iCre-HA Boston Children’s Hospital Viral Core N/A scAAV9-hSyn-DiCre-HA Boston Children’s Hospital Viral Core N/A AAV9-hSyn-DN-THR Boston Children’s Hospital Viral Core N/A AAV9-hSyn-WT-THR Boston Children’s Hospital Viral Core N/A AAV9-SIO-nEF-DN-Thrb Janelia Viral Tools N/A AAV9-SIO-nEF-WT-Thrb Janelia Viral Tools N/A AAV9-hSyn-FLEX-CoChR-GFP UNC GTC Vector Core N/A AAVretro-CAG-Cre UNC GTC Vector Core N/A AAV9-hSyn-CoChR-GFP UNC GTC Vector Core N/A pENN.AAV_PHPeB.hSyn.HI.eGFP-Cre.WPRE.SV40 Addgene Addgene 105540 AAV9-S5E2-ChR2-mCherry Addgene Addgene 135634 Chemicals, peptides, and recombinant proteins 3,3’,5-Triiodo-L-thyronine Sigma-Aldrich Cat# T6397 Sobetirome Thomas Scanlan N/A Kolliphor Sigma-Aldrich Cat# C5135 NMP Sigma-Aldrich Cat# 328634 0.15% PTU Diet Inotiv Cat# TD.95125 Control Diet Inotiv Cat# TD.97350 Trizol Life Technologies Cat# 15596018 RIPA buffer ThermoFisher Cat# 89900 cOmplete, Mini, EDTA-free Protease Inhibitor Cocktail Roche Cat# 11836170001 Biocytin Sigma Aldrich Cat# B4261 Critical commercial assays Chromium Next GEM Single Cell 3’ Kit v3 10X Genomics Cat#1000268 RNEasy Micro Kit Qiagen Cat#74004 SuperScript IV VILO Master Mix Kit with ezDNAse enzyme ThermoFisher Cat#11766050 RNAscope Multiplex Fluorescent Reagent Kit v1 (discontinued) and v2 Advanced Cell Diagnostics Cat#323100 (Continued on next page) e1 Cell 187, 1–19.e1–e11, October 3, 2024 .. REAGENT or RESOURCE SOURCE IDENTIFIER Deposited data snRNA-seq datasets This paper GEO: GSE271421 snRNA-seq datasets This paper https://cellxgene.cziscience.com/ collections/c450e15d-321a-42d6986b-11409d04896d Moseq, electrophysiology, and 2ABT datasets This paper https://dataverse.harvard.edu/ dataverse/2024_hochbaum_thyroid Experimental models: Organisms/strains Mouse: C57BL/6J The Jackson Laboratory Cat# 664; RRID:IMSR_JAX:000664 Mouse: Robo3 fl/fl: Robo3tm1.1Ache Alain Chédotal111 MGI:4441335 Oligonucleotides TaqMan probe for Hr: (Mm00498963_m1) ThermoFisher Cat# 4331182 TaqMan probe for Dio1: (Mm00839358_m1) ThermoFisher Cat# 4331182 TaqMan probe for Ier5: (Mm01295615_s1) ThermoFisher Cat# 4331182 TaqMan probe for Gapdh: (Mm99999915_g1) ThermoFisher Cat# 4351370 TaqMan probe for Cyp11a1: (Mm00490735_m1) ThermoFisher Cat# 4331182 FISH probe for Hr Advanced Cell Diagnostics Cat# 883311 FISH probe for Ier5 Advanced Cell Diagnostics Cat# 530401-C3 FISH probe for Robo3 Advanced Cell Diagnostics Cat# 558811-C2 4-plex positive probe Advanced Cell Diagnostics Cat# 321811 4-plex negative control probe Advanced Cell Diagnostics Cat# 321831 Recombinant DNA DRH001_scAAV-hSyn-iCre-HA This paper Addgene 225086 DRH002_scAAV-hSyn-DiCre-HA This paper Addgene 225087 DRH015_ AAV-hSyn-WT-THR This paper Addgene 225088 DRH016_ AAV-hSyn-DN-THR This paper Addgene 225089 DRH031_ AAV-SIO-nEF-WT-THR This paper Addgene 225090 DRH032_ AAV-SIO-nEF-DN-THR This paper Addgene 225091 Software and algorithms Custom software This paper https://github.com/bernardosabatinilab/ hochbaum_thyroid_2024 NeuroInfo MBF Bioscience https://www.mbfbioscience.com/ products/neuroinfo/; RRID:SCR_017346 MoSeq behavior analysis pipeline Lin et al.54 http://www.moseq4all.org/ ImageJ (Fiji) Schindelin et al.112 https://imagej.net/; RRID: SCR_003070 CellRanger v.5 pipeline 10x Genomics https://www.10xgenomics.com/support/ software/cell-ranger/latest Modified Seurat v.2 workflow Gazestani et al.113 N/A fGSEA package version 1.24.0 Korotkevich et al.114 N/A MATLAB version R2021b MathWorks https://www.mathworks.com/ products/matlab.html R version 4.2.2 R Foundation https://cran.r-project.org/bin/ windows/base/old/4.2.2/ Python version 3.9 Python Software Foundation https://www.python.org ll OPEN ACCESS Please cite this article in press as: Hochbaum et al., Thyroid hormone remodels cortex to coordinate body-wide metabolism and exploration, Cell (2024), https://doi.org/10.1016/j.cell.2024.07.041

    Multiplex Assay:

    Article Title: Thyroid hormone remodels cortex to coordinate body-wide metabolism and exploration.
    Article Snippet: .. REAGENT or RESOURCE SOURCE IDENTIFIER Antibodies Rat anti-HA Roche Cat# 1186742300; RRID: AB_390918 Chicken anti-GFP Abcam Cat# Ab13970; RRID: AB_300798 Rabbit anti-NeuN Sigma Aldrich Cat# ABN78; RRID: AB_10807945 Mouse anti-Robo3 R&D Systems Cat# AF3155; RRID: AB_10644167 Mouse anti-GluN1 SySy Cat# 114011; RRID: AB_887750 Goat anti-rat Alexa 555 ThermoFisher Cat# A21434; RRID: AB_2535855 Goat anti-chicken Alexa 488 ThermoFisher Cat# A11039; RRID: AB_2534096 Goat anti-mouse Alexa 647 ThermoFisher Cat# A21235; RRID: AB_2535804 Streptavidin Alexa 647 ThermoFisher Cat# S32357 Bacterial and virus strains scAAV9-hSyn-iCre-HA Boston Children’s Hospital Viral Core N/A scAAV9-hSyn-DiCre-HA Boston Children’s Hospital Viral Core N/A AAV9-hSyn-DN-THR Boston Children’s Hospital Viral Core N/A AAV9-hSyn-WT-THR Boston Children’s Hospital Viral Core N/A AAV9-SIO-nEF-DN-Thrb Janelia Viral Tools N/A AAV9-SIO-nEF-WT-Thrb Janelia Viral Tools N/A AAV9-hSyn-FLEX-CoChR-GFP UNC GTC Vector Core N/A AAVretro-CAG-Cre UNC GTC Vector Core N/A AAV9-hSyn-CoChR-GFP UNC GTC Vector Core N/A pENN.AAV_PHPeB.hSyn.HI.eGFP-Cre.WPRE.SV40 Addgene Addgene 105540 AAV9-S5E2-ChR2-mCherry Addgene Addgene 135634 Chemicals, peptides, and recombinant proteins 3,3’,5-Triiodo-L-thyronine Sigma-Aldrich Cat# T6397 Sobetirome Thomas Scanlan N/A Kolliphor Sigma-Aldrich Cat# C5135 NMP Sigma-Aldrich Cat# 328634 0.15% PTU Diet Inotiv Cat# TD.95125 Control Diet Inotiv Cat# TD.97350 Trizol Life Technologies Cat# 15596018 RIPA buffer ThermoFisher Cat# 89900 cOmplete, Mini, EDTA-free Protease Inhibitor Cocktail Roche Cat# 11836170001 Biocytin Sigma Aldrich Cat# B4261 Critical commercial assays Chromium Next GEM Single Cell 3’ Kit v3 10X Genomics Cat#1000268 RNEasy Micro Kit Qiagen Cat#74004 SuperScript IV VILO Master Mix Kit with ezDNAse enzyme ThermoFisher Cat#11766050 RNAscope Multiplex Fluorescent Reagent Kit v1 (discontinued) and v2 Advanced Cell Diagnostics Cat#323100 (Continued on next page) e1 Cell 187, 1–19.e1–e11, October 3, 2024 .. REAGENT or RESOURCE SOURCE IDENTIFIER Deposited data snRNA-seq datasets This paper GEO: GSE271421 snRNA-seq datasets This paper https://cellxgene.cziscience.com/ collections/c450e15d-321a-42d6986b-11409d04896d Moseq, electrophysiology, and 2ABT datasets This paper https://dataverse.harvard.edu/ dataverse/2024_hochbaum_thyroid Experimental models: Organisms/strains Mouse: C57BL/6J The Jackson Laboratory Cat# 664; RRID:IMSR_JAX:000664 Mouse: Robo3 fl/fl: Robo3tm1.1Ache Alain Chédotal111 MGI:4441335 Oligonucleotides TaqMan probe for Hr: (Mm00498963_m1) ThermoFisher Cat# 4331182 TaqMan probe for Dio1: (Mm00839358_m1) ThermoFisher Cat# 4331182 TaqMan probe for Ier5: (Mm01295615_s1) ThermoFisher Cat# 4331182 TaqMan probe for Gapdh: (Mm99999915_g1) ThermoFisher Cat# 4351370 TaqMan probe for Cyp11a1: (Mm00490735_m1) ThermoFisher Cat# 4331182 FISH probe for Hr Advanced Cell Diagnostics Cat# 883311 FISH probe for Ier5 Advanced Cell Diagnostics Cat# 530401-C3 FISH probe for Robo3 Advanced Cell Diagnostics Cat# 558811-C2 4-plex positive probe Advanced Cell Diagnostics Cat# 321811 4-plex negative control probe Advanced Cell Diagnostics Cat# 321831 Recombinant DNA DRH001_scAAV-hSyn-iCre-HA This paper Addgene 225086 DRH002_scAAV-hSyn-DiCre-HA This paper Addgene 225087 DRH015_ AAV-hSyn-WT-THR This paper Addgene 225088 DRH016_ AAV-hSyn-DN-THR This paper Addgene 225089 DRH031_ AAV-SIO-nEF-WT-THR This paper Addgene 225090 DRH032_ AAV-SIO-nEF-DN-THR This paper Addgene 225091 Software and algorithms Custom software This paper https://github.com/bernardosabatinilab/ hochbaum_thyroid_2024 NeuroInfo MBF Bioscience https://www.mbfbioscience.com/ products/neuroinfo/; RRID:SCR_017346 MoSeq behavior analysis pipeline Lin et al.54 http://www.moseq4all.org/ ImageJ (Fiji) Schindelin et al.112 https://imagej.net/; RRID: SCR_003070 CellRanger v.5 pipeline 10x Genomics https://www.10xgenomics.com/support/ software/cell-ranger/latest Modified Seurat v.2 workflow Gazestani et al.113 N/A fGSEA package version 1.24.0 Korotkevich et al.114 N/A MATLAB version R2021b MathWorks https://www.mathworks.com/ products/matlab.html R version 4.2.2 R Foundation https://cran.r-project.org/bin/ windows/base/old/4.2.2/ Python version 3.9 Python Software Foundation https://www.python.org ll OPEN ACCESS Please cite this article in press as: Hochbaum et al., Thyroid hormone remodels cortex to coordinate body-wide metabolism and exploration, Cell (2024), https://doi.org/10.1016/j.cell.2024.07.041



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    Journal: Cell

    Article Title: Thyroid hormone remodels cortex to coordinate body-wide metabolism and exploration

    doi: 10.1016/j.cell.2024.07.041

    Figure Lengend Snippet:

    Article Snippet: RNA concentrations were measured by a Nanodrop spectrophotometer (ThermoFisher, ND-2000), and samples were diluted to a 50 ng/μl RNA concentration. cDNA was generated from 1 μl of diluted RNA sample using SuperScript IV VILO Master Mix Kit with ezDNase enzyme (ThermoFisher, 11766050).

    Techniques: Virus, Plasmid Preparation, Recombinant, Control, Protease Inhibitor, RNAscope, Multiplex Assay, Negative Control, Software, Modification

    Journal: Cell

    Article Title: Thyroid hormone remodels cortex to coordinate body-wide metabolism and exploration

    doi: 10.1016/j.cell.2024.07.041

    Figure Lengend Snippet:

    Article Snippet: SuperScript IV VILO Master Mix Kit with ezDNAse enzyme , ThermoFisher , Cat#11766050.

    Techniques: Virus, Plasmid Preparation, Recombinant, Control, Protease Inhibitor, RNAscope, Multiplex Assay, Negative Control, Software, Modification