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    Benchmark Scientific beadbug 6 microtube homogenizer benchmark scientific
    Beadbug 6 Microtube Homogenizer Benchmark Scientific, supplied by Benchmark Scientific, used in various techniques. Bioz Stars score: 96/100, based on 1 PubMed citations. ZERO BIAS - scores, article reviews, protocol conditions and more
    https://www.bioz.com/product/beadbug+6+microtube+homogenizer+benchmark+scientific/BeadBug+6/pmc10842523-1273-126-130
    Average 96 stars, based on 1 article reviews
    beadbug 6 microtube homogenizer benchmark scientific - by Bioz Stars, 2026-10
    96/100 stars

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    Single Cell:

    Article Title: Widespread sex dimorphism across single-cell transcriptomes of adult African turquoise killifish tissues.
    Article Snippet: 23959335.v1 Experimental models: Organisms/strains Nothobranchius furzeri, GRZ strain Benayoun Lab Colony N/A Nothobranchius furzeri, ZMZ-1001 strain Benayoun Lab Colony (gift from D. Valenzano) N/A Oligonucleotides Primers for RT-qPCR Table S10 N/A Software and algorithms Code for this study (v1.0.0) This study https://github.com/BBenayounLaborator/ Killifish_Cell_Atlas [https://doi.org/10.5281/ zenodo.8335879] Augur v1.0.3 Squair et al.52 https://github.com/AugurProject/augur CellAssign v0.99.21 Zhang et al.79 https://github.com/Irrationone/cellassign Clusterprofiler v3.14.3 Yu et al.80 https://github.com/YuLab-SMU/ clusterProfiler CSCDRNA v1.0.3 Karimnezhad et al.71 https://cran.r-project.org/web/packages/ CSCDRNA/CSCDRNA.pdf DESeq2 v1.26.0 Love et al.58 https://github.com/mikelove/DESeq2 Doubletfinder v2.0.3 McGinnis et al.81 https://github.com/chris-mcginnis-ucsf/ DoubletFinder edgeR v3.36.0 Robinson et al.60 https://bioconductor.org/packages/ release/bioc/html/edgeR.html FASTP v0.23.2 Chen et al.82 https://github.com/OpenGene/fastp featureCounts v2.0.4 Liao et al.83 https://github.com/byee4/featureCounts Flowlogic v8 Miltenyi Biotec Cat#160-002-087 ImageJ v1.54d Schneider et al.84 https://imagej.nih.gov/ij/download.html Leica Application Suite X v4.4.0 Leica https://www.leica-microsystems.com/ products/microscope-software/p/leicalas-x-ls/downloads/ micPCR v2.12.7 Biomolecular Systems https://biomolecularsystems.com/mic- qpcr/software/ muscat v1.0.1 Crowell et al.57 https://github.com/HelenaLC/muscat python v3.8.12 N/A https://www.python.org/downloads/ release/python-3812/ QuPath v0.4.3 Bankhead et al.51 https://qupath.github.io/ R 3.6.3, 4.1.2 and 4.2.2 Team, R.C.85 https://cran.r-project.org RUVSeq v1.20.0 Risso et al.86 https://github.com/drisso/RUVSeq scds v1.2.0 Bais et al.87 https://github.com/kostkalab/scds scProportionTest v0.0.0.9000 Miller et al.54 https://github.com/rpolicastro/ scProportionTest scSorter v0.0.2 Guo et al.88 https://github.com/cran/scSorter SCTransform v0.3.2 Hafemeister et al.89 https://github.com/satijalab/sctransform scType 1.0 Ianevski et al.90 https://github.com/IanevskiAleksandr/ sc-type scvelo v0.2.5 Bergen et al.91 https://github.com/theislab/scvelo Seurat v3.2.2 Satija et al., Butler et al., Stuart et al., Hao et al.92–95 https://github.com/satijalab/seurat/ releases/tag/v3.2.2 (Continued on next page) Cell Reports 42, 113237, October 31, 2023 19 .. REAGENT or RESOURCE SOURCE IDENTIFIER SingleCellNet v0.1.0 Tan et al.96 https://github.com/pcahan1/ singleCellNet velocyto v0.17.17 La Manno et al.44 https://github.com/velocyto-team/ velocyto.py Other 10x Genomics User Guide Chromium Next GEM Single-cell 30 Reagent Kits v3.1 10x Genomics Cat# CG000204, Rev D 4200 TapeStation system Agilent Technologies Cat# G2991A 5424R Microcentrifuge Eppendorf Cat# 05-401-203 63x/1.4 Plan ApoChromat Oil DIC M27 Objective Zeiss Cat# 420782-9900-000 Beadbug 6 microtube homogenizer Benchmark Scientific Cat# D1036 Chromium Next GEM Chip G 10x Genomics Cat# 2000177 Chromium Next GEM Single Cell 3ʹ GEM, Library & Gel Bead Kit v3.1 10x Genomics Cat# PN-1000121 Countess Cell Counting Chamber Slides Thermo Fisher Scientific Cat# C10228 Countess II FL Automated Cell Counter Thermo Fisher Scientific Cat# AMQAX1000 Cryostat CM1860 Leica Cat# 14-0491-46884 EasySep Dead Cell Removal (Annexin V) Kit STEMCELL Technologies Cat# 17899 Keyence BZ-X710 Keyence Unavailable Liver Dissociation Kit Miltenyi Biotec Cat# 130-105-807 Low Retention Pipette Tips USA Scientific Cat# 1183-1710 Lysing Matrix D tube MP Cat# 6913500 MACSQuant Analyzer 10 Miltenyi Biotec Cat#130-096-343 Magnetic Induction Cycler (MIC) machine Bio Molecular Systems Cat# MIC-2 PTFE-coated microtome blades Duraedge Cat# 7223 Qubit 3.0 Fluorometer Thermo Fisher Scientific Cat# Q33216 RNAscopeTM Multiplex Fluorescent Reagent Kit v2 With Sample Preparation and Pretreatment User Guide Advanced Cell Diagnostics UM323100 SensiFAST SYBR No-ROX Kit Bioline Cat# BIO-98020 Stellaris 5 Confocal Microscope Leica NA Superfrost Plus Micro Slides VWR Cat# 48311-703 Thermal cycler C1000 Bio-Rad Cat# 1851196 ..

    Article Title: Widespread sex-dimorphism across single-cell transcriptomes of adult African turquoise killifish tissues
    Article Snippet: .. 85 https://cran.r-project.org RUVSeq v1.20.0 Risso et al 86 https://github.com/drisso/RUVSeq scds v1.2.0 Bais et al 87 https://github.com/kostkalab/scds scProportionTest v0.0.0.9000 Miller et al 54 https://github.com/rpolicastro/scProportionTest scSorter v0.0.2 Guo et al 88 https://github.com/cran/scSorter SCTransform v0.3.2 Hafemeister et al 89 https://github.com/satijalab/sctransform scType 1.0 Ianevski et al 90 https://github.com/IanevskiAleksandr/sc-type scvelo v0.2.5 Bergen et al 91 https://github.com/theislab/scvelo Seurat v3.2.2 Satija et al, Butler et al, Stuart et al, Hao et al 92 – 95 https://github.com/satijalab/seurat/releases/tag/v3.2.2 SingleCellNet v0.1.0 Tan et al 96 https://github.com/pcahan1/singleCellNet velocyto v0.17.17 La Manno et al 44 https://github.com/velocyto-team/velocyto.py Other 10x Genomics User Guide Chromium Next GEM Single-cell 3′ Reagent Kits v3.1 10x Genomics Cat# CG000204 , Rev D 4200 TapeStation system Agilent Technologies Cat# G2991A 5424R Microcentrifuge Eppendorf Cat# 05-401-203 63x/1.4 Plan ApoChromat Oil DIC M27 Objective Zeiss Cat# 420782-9900-000 Beadbug 6 microtube homogenizer Benchmark Scientific Cat# D1036 Chromium Next GEM Chip G 10x Genomics Cat# 2000177 Chromium Next GEM Single Cell 3’ GEM, Library & Gel Bead Kit v3.1 10x Genomics Cat# PN-1000121 Countess Cell Counting Chamber Slides Thermo Fisher Scientific Cat# C10228 Countess II FL Automated Cell Counter Thermo Fisher Scientific Cat# AMQAX1000 Cryostat CM 1860 Leica Cat# 14-0491-46884 EasySep Dead Cell Removal (Annexin V) Kit STEMCELL Technologies Cat# 17899 Keyence BZ-X710 Keyence Unavailable Liver Dissociation Kit Miltenyi Biotec Cat# 130-105-807 Low Retention Pipette Tips USA Scientific Cat# 1183-1710 Lysing Matrix D tube MP Cat# 6913500 MACSQuant Analyzer 10 Miltenyi Biotec Cat#130-096-343 Magnetic Induction Cycler (MIC) machine Bio Molecular Systems Cat# MIC-2 PTFE-coated microtome blades Duraedge Cat# 7223 Qubit ® 3.0 Fluorometer Thermo Fisher Scientific Cat# Q33216 RNAscope TM Multiplex Fluorescent Reagent Kit v2 With Sample Preparation and Pretreatment User Guide Advanced Cell Diagnostics UM323100 SensiFAST SYBR ® No-ROX Kit Bioline Cat# BIO-98020 Stellaris 5 Confocal Microscope Leica NA Superfrost Plus Micro Slides VWR Cat# 48311-703 Thermal cycler C1000 Bio-Rad Cat# 1851196 Open in a separate window Key resource table .. Some panels were made with BioRender.com .

    Cell Counting:

    Article Title: Widespread sex dimorphism across single-cell transcriptomes of adult African turquoise killifish tissues.
    Article Snippet: 23959335.v1 Experimental models: Organisms/strains Nothobranchius furzeri, GRZ strain Benayoun Lab Colony N/A Nothobranchius furzeri, ZMZ-1001 strain Benayoun Lab Colony (gift from D. Valenzano) N/A Oligonucleotides Primers for RT-qPCR Table S10 N/A Software and algorithms Code for this study (v1.0.0) This study https://github.com/BBenayounLaborator/ Killifish_Cell_Atlas [https://doi.org/10.5281/ zenodo.8335879] Augur v1.0.3 Squair et al.52 https://github.com/AugurProject/augur CellAssign v0.99.21 Zhang et al.79 https://github.com/Irrationone/cellassign Clusterprofiler v3.14.3 Yu et al.80 https://github.com/YuLab-SMU/ clusterProfiler CSCDRNA v1.0.3 Karimnezhad et al.71 https://cran.r-project.org/web/packages/ CSCDRNA/CSCDRNA.pdf DESeq2 v1.26.0 Love et al.58 https://github.com/mikelove/DESeq2 Doubletfinder v2.0.3 McGinnis et al.81 https://github.com/chris-mcginnis-ucsf/ DoubletFinder edgeR v3.36.0 Robinson et al.60 https://bioconductor.org/packages/ release/bioc/html/edgeR.html FASTP v0.23.2 Chen et al.82 https://github.com/OpenGene/fastp featureCounts v2.0.4 Liao et al.83 https://github.com/byee4/featureCounts Flowlogic v8 Miltenyi Biotec Cat#160-002-087 ImageJ v1.54d Schneider et al.84 https://imagej.nih.gov/ij/download.html Leica Application Suite X v4.4.0 Leica https://www.leica-microsystems.com/ products/microscope-software/p/leicalas-x-ls/downloads/ micPCR v2.12.7 Biomolecular Systems https://biomolecularsystems.com/mic- qpcr/software/ muscat v1.0.1 Crowell et al.57 https://github.com/HelenaLC/muscat python v3.8.12 N/A https://www.python.org/downloads/ release/python-3812/ QuPath v0.4.3 Bankhead et al.51 https://qupath.github.io/ R 3.6.3, 4.1.2 and 4.2.2 Team, R.C.85 https://cran.r-project.org RUVSeq v1.20.0 Risso et al.86 https://github.com/drisso/RUVSeq scds v1.2.0 Bais et al.87 https://github.com/kostkalab/scds scProportionTest v0.0.0.9000 Miller et al.54 https://github.com/rpolicastro/ scProportionTest scSorter v0.0.2 Guo et al.88 https://github.com/cran/scSorter SCTransform v0.3.2 Hafemeister et al.89 https://github.com/satijalab/sctransform scType 1.0 Ianevski et al.90 https://github.com/IanevskiAleksandr/ sc-type scvelo v0.2.5 Bergen et al.91 https://github.com/theislab/scvelo Seurat v3.2.2 Satija et al., Butler et al., Stuart et al., Hao et al.92–95 https://github.com/satijalab/seurat/ releases/tag/v3.2.2 (Continued on next page) Cell Reports 42, 113237, October 31, 2023 19 .. REAGENT or RESOURCE SOURCE IDENTIFIER SingleCellNet v0.1.0 Tan et al.96 https://github.com/pcahan1/ singleCellNet velocyto v0.17.17 La Manno et al.44 https://github.com/velocyto-team/ velocyto.py Other 10x Genomics User Guide Chromium Next GEM Single-cell 30 Reagent Kits v3.1 10x Genomics Cat# CG000204, Rev D 4200 TapeStation system Agilent Technologies Cat# G2991A 5424R Microcentrifuge Eppendorf Cat# 05-401-203 63x/1.4 Plan ApoChromat Oil DIC M27 Objective Zeiss Cat# 420782-9900-000 Beadbug 6 microtube homogenizer Benchmark Scientific Cat# D1036 Chromium Next GEM Chip G 10x Genomics Cat# 2000177 Chromium Next GEM Single Cell 3ʹ GEM, Library & Gel Bead Kit v3.1 10x Genomics Cat# PN-1000121 Countess Cell Counting Chamber Slides Thermo Fisher Scientific Cat# C10228 Countess II FL Automated Cell Counter Thermo Fisher Scientific Cat# AMQAX1000 Cryostat CM1860 Leica Cat# 14-0491-46884 EasySep Dead Cell Removal (Annexin V) Kit STEMCELL Technologies Cat# 17899 Keyence BZ-X710 Keyence Unavailable Liver Dissociation Kit Miltenyi Biotec Cat# 130-105-807 Low Retention Pipette Tips USA Scientific Cat# 1183-1710 Lysing Matrix D tube MP Cat# 6913500 MACSQuant Analyzer 10 Miltenyi Biotec Cat#130-096-343 Magnetic Induction Cycler (MIC) machine Bio Molecular Systems Cat# MIC-2 PTFE-coated microtome blades Duraedge Cat# 7223 Qubit 3.0 Fluorometer Thermo Fisher Scientific Cat# Q33216 RNAscopeTM Multiplex Fluorescent Reagent Kit v2 With Sample Preparation and Pretreatment User Guide Advanced Cell Diagnostics UM323100 SensiFAST SYBR No-ROX Kit Bioline Cat# BIO-98020 Stellaris 5 Confocal Microscope Leica NA Superfrost Plus Micro Slides VWR Cat# 48311-703 Thermal cycler C1000 Bio-Rad Cat# 1851196 ..

    Article Title: Widespread sex-dimorphism across single-cell transcriptomes of adult African turquoise killifish tissues
    Article Snippet: .. 85 https://cran.r-project.org RUVSeq v1.20.0 Risso et al 86 https://github.com/drisso/RUVSeq scds v1.2.0 Bais et al 87 https://github.com/kostkalab/scds scProportionTest v0.0.0.9000 Miller et al 54 https://github.com/rpolicastro/scProportionTest scSorter v0.0.2 Guo et al 88 https://github.com/cran/scSorter SCTransform v0.3.2 Hafemeister et al 89 https://github.com/satijalab/sctransform scType 1.0 Ianevski et al 90 https://github.com/IanevskiAleksandr/sc-type scvelo v0.2.5 Bergen et al 91 https://github.com/theislab/scvelo Seurat v3.2.2 Satija et al, Butler et al, Stuart et al, Hao et al 92 – 95 https://github.com/satijalab/seurat/releases/tag/v3.2.2 SingleCellNet v0.1.0 Tan et al 96 https://github.com/pcahan1/singleCellNet velocyto v0.17.17 La Manno et al 44 https://github.com/velocyto-team/velocyto.py Other 10x Genomics User Guide Chromium Next GEM Single-cell 3′ Reagent Kits v3.1 10x Genomics Cat# CG000204 , Rev D 4200 TapeStation system Agilent Technologies Cat# G2991A 5424R Microcentrifuge Eppendorf Cat# 05-401-203 63x/1.4 Plan ApoChromat Oil DIC M27 Objective Zeiss Cat# 420782-9900-000 Beadbug 6 microtube homogenizer Benchmark Scientific Cat# D1036 Chromium Next GEM Chip G 10x Genomics Cat# 2000177 Chromium Next GEM Single Cell 3’ GEM, Library & Gel Bead Kit v3.1 10x Genomics Cat# PN-1000121 Countess Cell Counting Chamber Slides Thermo Fisher Scientific Cat# C10228 Countess II FL Automated Cell Counter Thermo Fisher Scientific Cat# AMQAX1000 Cryostat CM 1860 Leica Cat# 14-0491-46884 EasySep Dead Cell Removal (Annexin V) Kit STEMCELL Technologies Cat# 17899 Keyence BZ-X710 Keyence Unavailable Liver Dissociation Kit Miltenyi Biotec Cat# 130-105-807 Low Retention Pipette Tips USA Scientific Cat# 1183-1710 Lysing Matrix D tube MP Cat# 6913500 MACSQuant Analyzer 10 Miltenyi Biotec Cat#130-096-343 Magnetic Induction Cycler (MIC) machine Bio Molecular Systems Cat# MIC-2 PTFE-coated microtome blades Duraedge Cat# 7223 Qubit ® 3.0 Fluorometer Thermo Fisher Scientific Cat# Q33216 RNAscope TM Multiplex Fluorescent Reagent Kit v2 With Sample Preparation and Pretreatment User Guide Advanced Cell Diagnostics UM323100 SensiFAST SYBR ® No-ROX Kit Bioline Cat# BIO-98020 Stellaris 5 Confocal Microscope Leica NA Superfrost Plus Micro Slides VWR Cat# 48311-703 Thermal cycler C1000 Bio-Rad Cat# 1851196 Open in a separate window Key resource table .. Some panels were made with BioRender.com .

    Transferring:

    Article Title: Widespread sex dimorphism across single-cell transcriptomes of adult African turquoise killifish tissues.
    Article Snippet: 23959335.v1 Experimental models: Organisms/strains Nothobranchius furzeri, GRZ strain Benayoun Lab Colony N/A Nothobranchius furzeri, ZMZ-1001 strain Benayoun Lab Colony (gift from D. Valenzano) N/A Oligonucleotides Primers for RT-qPCR Table S10 N/A Software and algorithms Code for this study (v1.0.0) This study https://github.com/BBenayounLaborator/ Killifish_Cell_Atlas [https://doi.org/10.5281/ zenodo.8335879] Augur v1.0.3 Squair et al.52 https://github.com/AugurProject/augur CellAssign v0.99.21 Zhang et al.79 https://github.com/Irrationone/cellassign Clusterprofiler v3.14.3 Yu et al.80 https://github.com/YuLab-SMU/ clusterProfiler CSCDRNA v1.0.3 Karimnezhad et al.71 https://cran.r-project.org/web/packages/ CSCDRNA/CSCDRNA.pdf DESeq2 v1.26.0 Love et al.58 https://github.com/mikelove/DESeq2 Doubletfinder v2.0.3 McGinnis et al.81 https://github.com/chris-mcginnis-ucsf/ DoubletFinder edgeR v3.36.0 Robinson et al.60 https://bioconductor.org/packages/ release/bioc/html/edgeR.html FASTP v0.23.2 Chen et al.82 https://github.com/OpenGene/fastp featureCounts v2.0.4 Liao et al.83 https://github.com/byee4/featureCounts Flowlogic v8 Miltenyi Biotec Cat#160-002-087 ImageJ v1.54d Schneider et al.84 https://imagej.nih.gov/ij/download.html Leica Application Suite X v4.4.0 Leica https://www.leica-microsystems.com/ products/microscope-software/p/leicalas-x-ls/downloads/ micPCR v2.12.7 Biomolecular Systems https://biomolecularsystems.com/mic- qpcr/software/ muscat v1.0.1 Crowell et al.57 https://github.com/HelenaLC/muscat python v3.8.12 N/A https://www.python.org/downloads/ release/python-3812/ QuPath v0.4.3 Bankhead et al.51 https://qupath.github.io/ R 3.6.3, 4.1.2 and 4.2.2 Team, R.C.85 https://cran.r-project.org RUVSeq v1.20.0 Risso et al.86 https://github.com/drisso/RUVSeq scds v1.2.0 Bais et al.87 https://github.com/kostkalab/scds scProportionTest v0.0.0.9000 Miller et al.54 https://github.com/rpolicastro/ scProportionTest scSorter v0.0.2 Guo et al.88 https://github.com/cran/scSorter SCTransform v0.3.2 Hafemeister et al.89 https://github.com/satijalab/sctransform scType 1.0 Ianevski et al.90 https://github.com/IanevskiAleksandr/ sc-type scvelo v0.2.5 Bergen et al.91 https://github.com/theislab/scvelo Seurat v3.2.2 Satija et al., Butler et al., Stuart et al., Hao et al.92–95 https://github.com/satijalab/seurat/ releases/tag/v3.2.2 (Continued on next page) Cell Reports 42, 113237, October 31, 2023 19 .. REAGENT or RESOURCE SOURCE IDENTIFIER SingleCellNet v0.1.0 Tan et al.96 https://github.com/pcahan1/ singleCellNet velocyto v0.17.17 La Manno et al.44 https://github.com/velocyto-team/ velocyto.py Other 10x Genomics User Guide Chromium Next GEM Single-cell 30 Reagent Kits v3.1 10x Genomics Cat# CG000204, Rev D 4200 TapeStation system Agilent Technologies Cat# G2991A 5424R Microcentrifuge Eppendorf Cat# 05-401-203 63x/1.4 Plan ApoChromat Oil DIC M27 Objective Zeiss Cat# 420782-9900-000 Beadbug 6 microtube homogenizer Benchmark Scientific Cat# D1036 Chromium Next GEM Chip G 10x Genomics Cat# 2000177 Chromium Next GEM Single Cell 3ʹ GEM, Library & Gel Bead Kit v3.1 10x Genomics Cat# PN-1000121 Countess Cell Counting Chamber Slides Thermo Fisher Scientific Cat# C10228 Countess II FL Automated Cell Counter Thermo Fisher Scientific Cat# AMQAX1000 Cryostat CM1860 Leica Cat# 14-0491-46884 EasySep Dead Cell Removal (Annexin V) Kit STEMCELL Technologies Cat# 17899 Keyence BZ-X710 Keyence Unavailable Liver Dissociation Kit Miltenyi Biotec Cat# 130-105-807 Low Retention Pipette Tips USA Scientific Cat# 1183-1710 Lysing Matrix D tube MP Cat# 6913500 MACSQuant Analyzer 10 Miltenyi Biotec Cat#130-096-343 Magnetic Induction Cycler (MIC) machine Bio Molecular Systems Cat# MIC-2 PTFE-coated microtome blades Duraedge Cat# 7223 Qubit 3.0 Fluorometer Thermo Fisher Scientific Cat# Q33216 RNAscopeTM Multiplex Fluorescent Reagent Kit v2 With Sample Preparation and Pretreatment User Guide Advanced Cell Diagnostics UM323100 SensiFAST SYBR No-ROX Kit Bioline Cat# BIO-98020 Stellaris 5 Confocal Microscope Leica NA Superfrost Plus Micro Slides VWR Cat# 48311-703 Thermal cycler C1000 Bio-Rad Cat# 1851196 ..

    Article Title: Widespread sex-dimorphism across single-cell transcriptomes of adult African turquoise killifish tissues
    Article Snippet: .. 85 https://cran.r-project.org RUVSeq v1.20.0 Risso et al 86 https://github.com/drisso/RUVSeq scds v1.2.0 Bais et al 87 https://github.com/kostkalab/scds scProportionTest v0.0.0.9000 Miller et al 54 https://github.com/rpolicastro/scProportionTest scSorter v0.0.2 Guo et al 88 https://github.com/cran/scSorter SCTransform v0.3.2 Hafemeister et al 89 https://github.com/satijalab/sctransform scType 1.0 Ianevski et al 90 https://github.com/IanevskiAleksandr/sc-type scvelo v0.2.5 Bergen et al 91 https://github.com/theislab/scvelo Seurat v3.2.2 Satija et al, Butler et al, Stuart et al, Hao et al 92 – 95 https://github.com/satijalab/seurat/releases/tag/v3.2.2 SingleCellNet v0.1.0 Tan et al 96 https://github.com/pcahan1/singleCellNet velocyto v0.17.17 La Manno et al 44 https://github.com/velocyto-team/velocyto.py Other 10x Genomics User Guide Chromium Next GEM Single-cell 3′ Reagent Kits v3.1 10x Genomics Cat# CG000204 , Rev D 4200 TapeStation system Agilent Technologies Cat# G2991A 5424R Microcentrifuge Eppendorf Cat# 05-401-203 63x/1.4 Plan ApoChromat Oil DIC M27 Objective Zeiss Cat# 420782-9900-000 Beadbug 6 microtube homogenizer Benchmark Scientific Cat# D1036 Chromium Next GEM Chip G 10x Genomics Cat# 2000177 Chromium Next GEM Single Cell 3’ GEM, Library & Gel Bead Kit v3.1 10x Genomics Cat# PN-1000121 Countess Cell Counting Chamber Slides Thermo Fisher Scientific Cat# C10228 Countess II FL Automated Cell Counter Thermo Fisher Scientific Cat# AMQAX1000 Cryostat CM 1860 Leica Cat# 14-0491-46884 EasySep Dead Cell Removal (Annexin V) Kit STEMCELL Technologies Cat# 17899 Keyence BZ-X710 Keyence Unavailable Liver Dissociation Kit Miltenyi Biotec Cat# 130-105-807 Low Retention Pipette Tips USA Scientific Cat# 1183-1710 Lysing Matrix D tube MP Cat# 6913500 MACSQuant Analyzer 10 Miltenyi Biotec Cat#130-096-343 Magnetic Induction Cycler (MIC) machine Bio Molecular Systems Cat# MIC-2 PTFE-coated microtome blades Duraedge Cat# 7223 Qubit ® 3.0 Fluorometer Thermo Fisher Scientific Cat# Q33216 RNAscope TM Multiplex Fluorescent Reagent Kit v2 With Sample Preparation and Pretreatment User Guide Advanced Cell Diagnostics UM323100 SensiFAST SYBR ® No-ROX Kit Bioline Cat# BIO-98020 Stellaris 5 Confocal Microscope Leica NA Superfrost Plus Micro Slides VWR Cat# 48311-703 Thermal cycler C1000 Bio-Rad Cat# 1851196 Open in a separate window Key resource table .. Some panels were made with BioRender.com .

    Multiplex Assay:

    Article Title: Widespread sex dimorphism across single-cell transcriptomes of adult African turquoise killifish tissues.
    Article Snippet: 23959335.v1 Experimental models: Organisms/strains Nothobranchius furzeri, GRZ strain Benayoun Lab Colony N/A Nothobranchius furzeri, ZMZ-1001 strain Benayoun Lab Colony (gift from D. Valenzano) N/A Oligonucleotides Primers for RT-qPCR Table S10 N/A Software and algorithms Code for this study (v1.0.0) This study https://github.com/BBenayounLaborator/ Killifish_Cell_Atlas [https://doi.org/10.5281/ zenodo.8335879] Augur v1.0.3 Squair et al.52 https://github.com/AugurProject/augur CellAssign v0.99.21 Zhang et al.79 https://github.com/Irrationone/cellassign Clusterprofiler v3.14.3 Yu et al.80 https://github.com/YuLab-SMU/ clusterProfiler CSCDRNA v1.0.3 Karimnezhad et al.71 https://cran.r-project.org/web/packages/ CSCDRNA/CSCDRNA.pdf DESeq2 v1.26.0 Love et al.58 https://github.com/mikelove/DESeq2 Doubletfinder v2.0.3 McGinnis et al.81 https://github.com/chris-mcginnis-ucsf/ DoubletFinder edgeR v3.36.0 Robinson et al.60 https://bioconductor.org/packages/ release/bioc/html/edgeR.html FASTP v0.23.2 Chen et al.82 https://github.com/OpenGene/fastp featureCounts v2.0.4 Liao et al.83 https://github.com/byee4/featureCounts Flowlogic v8 Miltenyi Biotec Cat#160-002-087 ImageJ v1.54d Schneider et al.84 https://imagej.nih.gov/ij/download.html Leica Application Suite X v4.4.0 Leica https://www.leica-microsystems.com/ products/microscope-software/p/leicalas-x-ls/downloads/ micPCR v2.12.7 Biomolecular Systems https://biomolecularsystems.com/mic- qpcr/software/ muscat v1.0.1 Crowell et al.57 https://github.com/HelenaLC/muscat python v3.8.12 N/A https://www.python.org/downloads/ release/python-3812/ QuPath v0.4.3 Bankhead et al.51 https://qupath.github.io/ R 3.6.3, 4.1.2 and 4.2.2 Team, R.C.85 https://cran.r-project.org RUVSeq v1.20.0 Risso et al.86 https://github.com/drisso/RUVSeq scds v1.2.0 Bais et al.87 https://github.com/kostkalab/scds scProportionTest v0.0.0.9000 Miller et al.54 https://github.com/rpolicastro/ scProportionTest scSorter v0.0.2 Guo et al.88 https://github.com/cran/scSorter SCTransform v0.3.2 Hafemeister et al.89 https://github.com/satijalab/sctransform scType 1.0 Ianevski et al.90 https://github.com/IanevskiAleksandr/ sc-type scvelo v0.2.5 Bergen et al.91 https://github.com/theislab/scvelo Seurat v3.2.2 Satija et al., Butler et al., Stuart et al., Hao et al.92–95 https://github.com/satijalab/seurat/ releases/tag/v3.2.2 (Continued on next page) Cell Reports 42, 113237, October 31, 2023 19 .. REAGENT or RESOURCE SOURCE IDENTIFIER SingleCellNet v0.1.0 Tan et al.96 https://github.com/pcahan1/ singleCellNet velocyto v0.17.17 La Manno et al.44 https://github.com/velocyto-team/ velocyto.py Other 10x Genomics User Guide Chromium Next GEM Single-cell 30 Reagent Kits v3.1 10x Genomics Cat# CG000204, Rev D 4200 TapeStation system Agilent Technologies Cat# G2991A 5424R Microcentrifuge Eppendorf Cat# 05-401-203 63x/1.4 Plan ApoChromat Oil DIC M27 Objective Zeiss Cat# 420782-9900-000 Beadbug 6 microtube homogenizer Benchmark Scientific Cat# D1036 Chromium Next GEM Chip G 10x Genomics Cat# 2000177 Chromium Next GEM Single Cell 3ʹ GEM, Library & Gel Bead Kit v3.1 10x Genomics Cat# PN-1000121 Countess Cell Counting Chamber Slides Thermo Fisher Scientific Cat# C10228 Countess II FL Automated Cell Counter Thermo Fisher Scientific Cat# AMQAX1000 Cryostat CM1860 Leica Cat# 14-0491-46884 EasySep Dead Cell Removal (Annexin V) Kit STEMCELL Technologies Cat# 17899 Keyence BZ-X710 Keyence Unavailable Liver Dissociation Kit Miltenyi Biotec Cat# 130-105-807 Low Retention Pipette Tips USA Scientific Cat# 1183-1710 Lysing Matrix D tube MP Cat# 6913500 MACSQuant Analyzer 10 Miltenyi Biotec Cat#130-096-343 Magnetic Induction Cycler (MIC) machine Bio Molecular Systems Cat# MIC-2 PTFE-coated microtome blades Duraedge Cat# 7223 Qubit 3.0 Fluorometer Thermo Fisher Scientific Cat# Q33216 RNAscopeTM Multiplex Fluorescent Reagent Kit v2 With Sample Preparation and Pretreatment User Guide Advanced Cell Diagnostics UM323100 SensiFAST SYBR No-ROX Kit Bioline Cat# BIO-98020 Stellaris 5 Confocal Microscope Leica NA Superfrost Plus Micro Slides VWR Cat# 48311-703 Thermal cycler C1000 Bio-Rad Cat# 1851196 ..

    Article Title: Widespread sex-dimorphism across single-cell transcriptomes of adult African turquoise killifish tissues
    Article Snippet: .. 85 https://cran.r-project.org RUVSeq v1.20.0 Risso et al 86 https://github.com/drisso/RUVSeq scds v1.2.0 Bais et al 87 https://github.com/kostkalab/scds scProportionTest v0.0.0.9000 Miller et al 54 https://github.com/rpolicastro/scProportionTest scSorter v0.0.2 Guo et al 88 https://github.com/cran/scSorter SCTransform v0.3.2 Hafemeister et al 89 https://github.com/satijalab/sctransform scType 1.0 Ianevski et al 90 https://github.com/IanevskiAleksandr/sc-type scvelo v0.2.5 Bergen et al 91 https://github.com/theislab/scvelo Seurat v3.2.2 Satija et al, Butler et al, Stuart et al, Hao et al 92 – 95 https://github.com/satijalab/seurat/releases/tag/v3.2.2 SingleCellNet v0.1.0 Tan et al 96 https://github.com/pcahan1/singleCellNet velocyto v0.17.17 La Manno et al 44 https://github.com/velocyto-team/velocyto.py Other 10x Genomics User Guide Chromium Next GEM Single-cell 3′ Reagent Kits v3.1 10x Genomics Cat# CG000204 , Rev D 4200 TapeStation system Agilent Technologies Cat# G2991A 5424R Microcentrifuge Eppendorf Cat# 05-401-203 63x/1.4 Plan ApoChromat Oil DIC M27 Objective Zeiss Cat# 420782-9900-000 Beadbug 6 microtube homogenizer Benchmark Scientific Cat# D1036 Chromium Next GEM Chip G 10x Genomics Cat# 2000177 Chromium Next GEM Single Cell 3’ GEM, Library & Gel Bead Kit v3.1 10x Genomics Cat# PN-1000121 Countess Cell Counting Chamber Slides Thermo Fisher Scientific Cat# C10228 Countess II FL Automated Cell Counter Thermo Fisher Scientific Cat# AMQAX1000 Cryostat CM 1860 Leica Cat# 14-0491-46884 EasySep Dead Cell Removal (Annexin V) Kit STEMCELL Technologies Cat# 17899 Keyence BZ-X710 Keyence Unavailable Liver Dissociation Kit Miltenyi Biotec Cat# 130-105-807 Low Retention Pipette Tips USA Scientific Cat# 1183-1710 Lysing Matrix D tube MP Cat# 6913500 MACSQuant Analyzer 10 Miltenyi Biotec Cat#130-096-343 Magnetic Induction Cycler (MIC) machine Bio Molecular Systems Cat# MIC-2 PTFE-coated microtome blades Duraedge Cat# 7223 Qubit ® 3.0 Fluorometer Thermo Fisher Scientific Cat# Q33216 RNAscope TM Multiplex Fluorescent Reagent Kit v2 With Sample Preparation and Pretreatment User Guide Advanced Cell Diagnostics UM323100 SensiFAST SYBR ® No-ROX Kit Bioline Cat# BIO-98020 Stellaris 5 Confocal Microscope Leica NA Superfrost Plus Micro Slides VWR Cat# 48311-703 Thermal cycler C1000 Bio-Rad Cat# 1851196 Open in a separate window Key resource table .. Some panels were made with BioRender.com .

    Sample Prep:

    Article Title: Widespread sex dimorphism across single-cell transcriptomes of adult African turquoise killifish tissues.
    Article Snippet: 23959335.v1 Experimental models: Organisms/strains Nothobranchius furzeri, GRZ strain Benayoun Lab Colony N/A Nothobranchius furzeri, ZMZ-1001 strain Benayoun Lab Colony (gift from D. Valenzano) N/A Oligonucleotides Primers for RT-qPCR Table S10 N/A Software and algorithms Code for this study (v1.0.0) This study https://github.com/BBenayounLaborator/ Killifish_Cell_Atlas [https://doi.org/10.5281/ zenodo.8335879] Augur v1.0.3 Squair et al.52 https://github.com/AugurProject/augur CellAssign v0.99.21 Zhang et al.79 https://github.com/Irrationone/cellassign Clusterprofiler v3.14.3 Yu et al.80 https://github.com/YuLab-SMU/ clusterProfiler CSCDRNA v1.0.3 Karimnezhad et al.71 https://cran.r-project.org/web/packages/ CSCDRNA/CSCDRNA.pdf DESeq2 v1.26.0 Love et al.58 https://github.com/mikelove/DESeq2 Doubletfinder v2.0.3 McGinnis et al.81 https://github.com/chris-mcginnis-ucsf/ DoubletFinder edgeR v3.36.0 Robinson et al.60 https://bioconductor.org/packages/ release/bioc/html/edgeR.html FASTP v0.23.2 Chen et al.82 https://github.com/OpenGene/fastp featureCounts v2.0.4 Liao et al.83 https://github.com/byee4/featureCounts Flowlogic v8 Miltenyi Biotec Cat#160-002-087 ImageJ v1.54d Schneider et al.84 https://imagej.nih.gov/ij/download.html Leica Application Suite X v4.4.0 Leica https://www.leica-microsystems.com/ products/microscope-software/p/leicalas-x-ls/downloads/ micPCR v2.12.7 Biomolecular Systems https://biomolecularsystems.com/mic- qpcr/software/ muscat v1.0.1 Crowell et al.57 https://github.com/HelenaLC/muscat python v3.8.12 N/A https://www.python.org/downloads/ release/python-3812/ QuPath v0.4.3 Bankhead et al.51 https://qupath.github.io/ R 3.6.3, 4.1.2 and 4.2.2 Team, R.C.85 https://cran.r-project.org RUVSeq v1.20.0 Risso et al.86 https://github.com/drisso/RUVSeq scds v1.2.0 Bais et al.87 https://github.com/kostkalab/scds scProportionTest v0.0.0.9000 Miller et al.54 https://github.com/rpolicastro/ scProportionTest scSorter v0.0.2 Guo et al.88 https://github.com/cran/scSorter SCTransform v0.3.2 Hafemeister et al.89 https://github.com/satijalab/sctransform scType 1.0 Ianevski et al.90 https://github.com/IanevskiAleksandr/ sc-type scvelo v0.2.5 Bergen et al.91 https://github.com/theislab/scvelo Seurat v3.2.2 Satija et al., Butler et al., Stuart et al., Hao et al.92–95 https://github.com/satijalab/seurat/ releases/tag/v3.2.2 (Continued on next page) Cell Reports 42, 113237, October 31, 2023 19 .. REAGENT or RESOURCE SOURCE IDENTIFIER SingleCellNet v0.1.0 Tan et al.96 https://github.com/pcahan1/ singleCellNet velocyto v0.17.17 La Manno et al.44 https://github.com/velocyto-team/ velocyto.py Other 10x Genomics User Guide Chromium Next GEM Single-cell 30 Reagent Kits v3.1 10x Genomics Cat# CG000204, Rev D 4200 TapeStation system Agilent Technologies Cat# G2991A 5424R Microcentrifuge Eppendorf Cat# 05-401-203 63x/1.4 Plan ApoChromat Oil DIC M27 Objective Zeiss Cat# 420782-9900-000 Beadbug 6 microtube homogenizer Benchmark Scientific Cat# D1036 Chromium Next GEM Chip G 10x Genomics Cat# 2000177 Chromium Next GEM Single Cell 3ʹ GEM, Library & Gel Bead Kit v3.1 10x Genomics Cat# PN-1000121 Countess Cell Counting Chamber Slides Thermo Fisher Scientific Cat# C10228 Countess II FL Automated Cell Counter Thermo Fisher Scientific Cat# AMQAX1000 Cryostat CM1860 Leica Cat# 14-0491-46884 EasySep Dead Cell Removal (Annexin V) Kit STEMCELL Technologies Cat# 17899 Keyence BZ-X710 Keyence Unavailable Liver Dissociation Kit Miltenyi Biotec Cat# 130-105-807 Low Retention Pipette Tips USA Scientific Cat# 1183-1710 Lysing Matrix D tube MP Cat# 6913500 MACSQuant Analyzer 10 Miltenyi Biotec Cat#130-096-343 Magnetic Induction Cycler (MIC) machine Bio Molecular Systems Cat# MIC-2 PTFE-coated microtome blades Duraedge Cat# 7223 Qubit 3.0 Fluorometer Thermo Fisher Scientific Cat# Q33216 RNAscopeTM Multiplex Fluorescent Reagent Kit v2 With Sample Preparation and Pretreatment User Guide Advanced Cell Diagnostics UM323100 SensiFAST SYBR No-ROX Kit Bioline Cat# BIO-98020 Stellaris 5 Confocal Microscope Leica NA Superfrost Plus Micro Slides VWR Cat# 48311-703 Thermal cycler C1000 Bio-Rad Cat# 1851196 ..

    Article Title: Widespread sex-dimorphism across single-cell transcriptomes of adult African turquoise killifish tissues
    Article Snippet: .. 85 https://cran.r-project.org RUVSeq v1.20.0 Risso et al 86 https://github.com/drisso/RUVSeq scds v1.2.0 Bais et al 87 https://github.com/kostkalab/scds scProportionTest v0.0.0.9000 Miller et al 54 https://github.com/rpolicastro/scProportionTest scSorter v0.0.2 Guo et al 88 https://github.com/cran/scSorter SCTransform v0.3.2 Hafemeister et al 89 https://github.com/satijalab/sctransform scType 1.0 Ianevski et al 90 https://github.com/IanevskiAleksandr/sc-type scvelo v0.2.5 Bergen et al 91 https://github.com/theislab/scvelo Seurat v3.2.2 Satija et al, Butler et al, Stuart et al, Hao et al 92 – 95 https://github.com/satijalab/seurat/releases/tag/v3.2.2 SingleCellNet v0.1.0 Tan et al 96 https://github.com/pcahan1/singleCellNet velocyto v0.17.17 La Manno et al 44 https://github.com/velocyto-team/velocyto.py Other 10x Genomics User Guide Chromium Next GEM Single-cell 3′ Reagent Kits v3.1 10x Genomics Cat# CG000204 , Rev D 4200 TapeStation system Agilent Technologies Cat# G2991A 5424R Microcentrifuge Eppendorf Cat# 05-401-203 63x/1.4 Plan ApoChromat Oil DIC M27 Objective Zeiss Cat# 420782-9900-000 Beadbug 6 microtube homogenizer Benchmark Scientific Cat# D1036 Chromium Next GEM Chip G 10x Genomics Cat# 2000177 Chromium Next GEM Single Cell 3’ GEM, Library & Gel Bead Kit v3.1 10x Genomics Cat# PN-1000121 Countess Cell Counting Chamber Slides Thermo Fisher Scientific Cat# C10228 Countess II FL Automated Cell Counter Thermo Fisher Scientific Cat# AMQAX1000 Cryostat CM 1860 Leica Cat# 14-0491-46884 EasySep Dead Cell Removal (Annexin V) Kit STEMCELL Technologies Cat# 17899 Keyence BZ-X710 Keyence Unavailable Liver Dissociation Kit Miltenyi Biotec Cat# 130-105-807 Low Retention Pipette Tips USA Scientific Cat# 1183-1710 Lysing Matrix D tube MP Cat# 6913500 MACSQuant Analyzer 10 Miltenyi Biotec Cat#130-096-343 Magnetic Induction Cycler (MIC) machine Bio Molecular Systems Cat# MIC-2 PTFE-coated microtome blades Duraedge Cat# 7223 Qubit ® 3.0 Fluorometer Thermo Fisher Scientific Cat# Q33216 RNAscope TM Multiplex Fluorescent Reagent Kit v2 With Sample Preparation and Pretreatment User Guide Advanced Cell Diagnostics UM323100 SensiFAST SYBR ® No-ROX Kit Bioline Cat# BIO-98020 Stellaris 5 Confocal Microscope Leica NA Superfrost Plus Micro Slides VWR Cat# 48311-703 Thermal cycler C1000 Bio-Rad Cat# 1851196 Open in a separate window Key resource table .. Some panels were made with BioRender.com .

    Microscopy:

    Article Title: Widespread sex dimorphism across single-cell transcriptomes of adult African turquoise killifish tissues.
    Article Snippet: 23959335.v1 Experimental models: Organisms/strains Nothobranchius furzeri, GRZ strain Benayoun Lab Colony N/A Nothobranchius furzeri, ZMZ-1001 strain Benayoun Lab Colony (gift from D. Valenzano) N/A Oligonucleotides Primers for RT-qPCR Table S10 N/A Software and algorithms Code for this study (v1.0.0) This study https://github.com/BBenayounLaborator/ Killifish_Cell_Atlas [https://doi.org/10.5281/ zenodo.8335879] Augur v1.0.3 Squair et al.52 https://github.com/AugurProject/augur CellAssign v0.99.21 Zhang et al.79 https://github.com/Irrationone/cellassign Clusterprofiler v3.14.3 Yu et al.80 https://github.com/YuLab-SMU/ clusterProfiler CSCDRNA v1.0.3 Karimnezhad et al.71 https://cran.r-project.org/web/packages/ CSCDRNA/CSCDRNA.pdf DESeq2 v1.26.0 Love et al.58 https://github.com/mikelove/DESeq2 Doubletfinder v2.0.3 McGinnis et al.81 https://github.com/chris-mcginnis-ucsf/ DoubletFinder edgeR v3.36.0 Robinson et al.60 https://bioconductor.org/packages/ release/bioc/html/edgeR.html FASTP v0.23.2 Chen et al.82 https://github.com/OpenGene/fastp featureCounts v2.0.4 Liao et al.83 https://github.com/byee4/featureCounts Flowlogic v8 Miltenyi Biotec Cat#160-002-087 ImageJ v1.54d Schneider et al.84 https://imagej.nih.gov/ij/download.html Leica Application Suite X v4.4.0 Leica https://www.leica-microsystems.com/ products/microscope-software/p/leicalas-x-ls/downloads/ micPCR v2.12.7 Biomolecular Systems https://biomolecularsystems.com/mic- qpcr/software/ muscat v1.0.1 Crowell et al.57 https://github.com/HelenaLC/muscat python v3.8.12 N/A https://www.python.org/downloads/ release/python-3812/ QuPath v0.4.3 Bankhead et al.51 https://qupath.github.io/ R 3.6.3, 4.1.2 and 4.2.2 Team, R.C.85 https://cran.r-project.org RUVSeq v1.20.0 Risso et al.86 https://github.com/drisso/RUVSeq scds v1.2.0 Bais et al.87 https://github.com/kostkalab/scds scProportionTest v0.0.0.9000 Miller et al.54 https://github.com/rpolicastro/ scProportionTest scSorter v0.0.2 Guo et al.88 https://github.com/cran/scSorter SCTransform v0.3.2 Hafemeister et al.89 https://github.com/satijalab/sctransform scType 1.0 Ianevski et al.90 https://github.com/IanevskiAleksandr/ sc-type scvelo v0.2.5 Bergen et al.91 https://github.com/theislab/scvelo Seurat v3.2.2 Satija et al., Butler et al., Stuart et al., Hao et al.92–95 https://github.com/satijalab/seurat/ releases/tag/v3.2.2 (Continued on next page) Cell Reports 42, 113237, October 31, 2023 19 .. REAGENT or RESOURCE SOURCE IDENTIFIER SingleCellNet v0.1.0 Tan et al.96 https://github.com/pcahan1/ singleCellNet velocyto v0.17.17 La Manno et al.44 https://github.com/velocyto-team/ velocyto.py Other 10x Genomics User Guide Chromium Next GEM Single-cell 30 Reagent Kits v3.1 10x Genomics Cat# CG000204, Rev D 4200 TapeStation system Agilent Technologies Cat# G2991A 5424R Microcentrifuge Eppendorf Cat# 05-401-203 63x/1.4 Plan ApoChromat Oil DIC M27 Objective Zeiss Cat# 420782-9900-000 Beadbug 6 microtube homogenizer Benchmark Scientific Cat# D1036 Chromium Next GEM Chip G 10x Genomics Cat# 2000177 Chromium Next GEM Single Cell 3ʹ GEM, Library & Gel Bead Kit v3.1 10x Genomics Cat# PN-1000121 Countess Cell Counting Chamber Slides Thermo Fisher Scientific Cat# C10228 Countess II FL Automated Cell Counter Thermo Fisher Scientific Cat# AMQAX1000 Cryostat CM1860 Leica Cat# 14-0491-46884 EasySep Dead Cell Removal (Annexin V) Kit STEMCELL Technologies Cat# 17899 Keyence BZ-X710 Keyence Unavailable Liver Dissociation Kit Miltenyi Biotec Cat# 130-105-807 Low Retention Pipette Tips USA Scientific Cat# 1183-1710 Lysing Matrix D tube MP Cat# 6913500 MACSQuant Analyzer 10 Miltenyi Biotec Cat#130-096-343 Magnetic Induction Cycler (MIC) machine Bio Molecular Systems Cat# MIC-2 PTFE-coated microtome blades Duraedge Cat# 7223 Qubit 3.0 Fluorometer Thermo Fisher Scientific Cat# Q33216 RNAscopeTM Multiplex Fluorescent Reagent Kit v2 With Sample Preparation and Pretreatment User Guide Advanced Cell Diagnostics UM323100 SensiFAST SYBR No-ROX Kit Bioline Cat# BIO-98020 Stellaris 5 Confocal Microscope Leica NA Superfrost Plus Micro Slides VWR Cat# 48311-703 Thermal cycler C1000 Bio-Rad Cat# 1851196 ..

    Article Title: Widespread sex-dimorphism across single-cell transcriptomes of adult African turquoise killifish tissues
    Article Snippet: .. 85 https://cran.r-project.org RUVSeq v1.20.0 Risso et al 86 https://github.com/drisso/RUVSeq scds v1.2.0 Bais et al 87 https://github.com/kostkalab/scds scProportionTest v0.0.0.9000 Miller et al 54 https://github.com/rpolicastro/scProportionTest scSorter v0.0.2 Guo et al 88 https://github.com/cran/scSorter SCTransform v0.3.2 Hafemeister et al 89 https://github.com/satijalab/sctransform scType 1.0 Ianevski et al 90 https://github.com/IanevskiAleksandr/sc-type scvelo v0.2.5 Bergen et al 91 https://github.com/theislab/scvelo Seurat v3.2.2 Satija et al, Butler et al, Stuart et al, Hao et al 92 – 95 https://github.com/satijalab/seurat/releases/tag/v3.2.2 SingleCellNet v0.1.0 Tan et al 96 https://github.com/pcahan1/singleCellNet velocyto v0.17.17 La Manno et al 44 https://github.com/velocyto-team/velocyto.py Other 10x Genomics User Guide Chromium Next GEM Single-cell 3′ Reagent Kits v3.1 10x Genomics Cat# CG000204 , Rev D 4200 TapeStation system Agilent Technologies Cat# G2991A 5424R Microcentrifuge Eppendorf Cat# 05-401-203 63x/1.4 Plan ApoChromat Oil DIC M27 Objective Zeiss Cat# 420782-9900-000 Beadbug 6 microtube homogenizer Benchmark Scientific Cat# D1036 Chromium Next GEM Chip G 10x Genomics Cat# 2000177 Chromium Next GEM Single Cell 3’ GEM, Library & Gel Bead Kit v3.1 10x Genomics Cat# PN-1000121 Countess Cell Counting Chamber Slides Thermo Fisher Scientific Cat# C10228 Countess II FL Automated Cell Counter Thermo Fisher Scientific Cat# AMQAX1000 Cryostat CM 1860 Leica Cat# 14-0491-46884 EasySep Dead Cell Removal (Annexin V) Kit STEMCELL Technologies Cat# 17899 Keyence BZ-X710 Keyence Unavailable Liver Dissociation Kit Miltenyi Biotec Cat# 130-105-807 Low Retention Pipette Tips USA Scientific Cat# 1183-1710 Lysing Matrix D tube MP Cat# 6913500 MACSQuant Analyzer 10 Miltenyi Biotec Cat#130-096-343 Magnetic Induction Cycler (MIC) machine Bio Molecular Systems Cat# MIC-2 PTFE-coated microtome blades Duraedge Cat# 7223 Qubit ® 3.0 Fluorometer Thermo Fisher Scientific Cat# Q33216 RNAscope TM Multiplex Fluorescent Reagent Kit v2 With Sample Preparation and Pretreatment User Guide Advanced Cell Diagnostics UM323100 SensiFAST SYBR ® No-ROX Kit Bioline Cat# BIO-98020 Stellaris 5 Confocal Microscope Leica NA Superfrost Plus Micro Slides VWR Cat# 48311-703 Thermal cycler C1000 Bio-Rad Cat# 1851196 Open in a separate window Key resource table .. Some panels were made with BioRender.com .

    RNAscope:

    Article Title: Widespread sex-dimorphism across single-cell transcriptomes of adult African turquoise killifish tissues
    Article Snippet: .. 85 https://cran.r-project.org RUVSeq v1.20.0 Risso et al 86 https://github.com/drisso/RUVSeq scds v1.2.0 Bais et al 87 https://github.com/kostkalab/scds scProportionTest v0.0.0.9000 Miller et al 54 https://github.com/rpolicastro/scProportionTest scSorter v0.0.2 Guo et al 88 https://github.com/cran/scSorter SCTransform v0.3.2 Hafemeister et al 89 https://github.com/satijalab/sctransform scType 1.0 Ianevski et al 90 https://github.com/IanevskiAleksandr/sc-type scvelo v0.2.5 Bergen et al 91 https://github.com/theislab/scvelo Seurat v3.2.2 Satija et al, Butler et al, Stuart et al, Hao et al 92 – 95 https://github.com/satijalab/seurat/releases/tag/v3.2.2 SingleCellNet v0.1.0 Tan et al 96 https://github.com/pcahan1/singleCellNet velocyto v0.17.17 La Manno et al 44 https://github.com/velocyto-team/velocyto.py Other 10x Genomics User Guide Chromium Next GEM Single-cell 3′ Reagent Kits v3.1 10x Genomics Cat# CG000204 , Rev D 4200 TapeStation system Agilent Technologies Cat# G2991A 5424R Microcentrifuge Eppendorf Cat# 05-401-203 63x/1.4 Plan ApoChromat Oil DIC M27 Objective Zeiss Cat# 420782-9900-000 Beadbug 6 microtube homogenizer Benchmark Scientific Cat# D1036 Chromium Next GEM Chip G 10x Genomics Cat# 2000177 Chromium Next GEM Single Cell 3’ GEM, Library & Gel Bead Kit v3.1 10x Genomics Cat# PN-1000121 Countess Cell Counting Chamber Slides Thermo Fisher Scientific Cat# C10228 Countess II FL Automated Cell Counter Thermo Fisher Scientific Cat# AMQAX1000 Cryostat CM 1860 Leica Cat# 14-0491-46884 EasySep Dead Cell Removal (Annexin V) Kit STEMCELL Technologies Cat# 17899 Keyence BZ-X710 Keyence Unavailable Liver Dissociation Kit Miltenyi Biotec Cat# 130-105-807 Low Retention Pipette Tips USA Scientific Cat# 1183-1710 Lysing Matrix D tube MP Cat# 6913500 MACSQuant Analyzer 10 Miltenyi Biotec Cat#130-096-343 Magnetic Induction Cycler (MIC) machine Bio Molecular Systems Cat# MIC-2 PTFE-coated microtome blades Duraedge Cat# 7223 Qubit ® 3.0 Fluorometer Thermo Fisher Scientific Cat# Q33216 RNAscope TM Multiplex Fluorescent Reagent Kit v2 With Sample Preparation and Pretreatment User Guide Advanced Cell Diagnostics UM323100 SensiFAST SYBR ® No-ROX Kit Bioline Cat# BIO-98020 Stellaris 5 Confocal Microscope Leica NA Superfrost Plus Micro Slides VWR Cat# 48311-703 Thermal cycler C1000 Bio-Rad Cat# 1851196 Open in a separate window Key resource table .. Some panels were made with BioRender.com .



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