Review



algorithms imagej fiji schneider  (Nikon)


Bioz Verified Symbol Nikon is a verified supplier  
  • Logo
  • About
  • News
  • Press Release
  • Team
  • Advisors
  • Partners
  • Contact
  • Bioz Stars
  • Bioz vStars
    • 99
      Buy from Supplier

    Structured Review

    Nikon algorithms imagej fiji schneider
    Algorithms Imagej Fiji Schneider, supplied by Nikon, used in various techniques. Bioz Stars score: 99/100, based on 39904 PubMed citations. ZERO BIAS - scores, article reviews, protocol conditions and more
    https://www.bioz.com/product/algorithms+imagej+fiji+schneider/NIS-Elements/pm41385382-60-8-17
    Average 99 stars, based on 39904 article reviews
    algorithms imagej fiji schneider - by Bioz Stars, 2026-10
    99/100 stars

    Images

    Related Articles

    Recombinant:

    Article Title: Three-dimensional multi-color optical nanoscopy at sub-10-nm resolution based on small-molecule organic probes.
    Article Snippet: We thank the Optical Bioimaging Core Facility of WNLO-HUST (Wuhan National Laboratory for Optoelectronics-Huazhong University of Science and x y z 219 nm 46 7 nm A C xz xy yz 3D SMOP-ExSTED BSC-1 cell MAA-Actin-STAR RED MAA-Lyso-AF594 B D F x y z x y z x y z x yz 3D SMOP-ExSTED U2OS cell after starvation Atto 647N MAA-Lyso-AF594 E B C P O MS D3 - DETSxE B SC - no itavratsretfallec 1 At to 64 7N M AA -L ys oAF 59 4 (legend on next page) 8 Cell Reports Methods 3, 100556, September 25, 2023 .. REAGENT or RESOURCE SOURCE IDENTIFIER Antibodies Mouse monoclonal anti-Actin Thermo Fisher Scientific Cat#MA511869; RRID:AB_11004139 Mouse monoclonal anti-beta Actin Abcam Cat#ab8226; RRID:AB_306371 Goat anti-mouse STAR RED Abberior Cat#STRED-1001-500UG Mouse anti-a tubulin Beyotime Biotechnology Cat#AF2827 Mouse anti-b tubulin Beyotime Biotechnology Cat#AF2835 Biological samples Mouse coronal brain slices (30 mm; Male C57BL/6 mice, 8–12 weeks, 20–25 g) Gong et al.25 N/A Chemicals, peptides, and recombinant proteins MAA-Actin-TMR This paper N/A MAA-Actin peptide This paper N/A MAA-Lyso peptide This paper N/A Alexa Fluor 647 NHS ester Thermo Fisher Scientific Cat#A20006 Atto 647N NHS ester Sigma-Aldrich Cat#18373 Cy5 NHS ester GE Healthcare Cat#PA15101 STAR RED NHS ester Abberior Cat#STRED-0002-1MG Atto 565 NHS ester Sigma-Aldrich Cat#72464 Cy3B NHS ester GE Healthcare Cat#PA63101 STAR ORANGE NHS ester Abberior Cat#STORANGE-0002-1MG Alexa Fluor 594 NHS ester Thermo Fisher Scientific Cat#A20004 Alexa Fluor 488 NHS ester Thermo Fisher Scientific Cat#A20000 Atto 495 NHS ester Sigma-Aldrich Cat#00379 LysoTracker Green Thermo Fisher Scientific Cat#L7526 PV-1 peptide vehicle Zhang et al.17 N/A Alexa Fluor 488 Phalloidin Thermo Fisher Scientific Cat#A12379 Acryloyl-X, SE (AcX) Thermo Fisher Scientific Cat#A20770 Sodium Acrylate Santa Cruz Biotechnology Cat#sc-236893C Acrylamide Sigma-Aldrich Cat#A9099-100G N,N0-Methylenebisacrylamide Sigma-Aldrich Cat#M7279-100G Ammonium Persulfate (APS) Sigma-Aldrich Cat#A3678-100G N,N,N0,N0-Tetramethylethylenediamine (TEMED) Sigma-Aldrich Cat#T7024-100ML proteinase K (proK) Sigma-Aldrich Cat#P4850-5ML Paraformaldehyde (PFA) Electron Microscopy Sciences Cat#15710 Formaldehyde (FA) Thermo Fisher Scientific Cat#28908 Glutaraldehyde (GA) Thermo Fisher Scientific Cat#G7651-10ML Experimental models: Cell lines Human: U2OS cells ATCC HTB-96 Monkey: BSC-1 cells ATCC CCL-26 Recombinant DNA EGFP-Lifeact Michael Davidson Lab Addgene Plasmid #54610 Software and algorithms ImageJ/Fiji Schneider et al.7 https://imagej.nih.gov/ij/ NIS Elements Nikon https://industry.nikon.com (Continued on next page) Cell Reports Methods 3, 100556, September 25, 2023 e1 .. REAGENT or RESOURCE SOURCE IDENTIFIER Excel Microsoft https://www.microsoft.com/zh-cn/microsoft- 365/excel MATLAB MathWorks https://ww2.mathworks.cn/ FluoRender University of Utah https://www.sci.utah.edu/cibc-software/ fluorender.html Imaris Oxford Instruments https://imaris.oxinst.com/ Anaconda version 3 Anaconda https://www.anaconda.com/

    Article Title: Glioblastoma hijacks neuronal mechanisms for brain invasion.
    Article Snippet: REAGENT or RESOURCE SOURCE IDENTIFIER 0.5% Trypsin-EDTA (10x) Gibco 15400-054 Alexa Fluor 594 hydrazide sodium salt Invitrogen A10442 Glutamate Sigma-Aldrich 49449-100G NaCl Sigma-Aldrich S7653 KCL Fluka 60129 NaHCO3 Fluka 71627 NaH2PO4 Fluka 71496 L-glutamine (GlutaMAXTM-I (100x)) Gibco 35050-038 B-27 Supplement for neuronal co-culture Gibco 17504-044 10ml Poly-L-lysine solution Sigma-Aldrich P4832-50ml Rhod-2,AM Invitrogen/ ThermoFisher Scientific R1245MP DMEM/D12 Medium Life Technologies 11330032 Insulin solution human Sigma I9278-5ML Heparin Sigma H4784-1G B27 Supplement without vitamin A for GBC culture Gibco 12587-010 10ml EGF Biotechne 236-EG-200 FGF Recombinant Protein Life Technologies PHG0021 FGF Recombinant Protein 1mg Life Technologies PHG0023 Dulbecco’s PBS (1x) w/o Ca&Mg, w/o Phenol Red Capricorn scientific CP21-4014 Dulbecco’s Phosphate Buffered Saline Sigma RNBJ5140 Accutase Solution Sigma SLCH7391 Polybrene/ Hexadimethrine bromide Sigma H9268-10G FBS Life 10500064 TritonTM X-100 Sigma-Aldrich T9284-100ML DAB+Chromogen Dako K3468 Sucrose Sigma S0389 Vectastain ABC-kit Linaris/Vector PK-4000 Alpha-D-Glucose Serva 070937 Glucose oxidase Serva 22778.01 Cacodylic acid-Na-salt-3H2O Serva 15540.1 Potassium ferricyanide Serva/Sigma 107H3450 Osmium tetroxide Serva 31253.04 Glycid Ether 100 for electron microscopy Serva 21045.02 MNA hardener Carl Roth 8639.2 DMP-30 Carl Roth 8621.1 DBA Härter Carl Roth 8623.2 DDSA SERVA 20755.02 Propylenoxide VWR Chemicals 27165.295 Uranyl acetate Serva 77870 SEM pin stub (0,5’’/6mm length) Agar scientific #G301F Acheson silver Plano #3692 DAPI Sigma D9542 PFA 4% Roth P087.3 PFA 4.5% Roth 2212.6 Sulforhodamine 101 (SR101) Sigma Aldrich S7635 Sulforhodamine 101 (SR101) Invitrogen S359 Tetramethylrhodamine isothiocyanate dextran (TRITC) Sigma Aldrich 52194-1G (Continued on next page) ll Cell 185, 2899–2917.e1–e16, August 4, 2022 e2 Article .. REAGENT or RESOURCE SOURCE IDENTIFIER SlowFadeTM Gold Antifade Mountant ThermoFischer S36936 Experimental models: Patient-derived xenograft glioblastoma cell lines and patient-derived organoid xenograft models S24 This paper N/A BG5 This paper N/A BG7 This paper N/A P3XX This paper N/A T269 This paper N/A P8 Golebiewska et al., 2020 N/A P3 Golebiewska et al., 2020 N/A P13 Golebiewska et al., 2020 N/A T101 Golebiewska et al., 2020 N/A T16 Golebiewska et al., 2020 N/A T347 Golebiewska et al., 2020 N/A T470 Golebiewska et al., 2020 N/A T192 Golebiewska et al., 2020 N/A T233 Golebiewska et al., 2020 N/A Experimental models: Organisms/strains NMRI-Foxn1 nu/nu Charles River and Janvier BL210203171 WISTAR Janvier N/A Recombinant DNA Plasmid: mGFP Dondzillo et al., 2010 N/A Plasmid: GCamp7-tdTomato Dana et al., 2019 N/A Plasmid: Twitch3A Thestrup et al., 2014 N/A Plasmid: GFP Osswald et al., 2015 N/A Plasmid: tdTomato Osswald et al., 2015 N/A Plasmid: dominant negative GluA2 tdTomato Venkataramani et al., 2019 N/A Software and algorithms ImageJ/Fiji Schneider et al., 2012 https://imagej.nih.gov/ij/ NIS-Elements AR Analysis 5.30.01 64-bit Nikon https://www.microscope.healthcare.nikon. com/products/software Ilastik 1.3.3 post3 Berg et al., 2019 https://www.ilastik.org/development.html Arivis Vision4D 3.5.0 arivis AG, Munich, Germany https://imaging.arivis.com/en/ imaging-science/arivis-vision4d R Studio 1.4 RStudio Team, 2020 N/A AquA (Wang et al., 2019b) N/A PATCHMASTER Igor Pro 6.21 HEKA N/A GraphPad Prism Version 9.2.0 GraphPad N/A Adobe Illustrator 25.4.1 Adobe N/A Adobe Photoshop Adobe N/A ProCreate Apple N/A DaVinciResolve 17 Blackmagicdesign https://www.blackmagicdesign.com/de/ products/davinciresolve/ Autodesk 3ds max Autodesk https://www.autodesk.de/products/ 3ds-max/overview Leica Application Suite X Leica Microsystems CMS GmbH https://www.leica-microsystems.com/de/ produkte/mikroskop-software/p/ leica-las-x-ls/ (Continued on next page) ll e3 Cell 185, 2899–2917.e1–e16, August 4, 2022 Article .. REAGENT or RESOURCE SOURCE IDENTIFIER Zen Blue 3.5 Zeiss https://www.zeiss.com/microscopy/int/ products/microscope-software/zen.html Zen Black 2.3 SP1 Zeiss https://www.zeiss.com/microscopy/int/ products/microscope-software/zen.html IMOD 4.11 University of Colorado, Boulder https://bio3d.colorado.edu/imod/ Image J 3D Viewer Schmid et al., 2010 N/A TrakEM Cardona et al., 2012 N/A Atlas 5.3.0.25 Zeiss N/A Single-cell and bulk RNA-sequencing datasets Human single-cell RNA-sequencing glioblastoma dataset Neftel et al., 2019 GSE131928 Human single-cell RNA-sequencing glioblastoma dataset Yu et al., 2020 GSE117891 Human bulk RNA-sequencing glioblastoma datasets Puchalski et al., 2018 GSE107558 Xenograft single-cell RNA-sequencing gliolastoma datasets Hai et al., 2021 N/A Other FACSAria Fusion 2 Bernhard Shoor BD N/A FACSAria Fusion Richard Sweet BD N/A ll

    Article Title: Three-dimensional multi-color optical nanoscopy at sub-10-nm resolution based on small-molecule organic probes
    Article Snippet: We thank the Optical Bioimaging Core Facility of WNLO-HUST (Wuhan National Laboratory for Optoelectronics-Huazhong University of Science and x y z 219 nm 46 7 nm A C xz xy yz 3D SMOP-ExSTED BSC-1 cell MAA-Actin-STAR RED MAA-Lyso-AF594 B D F x y z x y z x y z x yz 3D SMOP-ExSTED U2OS cell after starvation Atto 647N MAA-Lyso-AF594 E B C P O MS D3 - DETSxE B SC - no itavratsretfallec 1 At to 64 7N M AA -L ys oAF 59 4 (legend on next page) 8 Cell Reports Methods 3, 100556, September 25, 2023 Report ll OPEN ACCESS Report ll OPEN ACCESS .. REAGENT or RESOURCE SOURCE IDENTIFIER Antibodies Mouse monoclonal anti-Actin Thermo Fisher Scientific Cat#MA511869; RRID:AB_11004139 Mouse monoclonal anti-beta Actin Abcam Cat#ab8226; RRID:AB_306371 Goat anti-mouse STAR RED Abberior Cat#STRED-1001-500UG Mouse anti-a tubulin Beyotime Biotechnology Cat#AF2827 Mouse anti-b tubulin Beyotime Biotechnology Cat#AF2835 Biological samples Mouse coronal brain slices (30 mm; Male C57BL/6 mice, 8–12 weeks, 20–25 g) Gong et al.25 N/A Chemicals, peptides, and recombinant proteins MAA-Actin-TMR This paper N/A MAA-Actin peptide This paper N/A MAA-Lyso peptide This paper N/A Alexa Fluor 647 NHS ester Thermo Fisher Scientific Cat#A20006 Atto 647N NHS ester Sigma-Aldrich Cat#18373 Cy5 NHS ester GE Healthcare Cat#PA15101 STAR RED NHS ester Abberior Cat#STRED-0002-1MG Atto 565 NHS ester Sigma-Aldrich Cat#72464 Cy3B NHS ester GE Healthcare Cat#PA63101 STAR ORANGE NHS ester Abberior Cat#STORANGE-0002-1MG Alexa Fluor 594 NHS ester Thermo Fisher Scientific Cat#A20004 Alexa Fluor 488 NHS ester Thermo Fisher Scientific Cat#A20000 Atto 495 NHS ester Sigma-Aldrich Cat#00379 LysoTracker Green Thermo Fisher Scientific Cat#L7526 PV-1 peptide vehicle Zhang et al.17 N/A Alexa Fluor 488 Phalloidin Thermo Fisher Scientific Cat#A12379 Acryloyl-X, SE (AcX) Thermo Fisher Scientific Cat#A20770 Sodium Acrylate Santa Cruz Biotechnology Cat#sc-236893C Acrylamide Sigma-Aldrich Cat#A9099-100G N,N0-Methylenebisacrylamide Sigma-Aldrich Cat#M7279-100G Ammonium Persulfate (APS) Sigma-Aldrich Cat#A3678-100G N,N,N0,N0-Tetramethylethylenediamine (TEMED) Sigma-Aldrich Cat#T7024-100ML proteinase K (proK) Sigma-Aldrich Cat#P4850-5ML Paraformaldehyde (PFA) Electron Microscopy Sciences Cat#15710 Formaldehyde (FA) Thermo Fisher Scientific Cat#28908 Glutaraldehyde (GA) Thermo Fisher Scientific Cat#G7651-10ML Experimental models: Cell lines Human: U2OS cells ATCC HTB-96 Monkey: BSC-1 cells ATCC CCL-26 Recombinant DNA EGFP-Lifeact Michael Davidson Lab Addgene Plasmid #54610 Software and algorithms ImageJ/Fiji Schneider et al.7 https://imagej.nih.gov/ij/ NIS Elements Nikon https://industry.nikon.com (Continued on next page) Cell Reports Methods 3, 100556, September 25, 2023 e1 .. REAGENT or RESOURCE SOURCE IDENTIFIER Excel Microsoft https://www.microsoft.com/zh-cn/microsoft- 365/excel MATLAB MathWorks https://ww2.mathworks.cn/ FluoRender University of Utah https://www.sci.utah.edu/cibc-software/ fluorender.html Imaris Oxford Instruments https://imaris.oxinst.com/ Anaconda version 3 Anaconda https://www.anaconda.com/ Report ll OPEN ACCESS

    Electron Microscopy:

    Article Title: Three-dimensional multi-color optical nanoscopy at sub-10-nm resolution based on small-molecule organic probes.
    Article Snippet: We thank the Optical Bioimaging Core Facility of WNLO-HUST (Wuhan National Laboratory for Optoelectronics-Huazhong University of Science and x y z 219 nm 46 7 nm A C xz xy yz 3D SMOP-ExSTED BSC-1 cell MAA-Actin-STAR RED MAA-Lyso-AF594 B D F x y z x y z x y z x yz 3D SMOP-ExSTED U2OS cell after starvation Atto 647N MAA-Lyso-AF594 E B C P O MS D3 - DETSxE B SC - no itavratsretfallec 1 At to 64 7N M AA -L ys oAF 59 4 (legend on next page) 8 Cell Reports Methods 3, 100556, September 25, 2023 .. REAGENT or RESOURCE SOURCE IDENTIFIER Antibodies Mouse monoclonal anti-Actin Thermo Fisher Scientific Cat#MA511869; RRID:AB_11004139 Mouse monoclonal anti-beta Actin Abcam Cat#ab8226; RRID:AB_306371 Goat anti-mouse STAR RED Abberior Cat#STRED-1001-500UG Mouse anti-a tubulin Beyotime Biotechnology Cat#AF2827 Mouse anti-b tubulin Beyotime Biotechnology Cat#AF2835 Biological samples Mouse coronal brain slices (30 mm; Male C57BL/6 mice, 8–12 weeks, 20–25 g) Gong et al.25 N/A Chemicals, peptides, and recombinant proteins MAA-Actin-TMR This paper N/A MAA-Actin peptide This paper N/A MAA-Lyso peptide This paper N/A Alexa Fluor 647 NHS ester Thermo Fisher Scientific Cat#A20006 Atto 647N NHS ester Sigma-Aldrich Cat#18373 Cy5 NHS ester GE Healthcare Cat#PA15101 STAR RED NHS ester Abberior Cat#STRED-0002-1MG Atto 565 NHS ester Sigma-Aldrich Cat#72464 Cy3B NHS ester GE Healthcare Cat#PA63101 STAR ORANGE NHS ester Abberior Cat#STORANGE-0002-1MG Alexa Fluor 594 NHS ester Thermo Fisher Scientific Cat#A20004 Alexa Fluor 488 NHS ester Thermo Fisher Scientific Cat#A20000 Atto 495 NHS ester Sigma-Aldrich Cat#00379 LysoTracker Green Thermo Fisher Scientific Cat#L7526 PV-1 peptide vehicle Zhang et al.17 N/A Alexa Fluor 488 Phalloidin Thermo Fisher Scientific Cat#A12379 Acryloyl-X, SE (AcX) Thermo Fisher Scientific Cat#A20770 Sodium Acrylate Santa Cruz Biotechnology Cat#sc-236893C Acrylamide Sigma-Aldrich Cat#A9099-100G N,N0-Methylenebisacrylamide Sigma-Aldrich Cat#M7279-100G Ammonium Persulfate (APS) Sigma-Aldrich Cat#A3678-100G N,N,N0,N0-Tetramethylethylenediamine (TEMED) Sigma-Aldrich Cat#T7024-100ML proteinase K (proK) Sigma-Aldrich Cat#P4850-5ML Paraformaldehyde (PFA) Electron Microscopy Sciences Cat#15710 Formaldehyde (FA) Thermo Fisher Scientific Cat#28908 Glutaraldehyde (GA) Thermo Fisher Scientific Cat#G7651-10ML Experimental models: Cell lines Human: U2OS cells ATCC HTB-96 Monkey: BSC-1 cells ATCC CCL-26 Recombinant DNA EGFP-Lifeact Michael Davidson Lab Addgene Plasmid #54610 Software and algorithms ImageJ/Fiji Schneider et al.7 https://imagej.nih.gov/ij/ NIS Elements Nikon https://industry.nikon.com (Continued on next page) Cell Reports Methods 3, 100556, September 25, 2023 e1 .. REAGENT or RESOURCE SOURCE IDENTIFIER Excel Microsoft https://www.microsoft.com/zh-cn/microsoft- 365/excel MATLAB MathWorks https://ww2.mathworks.cn/ FluoRender University of Utah https://www.sci.utah.edu/cibc-software/ fluorender.html Imaris Oxford Instruments https://imaris.oxinst.com/ Anaconda version 3 Anaconda https://www.anaconda.com/

    Article Title: Three-dimensional multi-color optical nanoscopy at sub-10-nm resolution based on small-molecule organic probes
    Article Snippet: We thank the Optical Bioimaging Core Facility of WNLO-HUST (Wuhan National Laboratory for Optoelectronics-Huazhong University of Science and x y z 219 nm 46 7 nm A C xz xy yz 3D SMOP-ExSTED BSC-1 cell MAA-Actin-STAR RED MAA-Lyso-AF594 B D F x y z x y z x y z x yz 3D SMOP-ExSTED U2OS cell after starvation Atto 647N MAA-Lyso-AF594 E B C P O MS D3 - DETSxE B SC - no itavratsretfallec 1 At to 64 7N M AA -L ys oAF 59 4 (legend on next page) 8 Cell Reports Methods 3, 100556, September 25, 2023 Report ll OPEN ACCESS Report ll OPEN ACCESS .. REAGENT or RESOURCE SOURCE IDENTIFIER Antibodies Mouse monoclonal anti-Actin Thermo Fisher Scientific Cat#MA511869; RRID:AB_11004139 Mouse monoclonal anti-beta Actin Abcam Cat#ab8226; RRID:AB_306371 Goat anti-mouse STAR RED Abberior Cat#STRED-1001-500UG Mouse anti-a tubulin Beyotime Biotechnology Cat#AF2827 Mouse anti-b tubulin Beyotime Biotechnology Cat#AF2835 Biological samples Mouse coronal brain slices (30 mm; Male C57BL/6 mice, 8–12 weeks, 20–25 g) Gong et al.25 N/A Chemicals, peptides, and recombinant proteins MAA-Actin-TMR This paper N/A MAA-Actin peptide This paper N/A MAA-Lyso peptide This paper N/A Alexa Fluor 647 NHS ester Thermo Fisher Scientific Cat#A20006 Atto 647N NHS ester Sigma-Aldrich Cat#18373 Cy5 NHS ester GE Healthcare Cat#PA15101 STAR RED NHS ester Abberior Cat#STRED-0002-1MG Atto 565 NHS ester Sigma-Aldrich Cat#72464 Cy3B NHS ester GE Healthcare Cat#PA63101 STAR ORANGE NHS ester Abberior Cat#STORANGE-0002-1MG Alexa Fluor 594 NHS ester Thermo Fisher Scientific Cat#A20004 Alexa Fluor 488 NHS ester Thermo Fisher Scientific Cat#A20000 Atto 495 NHS ester Sigma-Aldrich Cat#00379 LysoTracker Green Thermo Fisher Scientific Cat#L7526 PV-1 peptide vehicle Zhang et al.17 N/A Alexa Fluor 488 Phalloidin Thermo Fisher Scientific Cat#A12379 Acryloyl-X, SE (AcX) Thermo Fisher Scientific Cat#A20770 Sodium Acrylate Santa Cruz Biotechnology Cat#sc-236893C Acrylamide Sigma-Aldrich Cat#A9099-100G N,N0-Methylenebisacrylamide Sigma-Aldrich Cat#M7279-100G Ammonium Persulfate (APS) Sigma-Aldrich Cat#A3678-100G N,N,N0,N0-Tetramethylethylenediamine (TEMED) Sigma-Aldrich Cat#T7024-100ML proteinase K (proK) Sigma-Aldrich Cat#P4850-5ML Paraformaldehyde (PFA) Electron Microscopy Sciences Cat#15710 Formaldehyde (FA) Thermo Fisher Scientific Cat#28908 Glutaraldehyde (GA) Thermo Fisher Scientific Cat#G7651-10ML Experimental models: Cell lines Human: U2OS cells ATCC HTB-96 Monkey: BSC-1 cells ATCC CCL-26 Recombinant DNA EGFP-Lifeact Michael Davidson Lab Addgene Plasmid #54610 Software and algorithms ImageJ/Fiji Schneider et al.7 https://imagej.nih.gov/ij/ NIS Elements Nikon https://industry.nikon.com (Continued on next page) Cell Reports Methods 3, 100556, September 25, 2023 e1 .. REAGENT or RESOURCE SOURCE IDENTIFIER Excel Microsoft https://www.microsoft.com/zh-cn/microsoft- 365/excel MATLAB MathWorks https://ww2.mathworks.cn/ FluoRender University of Utah https://www.sci.utah.edu/cibc-software/ fluorender.html Imaris Oxford Instruments https://imaris.oxinst.com/ Anaconda version 3 Anaconda https://www.anaconda.com/ Report ll OPEN ACCESS

    Plasmid Preparation:

    Article Title: Three-dimensional multi-color optical nanoscopy at sub-10-nm resolution based on small-molecule organic probes.
    Article Snippet: We thank the Optical Bioimaging Core Facility of WNLO-HUST (Wuhan National Laboratory for Optoelectronics-Huazhong University of Science and x y z 219 nm 46 7 nm A C xz xy yz 3D SMOP-ExSTED BSC-1 cell MAA-Actin-STAR RED MAA-Lyso-AF594 B D F x y z x y z x y z x yz 3D SMOP-ExSTED U2OS cell after starvation Atto 647N MAA-Lyso-AF594 E B C P O MS D3 - DETSxE B SC - no itavratsretfallec 1 At to 64 7N M AA -L ys oAF 59 4 (legend on next page) 8 Cell Reports Methods 3, 100556, September 25, 2023 .. REAGENT or RESOURCE SOURCE IDENTIFIER Antibodies Mouse monoclonal anti-Actin Thermo Fisher Scientific Cat#MA511869; RRID:AB_11004139 Mouse monoclonal anti-beta Actin Abcam Cat#ab8226; RRID:AB_306371 Goat anti-mouse STAR RED Abberior Cat#STRED-1001-500UG Mouse anti-a tubulin Beyotime Biotechnology Cat#AF2827 Mouse anti-b tubulin Beyotime Biotechnology Cat#AF2835 Biological samples Mouse coronal brain slices (30 mm; Male C57BL/6 mice, 8–12 weeks, 20–25 g) Gong et al.25 N/A Chemicals, peptides, and recombinant proteins MAA-Actin-TMR This paper N/A MAA-Actin peptide This paper N/A MAA-Lyso peptide This paper N/A Alexa Fluor 647 NHS ester Thermo Fisher Scientific Cat#A20006 Atto 647N NHS ester Sigma-Aldrich Cat#18373 Cy5 NHS ester GE Healthcare Cat#PA15101 STAR RED NHS ester Abberior Cat#STRED-0002-1MG Atto 565 NHS ester Sigma-Aldrich Cat#72464 Cy3B NHS ester GE Healthcare Cat#PA63101 STAR ORANGE NHS ester Abberior Cat#STORANGE-0002-1MG Alexa Fluor 594 NHS ester Thermo Fisher Scientific Cat#A20004 Alexa Fluor 488 NHS ester Thermo Fisher Scientific Cat#A20000 Atto 495 NHS ester Sigma-Aldrich Cat#00379 LysoTracker Green Thermo Fisher Scientific Cat#L7526 PV-1 peptide vehicle Zhang et al.17 N/A Alexa Fluor 488 Phalloidin Thermo Fisher Scientific Cat#A12379 Acryloyl-X, SE (AcX) Thermo Fisher Scientific Cat#A20770 Sodium Acrylate Santa Cruz Biotechnology Cat#sc-236893C Acrylamide Sigma-Aldrich Cat#A9099-100G N,N0-Methylenebisacrylamide Sigma-Aldrich Cat#M7279-100G Ammonium Persulfate (APS) Sigma-Aldrich Cat#A3678-100G N,N,N0,N0-Tetramethylethylenediamine (TEMED) Sigma-Aldrich Cat#T7024-100ML proteinase K (proK) Sigma-Aldrich Cat#P4850-5ML Paraformaldehyde (PFA) Electron Microscopy Sciences Cat#15710 Formaldehyde (FA) Thermo Fisher Scientific Cat#28908 Glutaraldehyde (GA) Thermo Fisher Scientific Cat#G7651-10ML Experimental models: Cell lines Human: U2OS cells ATCC HTB-96 Monkey: BSC-1 cells ATCC CCL-26 Recombinant DNA EGFP-Lifeact Michael Davidson Lab Addgene Plasmid #54610 Software and algorithms ImageJ/Fiji Schneider et al.7 https://imagej.nih.gov/ij/ NIS Elements Nikon https://industry.nikon.com (Continued on next page) Cell Reports Methods 3, 100556, September 25, 2023 e1 .. REAGENT or RESOURCE SOURCE IDENTIFIER Excel Microsoft https://www.microsoft.com/zh-cn/microsoft- 365/excel MATLAB MathWorks https://ww2.mathworks.cn/ FluoRender University of Utah https://www.sci.utah.edu/cibc-software/ fluorender.html Imaris Oxford Instruments https://imaris.oxinst.com/ Anaconda version 3 Anaconda https://www.anaconda.com/

    Article Title: Glioblastoma hijacks neuronal mechanisms for brain invasion.
    Article Snippet: REAGENT or RESOURCE SOURCE IDENTIFIER 0.5% Trypsin-EDTA (10x) Gibco 15400-054 Alexa Fluor 594 hydrazide sodium salt Invitrogen A10442 Glutamate Sigma-Aldrich 49449-100G NaCl Sigma-Aldrich S7653 KCL Fluka 60129 NaHCO3 Fluka 71627 NaH2PO4 Fluka 71496 L-glutamine (GlutaMAXTM-I (100x)) Gibco 35050-038 B-27 Supplement for neuronal co-culture Gibco 17504-044 10ml Poly-L-lysine solution Sigma-Aldrich P4832-50ml Rhod-2,AM Invitrogen/ ThermoFisher Scientific R1245MP DMEM/D12 Medium Life Technologies 11330032 Insulin solution human Sigma I9278-5ML Heparin Sigma H4784-1G B27 Supplement without vitamin A for GBC culture Gibco 12587-010 10ml EGF Biotechne 236-EG-200 FGF Recombinant Protein Life Technologies PHG0021 FGF Recombinant Protein 1mg Life Technologies PHG0023 Dulbecco’s PBS (1x) w/o Ca&Mg, w/o Phenol Red Capricorn scientific CP21-4014 Dulbecco’s Phosphate Buffered Saline Sigma RNBJ5140 Accutase Solution Sigma SLCH7391 Polybrene/ Hexadimethrine bromide Sigma H9268-10G FBS Life 10500064 TritonTM X-100 Sigma-Aldrich T9284-100ML DAB+Chromogen Dako K3468 Sucrose Sigma S0389 Vectastain ABC-kit Linaris/Vector PK-4000 Alpha-D-Glucose Serva 070937 Glucose oxidase Serva 22778.01 Cacodylic acid-Na-salt-3H2O Serva 15540.1 Potassium ferricyanide Serva/Sigma 107H3450 Osmium tetroxide Serva 31253.04 Glycid Ether 100 for electron microscopy Serva 21045.02 MNA hardener Carl Roth 8639.2 DMP-30 Carl Roth 8621.1 DBA Härter Carl Roth 8623.2 DDSA SERVA 20755.02 Propylenoxide VWR Chemicals 27165.295 Uranyl acetate Serva 77870 SEM pin stub (0,5’’/6mm length) Agar scientific #G301F Acheson silver Plano #3692 DAPI Sigma D9542 PFA 4% Roth P087.3 PFA 4.5% Roth 2212.6 Sulforhodamine 101 (SR101) Sigma Aldrich S7635 Sulforhodamine 101 (SR101) Invitrogen S359 Tetramethylrhodamine isothiocyanate dextran (TRITC) Sigma Aldrich 52194-1G (Continued on next page) ll Cell 185, 2899–2917.e1–e16, August 4, 2022 e2 Article .. REAGENT or RESOURCE SOURCE IDENTIFIER SlowFadeTM Gold Antifade Mountant ThermoFischer S36936 Experimental models: Patient-derived xenograft glioblastoma cell lines and patient-derived organoid xenograft models S24 This paper N/A BG5 This paper N/A BG7 This paper N/A P3XX This paper N/A T269 This paper N/A P8 Golebiewska et al., 2020 N/A P3 Golebiewska et al., 2020 N/A P13 Golebiewska et al., 2020 N/A T101 Golebiewska et al., 2020 N/A T16 Golebiewska et al., 2020 N/A T347 Golebiewska et al., 2020 N/A T470 Golebiewska et al., 2020 N/A T192 Golebiewska et al., 2020 N/A T233 Golebiewska et al., 2020 N/A Experimental models: Organisms/strains NMRI-Foxn1 nu/nu Charles River and Janvier BL210203171 WISTAR Janvier N/A Recombinant DNA Plasmid: mGFP Dondzillo et al., 2010 N/A Plasmid: GCamp7-tdTomato Dana et al., 2019 N/A Plasmid: Twitch3A Thestrup et al., 2014 N/A Plasmid: GFP Osswald et al., 2015 N/A Plasmid: tdTomato Osswald et al., 2015 N/A Plasmid: dominant negative GluA2 tdTomato Venkataramani et al., 2019 N/A Software and algorithms ImageJ/Fiji Schneider et al., 2012 https://imagej.nih.gov/ij/ NIS-Elements AR Analysis 5.30.01 64-bit Nikon https://www.microscope.healthcare.nikon. com/products/software Ilastik 1.3.3 post3 Berg et al., 2019 https://www.ilastik.org/development.html Arivis Vision4D 3.5.0 arivis AG, Munich, Germany https://imaging.arivis.com/en/ imaging-science/arivis-vision4d R Studio 1.4 RStudio Team, 2020 N/A AquA (Wang et al., 2019b) N/A PATCHMASTER Igor Pro 6.21 HEKA N/A GraphPad Prism Version 9.2.0 GraphPad N/A Adobe Illustrator 25.4.1 Adobe N/A Adobe Photoshop Adobe N/A ProCreate Apple N/A DaVinciResolve 17 Blackmagicdesign https://www.blackmagicdesign.com/de/ products/davinciresolve/ Autodesk 3ds max Autodesk https://www.autodesk.de/products/ 3ds-max/overview Leica Application Suite X Leica Microsystems CMS GmbH https://www.leica-microsystems.com/de/ produkte/mikroskop-software/p/ leica-las-x-ls/ (Continued on next page) ll e3 Cell 185, 2899–2917.e1–e16, August 4, 2022 Article .. REAGENT or RESOURCE SOURCE IDENTIFIER Zen Blue 3.5 Zeiss https://www.zeiss.com/microscopy/int/ products/microscope-software/zen.html Zen Black 2.3 SP1 Zeiss https://www.zeiss.com/microscopy/int/ products/microscope-software/zen.html IMOD 4.11 University of Colorado, Boulder https://bio3d.colorado.edu/imod/ Image J 3D Viewer Schmid et al., 2010 N/A TrakEM Cardona et al., 2012 N/A Atlas 5.3.0.25 Zeiss N/A Single-cell and bulk RNA-sequencing datasets Human single-cell RNA-sequencing glioblastoma dataset Neftel et al., 2019 GSE131928 Human single-cell RNA-sequencing glioblastoma dataset Yu et al., 2020 GSE117891 Human bulk RNA-sequencing glioblastoma datasets Puchalski et al., 2018 GSE107558 Xenograft single-cell RNA-sequencing gliolastoma datasets Hai et al., 2021 N/A Other FACSAria Fusion 2 Bernhard Shoor BD N/A FACSAria Fusion Richard Sweet BD N/A ll

    Article Title: Three-dimensional multi-color optical nanoscopy at sub-10-nm resolution based on small-molecule organic probes
    Article Snippet: We thank the Optical Bioimaging Core Facility of WNLO-HUST (Wuhan National Laboratory for Optoelectronics-Huazhong University of Science and x y z 219 nm 46 7 nm A C xz xy yz 3D SMOP-ExSTED BSC-1 cell MAA-Actin-STAR RED MAA-Lyso-AF594 B D F x y z x y z x y z x yz 3D SMOP-ExSTED U2OS cell after starvation Atto 647N MAA-Lyso-AF594 E B C P O MS D3 - DETSxE B SC - no itavratsretfallec 1 At to 64 7N M AA -L ys oAF 59 4 (legend on next page) 8 Cell Reports Methods 3, 100556, September 25, 2023 Report ll OPEN ACCESS Report ll OPEN ACCESS .. REAGENT or RESOURCE SOURCE IDENTIFIER Antibodies Mouse monoclonal anti-Actin Thermo Fisher Scientific Cat#MA511869; RRID:AB_11004139 Mouse monoclonal anti-beta Actin Abcam Cat#ab8226; RRID:AB_306371 Goat anti-mouse STAR RED Abberior Cat#STRED-1001-500UG Mouse anti-a tubulin Beyotime Biotechnology Cat#AF2827 Mouse anti-b tubulin Beyotime Biotechnology Cat#AF2835 Biological samples Mouse coronal brain slices (30 mm; Male C57BL/6 mice, 8–12 weeks, 20–25 g) Gong et al.25 N/A Chemicals, peptides, and recombinant proteins MAA-Actin-TMR This paper N/A MAA-Actin peptide This paper N/A MAA-Lyso peptide This paper N/A Alexa Fluor 647 NHS ester Thermo Fisher Scientific Cat#A20006 Atto 647N NHS ester Sigma-Aldrich Cat#18373 Cy5 NHS ester GE Healthcare Cat#PA15101 STAR RED NHS ester Abberior Cat#STRED-0002-1MG Atto 565 NHS ester Sigma-Aldrich Cat#72464 Cy3B NHS ester GE Healthcare Cat#PA63101 STAR ORANGE NHS ester Abberior Cat#STORANGE-0002-1MG Alexa Fluor 594 NHS ester Thermo Fisher Scientific Cat#A20004 Alexa Fluor 488 NHS ester Thermo Fisher Scientific Cat#A20000 Atto 495 NHS ester Sigma-Aldrich Cat#00379 LysoTracker Green Thermo Fisher Scientific Cat#L7526 PV-1 peptide vehicle Zhang et al.17 N/A Alexa Fluor 488 Phalloidin Thermo Fisher Scientific Cat#A12379 Acryloyl-X, SE (AcX) Thermo Fisher Scientific Cat#A20770 Sodium Acrylate Santa Cruz Biotechnology Cat#sc-236893C Acrylamide Sigma-Aldrich Cat#A9099-100G N,N0-Methylenebisacrylamide Sigma-Aldrich Cat#M7279-100G Ammonium Persulfate (APS) Sigma-Aldrich Cat#A3678-100G N,N,N0,N0-Tetramethylethylenediamine (TEMED) Sigma-Aldrich Cat#T7024-100ML proteinase K (proK) Sigma-Aldrich Cat#P4850-5ML Paraformaldehyde (PFA) Electron Microscopy Sciences Cat#15710 Formaldehyde (FA) Thermo Fisher Scientific Cat#28908 Glutaraldehyde (GA) Thermo Fisher Scientific Cat#G7651-10ML Experimental models: Cell lines Human: U2OS cells ATCC HTB-96 Monkey: BSC-1 cells ATCC CCL-26 Recombinant DNA EGFP-Lifeact Michael Davidson Lab Addgene Plasmid #54610 Software and algorithms ImageJ/Fiji Schneider et al.7 https://imagej.nih.gov/ij/ NIS Elements Nikon https://industry.nikon.com (Continued on next page) Cell Reports Methods 3, 100556, September 25, 2023 e1 .. REAGENT or RESOURCE SOURCE IDENTIFIER Excel Microsoft https://www.microsoft.com/zh-cn/microsoft- 365/excel MATLAB MathWorks https://ww2.mathworks.cn/ FluoRender University of Utah https://www.sci.utah.edu/cibc-software/ fluorender.html Imaris Oxford Instruments https://imaris.oxinst.com/ Anaconda version 3 Anaconda https://www.anaconda.com/ Report ll OPEN ACCESS

    Software:

    Article Title: Three-dimensional multi-color optical nanoscopy at sub-10-nm resolution based on small-molecule organic probes.
    Article Snippet: We thank the Optical Bioimaging Core Facility of WNLO-HUST (Wuhan National Laboratory for Optoelectronics-Huazhong University of Science and x y z 219 nm 46 7 nm A C xz xy yz 3D SMOP-ExSTED BSC-1 cell MAA-Actin-STAR RED MAA-Lyso-AF594 B D F x y z x y z x y z x yz 3D SMOP-ExSTED U2OS cell after starvation Atto 647N MAA-Lyso-AF594 E B C P O MS D3 - DETSxE B SC - no itavratsretfallec 1 At to 64 7N M AA -L ys oAF 59 4 (legend on next page) 8 Cell Reports Methods 3, 100556, September 25, 2023 .. REAGENT or RESOURCE SOURCE IDENTIFIER Antibodies Mouse monoclonal anti-Actin Thermo Fisher Scientific Cat#MA511869; RRID:AB_11004139 Mouse monoclonal anti-beta Actin Abcam Cat#ab8226; RRID:AB_306371 Goat anti-mouse STAR RED Abberior Cat#STRED-1001-500UG Mouse anti-a tubulin Beyotime Biotechnology Cat#AF2827 Mouse anti-b tubulin Beyotime Biotechnology Cat#AF2835 Biological samples Mouse coronal brain slices (30 mm; Male C57BL/6 mice, 8–12 weeks, 20–25 g) Gong et al.25 N/A Chemicals, peptides, and recombinant proteins MAA-Actin-TMR This paper N/A MAA-Actin peptide This paper N/A MAA-Lyso peptide This paper N/A Alexa Fluor 647 NHS ester Thermo Fisher Scientific Cat#A20006 Atto 647N NHS ester Sigma-Aldrich Cat#18373 Cy5 NHS ester GE Healthcare Cat#PA15101 STAR RED NHS ester Abberior Cat#STRED-0002-1MG Atto 565 NHS ester Sigma-Aldrich Cat#72464 Cy3B NHS ester GE Healthcare Cat#PA63101 STAR ORANGE NHS ester Abberior Cat#STORANGE-0002-1MG Alexa Fluor 594 NHS ester Thermo Fisher Scientific Cat#A20004 Alexa Fluor 488 NHS ester Thermo Fisher Scientific Cat#A20000 Atto 495 NHS ester Sigma-Aldrich Cat#00379 LysoTracker Green Thermo Fisher Scientific Cat#L7526 PV-1 peptide vehicle Zhang et al.17 N/A Alexa Fluor 488 Phalloidin Thermo Fisher Scientific Cat#A12379 Acryloyl-X, SE (AcX) Thermo Fisher Scientific Cat#A20770 Sodium Acrylate Santa Cruz Biotechnology Cat#sc-236893C Acrylamide Sigma-Aldrich Cat#A9099-100G N,N0-Methylenebisacrylamide Sigma-Aldrich Cat#M7279-100G Ammonium Persulfate (APS) Sigma-Aldrich Cat#A3678-100G N,N,N0,N0-Tetramethylethylenediamine (TEMED) Sigma-Aldrich Cat#T7024-100ML proteinase K (proK) Sigma-Aldrich Cat#P4850-5ML Paraformaldehyde (PFA) Electron Microscopy Sciences Cat#15710 Formaldehyde (FA) Thermo Fisher Scientific Cat#28908 Glutaraldehyde (GA) Thermo Fisher Scientific Cat#G7651-10ML Experimental models: Cell lines Human: U2OS cells ATCC HTB-96 Monkey: BSC-1 cells ATCC CCL-26 Recombinant DNA EGFP-Lifeact Michael Davidson Lab Addgene Plasmid #54610 Software and algorithms ImageJ/Fiji Schneider et al.7 https://imagej.nih.gov/ij/ NIS Elements Nikon https://industry.nikon.com (Continued on next page) Cell Reports Methods 3, 100556, September 25, 2023 e1 .. REAGENT or RESOURCE SOURCE IDENTIFIER Excel Microsoft https://www.microsoft.com/zh-cn/microsoft- 365/excel MATLAB MathWorks https://ww2.mathworks.cn/ FluoRender University of Utah https://www.sci.utah.edu/cibc-software/ fluorender.html Imaris Oxford Instruments https://imaris.oxinst.com/ Anaconda version 3 Anaconda https://www.anaconda.com/

    Article Title: Glioblastoma hijacks neuronal mechanisms for brain invasion.
    Article Snippet: REAGENT or RESOURCE SOURCE IDENTIFIER 0.5% Trypsin-EDTA (10x) Gibco 15400-054 Alexa Fluor 594 hydrazide sodium salt Invitrogen A10442 Glutamate Sigma-Aldrich 49449-100G NaCl Sigma-Aldrich S7653 KCL Fluka 60129 NaHCO3 Fluka 71627 NaH2PO4 Fluka 71496 L-glutamine (GlutaMAXTM-I (100x)) Gibco 35050-038 B-27 Supplement for neuronal co-culture Gibco 17504-044 10ml Poly-L-lysine solution Sigma-Aldrich P4832-50ml Rhod-2,AM Invitrogen/ ThermoFisher Scientific R1245MP DMEM/D12 Medium Life Technologies 11330032 Insulin solution human Sigma I9278-5ML Heparin Sigma H4784-1G B27 Supplement without vitamin A for GBC culture Gibco 12587-010 10ml EGF Biotechne 236-EG-200 FGF Recombinant Protein Life Technologies PHG0021 FGF Recombinant Protein 1mg Life Technologies PHG0023 Dulbecco’s PBS (1x) w/o Ca&Mg, w/o Phenol Red Capricorn scientific CP21-4014 Dulbecco’s Phosphate Buffered Saline Sigma RNBJ5140 Accutase Solution Sigma SLCH7391 Polybrene/ Hexadimethrine bromide Sigma H9268-10G FBS Life 10500064 TritonTM X-100 Sigma-Aldrich T9284-100ML DAB+Chromogen Dako K3468 Sucrose Sigma S0389 Vectastain ABC-kit Linaris/Vector PK-4000 Alpha-D-Glucose Serva 070937 Glucose oxidase Serva 22778.01 Cacodylic acid-Na-salt-3H2O Serva 15540.1 Potassium ferricyanide Serva/Sigma 107H3450 Osmium tetroxide Serva 31253.04 Glycid Ether 100 for electron microscopy Serva 21045.02 MNA hardener Carl Roth 8639.2 DMP-30 Carl Roth 8621.1 DBA Härter Carl Roth 8623.2 DDSA SERVA 20755.02 Propylenoxide VWR Chemicals 27165.295 Uranyl acetate Serva 77870 SEM pin stub (0,5’’/6mm length) Agar scientific #G301F Acheson silver Plano #3692 DAPI Sigma D9542 PFA 4% Roth P087.3 PFA 4.5% Roth 2212.6 Sulforhodamine 101 (SR101) Sigma Aldrich S7635 Sulforhodamine 101 (SR101) Invitrogen S359 Tetramethylrhodamine isothiocyanate dextran (TRITC) Sigma Aldrich 52194-1G (Continued on next page) ll Cell 185, 2899–2917.e1–e16, August 4, 2022 e2 Article .. REAGENT or RESOURCE SOURCE IDENTIFIER SlowFadeTM Gold Antifade Mountant ThermoFischer S36936 Experimental models: Patient-derived xenograft glioblastoma cell lines and patient-derived organoid xenograft models S24 This paper N/A BG5 This paper N/A BG7 This paper N/A P3XX This paper N/A T269 This paper N/A P8 Golebiewska et al., 2020 N/A P3 Golebiewska et al., 2020 N/A P13 Golebiewska et al., 2020 N/A T101 Golebiewska et al., 2020 N/A T16 Golebiewska et al., 2020 N/A T347 Golebiewska et al., 2020 N/A T470 Golebiewska et al., 2020 N/A T192 Golebiewska et al., 2020 N/A T233 Golebiewska et al., 2020 N/A Experimental models: Organisms/strains NMRI-Foxn1 nu/nu Charles River and Janvier BL210203171 WISTAR Janvier N/A Recombinant DNA Plasmid: mGFP Dondzillo et al., 2010 N/A Plasmid: GCamp7-tdTomato Dana et al., 2019 N/A Plasmid: Twitch3A Thestrup et al., 2014 N/A Plasmid: GFP Osswald et al., 2015 N/A Plasmid: tdTomato Osswald et al., 2015 N/A Plasmid: dominant negative GluA2 tdTomato Venkataramani et al., 2019 N/A Software and algorithms ImageJ/Fiji Schneider et al., 2012 https://imagej.nih.gov/ij/ NIS-Elements AR Analysis 5.30.01 64-bit Nikon https://www.microscope.healthcare.nikon. com/products/software Ilastik 1.3.3 post3 Berg et al., 2019 https://www.ilastik.org/development.html Arivis Vision4D 3.5.0 arivis AG, Munich, Germany https://imaging.arivis.com/en/ imaging-science/arivis-vision4d R Studio 1.4 RStudio Team, 2020 N/A AquA (Wang et al., 2019b) N/A PATCHMASTER Igor Pro 6.21 HEKA N/A GraphPad Prism Version 9.2.0 GraphPad N/A Adobe Illustrator 25.4.1 Adobe N/A Adobe Photoshop Adobe N/A ProCreate Apple N/A DaVinciResolve 17 Blackmagicdesign https://www.blackmagicdesign.com/de/ products/davinciresolve/ Autodesk 3ds max Autodesk https://www.autodesk.de/products/ 3ds-max/overview Leica Application Suite X Leica Microsystems CMS GmbH https://www.leica-microsystems.com/de/ produkte/mikroskop-software/p/ leica-las-x-ls/ (Continued on next page) ll e3 Cell 185, 2899–2917.e1–e16, August 4, 2022 Article .. REAGENT or RESOURCE SOURCE IDENTIFIER Zen Blue 3.5 Zeiss https://www.zeiss.com/microscopy/int/ products/microscope-software/zen.html Zen Black 2.3 SP1 Zeiss https://www.zeiss.com/microscopy/int/ products/microscope-software/zen.html IMOD 4.11 University of Colorado, Boulder https://bio3d.colorado.edu/imod/ Image J 3D Viewer Schmid et al., 2010 N/A TrakEM Cardona et al., 2012 N/A Atlas 5.3.0.25 Zeiss N/A Single-cell and bulk RNA-sequencing datasets Human single-cell RNA-sequencing glioblastoma dataset Neftel et al., 2019 GSE131928 Human single-cell RNA-sequencing glioblastoma dataset Yu et al., 2020 GSE117891 Human bulk RNA-sequencing glioblastoma datasets Puchalski et al., 2018 GSE107558 Xenograft single-cell RNA-sequencing gliolastoma datasets Hai et al., 2021 N/A Other FACSAria Fusion 2 Bernhard Shoor BD N/A FACSAria Fusion Richard Sweet BD N/A ll

    Article Title: Three-dimensional multi-color optical nanoscopy at sub-10-nm resolution based on small-molecule organic probes
    Article Snippet: We thank the Optical Bioimaging Core Facility of WNLO-HUST (Wuhan National Laboratory for Optoelectronics-Huazhong University of Science and x y z 219 nm 46 7 nm A C xz xy yz 3D SMOP-ExSTED BSC-1 cell MAA-Actin-STAR RED MAA-Lyso-AF594 B D F x y z x y z x y z x yz 3D SMOP-ExSTED U2OS cell after starvation Atto 647N MAA-Lyso-AF594 E B C P O MS D3 - DETSxE B SC - no itavratsretfallec 1 At to 64 7N M AA -L ys oAF 59 4 (legend on next page) 8 Cell Reports Methods 3, 100556, September 25, 2023 Report ll OPEN ACCESS Report ll OPEN ACCESS .. REAGENT or RESOURCE SOURCE IDENTIFIER Antibodies Mouse monoclonal anti-Actin Thermo Fisher Scientific Cat#MA511869; RRID:AB_11004139 Mouse monoclonal anti-beta Actin Abcam Cat#ab8226; RRID:AB_306371 Goat anti-mouse STAR RED Abberior Cat#STRED-1001-500UG Mouse anti-a tubulin Beyotime Biotechnology Cat#AF2827 Mouse anti-b tubulin Beyotime Biotechnology Cat#AF2835 Biological samples Mouse coronal brain slices (30 mm; Male C57BL/6 mice, 8–12 weeks, 20–25 g) Gong et al.25 N/A Chemicals, peptides, and recombinant proteins MAA-Actin-TMR This paper N/A MAA-Actin peptide This paper N/A MAA-Lyso peptide This paper N/A Alexa Fluor 647 NHS ester Thermo Fisher Scientific Cat#A20006 Atto 647N NHS ester Sigma-Aldrich Cat#18373 Cy5 NHS ester GE Healthcare Cat#PA15101 STAR RED NHS ester Abberior Cat#STRED-0002-1MG Atto 565 NHS ester Sigma-Aldrich Cat#72464 Cy3B NHS ester GE Healthcare Cat#PA63101 STAR ORANGE NHS ester Abberior Cat#STORANGE-0002-1MG Alexa Fluor 594 NHS ester Thermo Fisher Scientific Cat#A20004 Alexa Fluor 488 NHS ester Thermo Fisher Scientific Cat#A20000 Atto 495 NHS ester Sigma-Aldrich Cat#00379 LysoTracker Green Thermo Fisher Scientific Cat#L7526 PV-1 peptide vehicle Zhang et al.17 N/A Alexa Fluor 488 Phalloidin Thermo Fisher Scientific Cat#A12379 Acryloyl-X, SE (AcX) Thermo Fisher Scientific Cat#A20770 Sodium Acrylate Santa Cruz Biotechnology Cat#sc-236893C Acrylamide Sigma-Aldrich Cat#A9099-100G N,N0-Methylenebisacrylamide Sigma-Aldrich Cat#M7279-100G Ammonium Persulfate (APS) Sigma-Aldrich Cat#A3678-100G N,N,N0,N0-Tetramethylethylenediamine (TEMED) Sigma-Aldrich Cat#T7024-100ML proteinase K (proK) Sigma-Aldrich Cat#P4850-5ML Paraformaldehyde (PFA) Electron Microscopy Sciences Cat#15710 Formaldehyde (FA) Thermo Fisher Scientific Cat#28908 Glutaraldehyde (GA) Thermo Fisher Scientific Cat#G7651-10ML Experimental models: Cell lines Human: U2OS cells ATCC HTB-96 Monkey: BSC-1 cells ATCC CCL-26 Recombinant DNA EGFP-Lifeact Michael Davidson Lab Addgene Plasmid #54610 Software and algorithms ImageJ/Fiji Schneider et al.7 https://imagej.nih.gov/ij/ NIS Elements Nikon https://industry.nikon.com (Continued on next page) Cell Reports Methods 3, 100556, September 25, 2023 e1 .. REAGENT or RESOURCE SOURCE IDENTIFIER Excel Microsoft https://www.microsoft.com/zh-cn/microsoft- 365/excel MATLAB MathWorks https://ww2.mathworks.cn/ FluoRender University of Utah https://www.sci.utah.edu/cibc-software/ fluorender.html Imaris Oxford Instruments https://imaris.oxinst.com/ Anaconda version 3 Anaconda https://www.anaconda.com/ Report ll OPEN ACCESS

    Article Title: Protocol for 3D sub-10-nm multicolor expansion STED nanoscopy using small-molecule organic probes.
    Article Snippet: .. Continued REAGENT or RESOURCE SOURCE IDENTIFIER Software and algorithms ImageJ/Fiji Schneider et al. 3 https://imagej.nih.gov/ij/ NIS Elements Nikon https://industry.nikon.com MATLAB MathWorks https://ww2.mathworks.cn/ FluoRender University of Utah https://www.sci.utah.edu/cibc-software/fluorender.html Anaconda version 3 Anaconda https://www.anaconda.com/ Excel Microsoft https://www.microsoft.com/zh-cn/microsoft365/excel Probe stock solution Reagent Final concentration Amount Probe powder N/A N/A PBS(PH 7.4) N/A 300 μL Total 300 μL 300 μL The probe solution is stable for at least one month at 4 ◦ C in the dark. ..

    Dominant Negative Mutation:

    Article Title: Glioblastoma hijacks neuronal mechanisms for brain invasion.
    Article Snippet: REAGENT or RESOURCE SOURCE IDENTIFIER 0.5% Trypsin-EDTA (10x) Gibco 15400-054 Alexa Fluor 594 hydrazide sodium salt Invitrogen A10442 Glutamate Sigma-Aldrich 49449-100G NaCl Sigma-Aldrich S7653 KCL Fluka 60129 NaHCO3 Fluka 71627 NaH2PO4 Fluka 71496 L-glutamine (GlutaMAXTM-I (100x)) Gibco 35050-038 B-27 Supplement for neuronal co-culture Gibco 17504-044 10ml Poly-L-lysine solution Sigma-Aldrich P4832-50ml Rhod-2,AM Invitrogen/ ThermoFisher Scientific R1245MP DMEM/D12 Medium Life Technologies 11330032 Insulin solution human Sigma I9278-5ML Heparin Sigma H4784-1G B27 Supplement without vitamin A for GBC culture Gibco 12587-010 10ml EGF Biotechne 236-EG-200 FGF Recombinant Protein Life Technologies PHG0021 FGF Recombinant Protein 1mg Life Technologies PHG0023 Dulbecco’s PBS (1x) w/o Ca&Mg, w/o Phenol Red Capricorn scientific CP21-4014 Dulbecco’s Phosphate Buffered Saline Sigma RNBJ5140 Accutase Solution Sigma SLCH7391 Polybrene/ Hexadimethrine bromide Sigma H9268-10G FBS Life 10500064 TritonTM X-100 Sigma-Aldrich T9284-100ML DAB+Chromogen Dako K3468 Sucrose Sigma S0389 Vectastain ABC-kit Linaris/Vector PK-4000 Alpha-D-Glucose Serva 070937 Glucose oxidase Serva 22778.01 Cacodylic acid-Na-salt-3H2O Serva 15540.1 Potassium ferricyanide Serva/Sigma 107H3450 Osmium tetroxide Serva 31253.04 Glycid Ether 100 for electron microscopy Serva 21045.02 MNA hardener Carl Roth 8639.2 DMP-30 Carl Roth 8621.1 DBA Härter Carl Roth 8623.2 DDSA SERVA 20755.02 Propylenoxide VWR Chemicals 27165.295 Uranyl acetate Serva 77870 SEM pin stub (0,5’’/6mm length) Agar scientific #G301F Acheson silver Plano #3692 DAPI Sigma D9542 PFA 4% Roth P087.3 PFA 4.5% Roth 2212.6 Sulforhodamine 101 (SR101) Sigma Aldrich S7635 Sulforhodamine 101 (SR101) Invitrogen S359 Tetramethylrhodamine isothiocyanate dextran (TRITC) Sigma Aldrich 52194-1G (Continued on next page) ll Cell 185, 2899–2917.e1–e16, August 4, 2022 e2 Article .. REAGENT or RESOURCE SOURCE IDENTIFIER SlowFadeTM Gold Antifade Mountant ThermoFischer S36936 Experimental models: Patient-derived xenograft glioblastoma cell lines and patient-derived organoid xenograft models S24 This paper N/A BG5 This paper N/A BG7 This paper N/A P3XX This paper N/A T269 This paper N/A P8 Golebiewska et al., 2020 N/A P3 Golebiewska et al., 2020 N/A P13 Golebiewska et al., 2020 N/A T101 Golebiewska et al., 2020 N/A T16 Golebiewska et al., 2020 N/A T347 Golebiewska et al., 2020 N/A T470 Golebiewska et al., 2020 N/A T192 Golebiewska et al., 2020 N/A T233 Golebiewska et al., 2020 N/A Experimental models: Organisms/strains NMRI-Foxn1 nu/nu Charles River and Janvier BL210203171 WISTAR Janvier N/A Recombinant DNA Plasmid: mGFP Dondzillo et al., 2010 N/A Plasmid: GCamp7-tdTomato Dana et al., 2019 N/A Plasmid: Twitch3A Thestrup et al., 2014 N/A Plasmid: GFP Osswald et al., 2015 N/A Plasmid: tdTomato Osswald et al., 2015 N/A Plasmid: dominant negative GluA2 tdTomato Venkataramani et al., 2019 N/A Software and algorithms ImageJ/Fiji Schneider et al., 2012 https://imagej.nih.gov/ij/ NIS-Elements AR Analysis 5.30.01 64-bit Nikon https://www.microscope.healthcare.nikon. com/products/software Ilastik 1.3.3 post3 Berg et al., 2019 https://www.ilastik.org/development.html Arivis Vision4D 3.5.0 arivis AG, Munich, Germany https://imaging.arivis.com/en/ imaging-science/arivis-vision4d R Studio 1.4 RStudio Team, 2020 N/A AquA (Wang et al., 2019b) N/A PATCHMASTER Igor Pro 6.21 HEKA N/A GraphPad Prism Version 9.2.0 GraphPad N/A Adobe Illustrator 25.4.1 Adobe N/A Adobe Photoshop Adobe N/A ProCreate Apple N/A DaVinciResolve 17 Blackmagicdesign https://www.blackmagicdesign.com/de/ products/davinciresolve/ Autodesk 3ds max Autodesk https://www.autodesk.de/products/ 3ds-max/overview Leica Application Suite X Leica Microsystems CMS GmbH https://www.leica-microsystems.com/de/ produkte/mikroskop-software/p/ leica-las-x-ls/ (Continued on next page) ll e3 Cell 185, 2899–2917.e1–e16, August 4, 2022 Article .. REAGENT or RESOURCE SOURCE IDENTIFIER Zen Blue 3.5 Zeiss https://www.zeiss.com/microscopy/int/ products/microscope-software/zen.html Zen Black 2.3 SP1 Zeiss https://www.zeiss.com/microscopy/int/ products/microscope-software/zen.html IMOD 4.11 University of Colorado, Boulder https://bio3d.colorado.edu/imod/ Image J 3D Viewer Schmid et al., 2010 N/A TrakEM Cardona et al., 2012 N/A Atlas 5.3.0.25 Zeiss N/A Single-cell and bulk RNA-sequencing datasets Human single-cell RNA-sequencing glioblastoma dataset Neftel et al., 2019 GSE131928 Human single-cell RNA-sequencing glioblastoma dataset Yu et al., 2020 GSE117891 Human bulk RNA-sequencing glioblastoma datasets Puchalski et al., 2018 GSE107558 Xenograft single-cell RNA-sequencing gliolastoma datasets Hai et al., 2021 N/A Other FACSAria Fusion 2 Bernhard Shoor BD N/A FACSAria Fusion Richard Sweet BD N/A ll

    Imaging:

    Article Title: Glioblastoma hijacks neuronal mechanisms for brain invasion.
    Article Snippet: REAGENT or RESOURCE SOURCE IDENTIFIER 0.5% Trypsin-EDTA (10x) Gibco 15400-054 Alexa Fluor 594 hydrazide sodium salt Invitrogen A10442 Glutamate Sigma-Aldrich 49449-100G NaCl Sigma-Aldrich S7653 KCL Fluka 60129 NaHCO3 Fluka 71627 NaH2PO4 Fluka 71496 L-glutamine (GlutaMAXTM-I (100x)) Gibco 35050-038 B-27 Supplement for neuronal co-culture Gibco 17504-044 10ml Poly-L-lysine solution Sigma-Aldrich P4832-50ml Rhod-2,AM Invitrogen/ ThermoFisher Scientific R1245MP DMEM/D12 Medium Life Technologies 11330032 Insulin solution human Sigma I9278-5ML Heparin Sigma H4784-1G B27 Supplement without vitamin A for GBC culture Gibco 12587-010 10ml EGF Biotechne 236-EG-200 FGF Recombinant Protein Life Technologies PHG0021 FGF Recombinant Protein 1mg Life Technologies PHG0023 Dulbecco’s PBS (1x) w/o Ca&Mg, w/o Phenol Red Capricorn scientific CP21-4014 Dulbecco’s Phosphate Buffered Saline Sigma RNBJ5140 Accutase Solution Sigma SLCH7391 Polybrene/ Hexadimethrine bromide Sigma H9268-10G FBS Life 10500064 TritonTM X-100 Sigma-Aldrich T9284-100ML DAB+Chromogen Dako K3468 Sucrose Sigma S0389 Vectastain ABC-kit Linaris/Vector PK-4000 Alpha-D-Glucose Serva 070937 Glucose oxidase Serva 22778.01 Cacodylic acid-Na-salt-3H2O Serva 15540.1 Potassium ferricyanide Serva/Sigma 107H3450 Osmium tetroxide Serva 31253.04 Glycid Ether 100 for electron microscopy Serva 21045.02 MNA hardener Carl Roth 8639.2 DMP-30 Carl Roth 8621.1 DBA Härter Carl Roth 8623.2 DDSA SERVA 20755.02 Propylenoxide VWR Chemicals 27165.295 Uranyl acetate Serva 77870 SEM pin stub (0,5’’/6mm length) Agar scientific #G301F Acheson silver Plano #3692 DAPI Sigma D9542 PFA 4% Roth P087.3 PFA 4.5% Roth 2212.6 Sulforhodamine 101 (SR101) Sigma Aldrich S7635 Sulforhodamine 101 (SR101) Invitrogen S359 Tetramethylrhodamine isothiocyanate dextran (TRITC) Sigma Aldrich 52194-1G (Continued on next page) ll Cell 185, 2899–2917.e1–e16, August 4, 2022 e2 Article .. REAGENT or RESOURCE SOURCE IDENTIFIER SlowFadeTM Gold Antifade Mountant ThermoFischer S36936 Experimental models: Patient-derived xenograft glioblastoma cell lines and patient-derived organoid xenograft models S24 This paper N/A BG5 This paper N/A BG7 This paper N/A P3XX This paper N/A T269 This paper N/A P8 Golebiewska et al., 2020 N/A P3 Golebiewska et al., 2020 N/A P13 Golebiewska et al., 2020 N/A T101 Golebiewska et al., 2020 N/A T16 Golebiewska et al., 2020 N/A T347 Golebiewska et al., 2020 N/A T470 Golebiewska et al., 2020 N/A T192 Golebiewska et al., 2020 N/A T233 Golebiewska et al., 2020 N/A Experimental models: Organisms/strains NMRI-Foxn1 nu/nu Charles River and Janvier BL210203171 WISTAR Janvier N/A Recombinant DNA Plasmid: mGFP Dondzillo et al., 2010 N/A Plasmid: GCamp7-tdTomato Dana et al., 2019 N/A Plasmid: Twitch3A Thestrup et al., 2014 N/A Plasmid: GFP Osswald et al., 2015 N/A Plasmid: tdTomato Osswald et al., 2015 N/A Plasmid: dominant negative GluA2 tdTomato Venkataramani et al., 2019 N/A Software and algorithms ImageJ/Fiji Schneider et al., 2012 https://imagej.nih.gov/ij/ NIS-Elements AR Analysis 5.30.01 64-bit Nikon https://www.microscope.healthcare.nikon. com/products/software Ilastik 1.3.3 post3 Berg et al., 2019 https://www.ilastik.org/development.html Arivis Vision4D 3.5.0 arivis AG, Munich, Germany https://imaging.arivis.com/en/ imaging-science/arivis-vision4d R Studio 1.4 RStudio Team, 2020 N/A AquA (Wang et al., 2019b) N/A PATCHMASTER Igor Pro 6.21 HEKA N/A GraphPad Prism Version 9.2.0 GraphPad N/A Adobe Illustrator 25.4.1 Adobe N/A Adobe Photoshop Adobe N/A ProCreate Apple N/A DaVinciResolve 17 Blackmagicdesign https://www.blackmagicdesign.com/de/ products/davinciresolve/ Autodesk 3ds max Autodesk https://www.autodesk.de/products/ 3ds-max/overview Leica Application Suite X Leica Microsystems CMS GmbH https://www.leica-microsystems.com/de/ produkte/mikroskop-software/p/ leica-las-x-ls/ (Continued on next page) ll e3 Cell 185, 2899–2917.e1–e16, August 4, 2022 Article .. REAGENT or RESOURCE SOURCE IDENTIFIER Zen Blue 3.5 Zeiss https://www.zeiss.com/microscopy/int/ products/microscope-software/zen.html Zen Black 2.3 SP1 Zeiss https://www.zeiss.com/microscopy/int/ products/microscope-software/zen.html IMOD 4.11 University of Colorado, Boulder https://bio3d.colorado.edu/imod/ Image J 3D Viewer Schmid et al., 2010 N/A TrakEM Cardona et al., 2012 N/A Atlas 5.3.0.25 Zeiss N/A Single-cell and bulk RNA-sequencing datasets Human single-cell RNA-sequencing glioblastoma dataset Neftel et al., 2019 GSE131928 Human single-cell RNA-sequencing glioblastoma dataset Yu et al., 2020 GSE117891 Human bulk RNA-sequencing glioblastoma datasets Puchalski et al., 2018 GSE107558 Xenograft single-cell RNA-sequencing gliolastoma datasets Hai et al., 2021 N/A Other FACSAria Fusion 2 Bernhard Shoor BD N/A FACSAria Fusion Richard Sweet BD N/A ll

    Concentration Assay:

    Article Title: Protocol for 3D sub-10-nm multicolor expansion STED nanoscopy using small-molecule organic probes.
    Article Snippet: .. Continued REAGENT or RESOURCE SOURCE IDENTIFIER Software and algorithms ImageJ/Fiji Schneider et al. 3 https://imagej.nih.gov/ij/ NIS Elements Nikon https://industry.nikon.com MATLAB MathWorks https://ww2.mathworks.cn/ FluoRender University of Utah https://www.sci.utah.edu/cibc-software/fluorender.html Anaconda version 3 Anaconda https://www.anaconda.com/ Excel Microsoft https://www.microsoft.com/zh-cn/microsoft365/excel Probe stock solution Reagent Final concentration Amount Probe powder N/A N/A PBS(PH 7.4) N/A 300 μL Total 300 μL 300 μL The probe solution is stable for at least one month at 4 ◦ C in the dark. ..



    Similar Products

    algorithms imagej fiji schneider  (Oxford Instruments)
    99
    Oxford Instruments algorithms imagej fiji schneider
    Algorithms Imagej Fiji Schneider, supplied by Oxford Instruments, used in various techniques. Bioz Stars score: 99/100, based on 1 PubMed citations. ZERO BIAS - scores, article reviews, protocol conditions and more
    https://www.bioz.com/product/algorithms+imagej+fiji+schneider/Imaris/pm41689806-832-115-121
    Average 99 stars, based on 1 article reviews
    algorithms imagej fiji schneider - by Bioz Stars, 2026-10
    99/100 stars
    		  Buy from Supplier
    algorithms imagej fiji schneider  (Nikon)
    99
    Nikon algorithms imagej fiji schneider
    Algorithms Imagej Fiji Schneider, supplied by Nikon, used in various techniques. Bioz Stars score: 99/100, based on 1 PubMed citations. ZERO BIAS - scores, article reviews, protocol conditions and more
    https://www.bioz.com/product/algorithms+imagej+fiji+schneider/NIS-Elements/pm41385382-60-8-17
    Average 99 stars, based on 1 article reviews
    algorithms imagej fiji schneider - by Bioz Stars, 2026-10
    99/100 stars
    		  Buy from Supplier
    algorithms fiji imagej schneider  (Oxford Instruments)
    99
    Oxford Instruments algorithms fiji imagej schneider
    Algorithms Fiji Imagej Schneider, supplied by Oxford Instruments, used in various techniques. Bioz Stars score: 99/100, based on 1 PubMed citations. ZERO BIAS - scores, article reviews, protocol conditions and more
    https://www.bioz.com/product/algorithms+imagej+fiji+schneider/Imaris/pmc11722116__mmc6-231-285-292
    Average 99 stars, based on 1 article reviews
    algorithms fiji imagej schneider - by Bioz Stars, 2026-10
    99/100 stars
    		  Buy from Supplier
    algorithms fiji imagej schneider  (Noldus Information Technology)
    86
    Noldus Information Technology algorithms fiji imagej schneider
    Algorithms Fiji Imagej Schneider, supplied by Noldus Information Technology, 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/algorithms+imagej+fiji+schneider/algorithms+fiji+imagej+schneider/pm38096054-532-56-89
    Average 86 stars, based on 1 article reviews
    algorithms fiji imagej schneider - by Bioz Stars, 2026-10
    86/100 stars
    		  Buy from Supplier

    Image Search Results