Recombinant:Article Title: Tricalbin-Mediated Contact Sites Control ER Curvature to Maintain Plasma Membrane Integrity
Article Snippet: REAGENT or RESOURCE SOURCE IDENTIFIER Recombinant DNA Plasmid: pRS415-TCB3-GFP-TADH1 (Manford et al., 2012) pAM43 Plasmid: pRS415-Tcb3 (1–491)-GFP-TADH1 (Manford et al., 2012) pAM44 Plasmid: pRS415-TCB3 SMPD-GFP-TADH1 This study pCB2 Software and Algorithms Amira Thermo Fisher Scientific https://www.fei.com/software/amira- 3d-for-life-sciences/ RRID:SCR_014305 BD FACSDiva BD Biosciences https://www.bdbiosciences.com/en-us RRID:SCR_001456 Fiji/ImageJ NIH https://imagej.net/Fiji#Downloads RRID:SCR_002285 Graph-Tool 2.2.44 (Peixoto, 2017) https://graph-tool.skewed.de IMOD (Kremer et al., 1996) http://bio3d.colorado.edu/imod/ RRID:SCR_003297 K2Align Dimitry Tegunov https://github.com/dtegunov/k2align Mathematica 9.0 Wolfram Research, Inc. https://www.wolfram.com/mathematica RRID:SCR_014448 MATLAB MathWorks https://www.mathworks.com/ RRID:SCR_001622 ParaView 5.5.2 (Ahrens et al., 2005) https://www.paraview.org RRID:SCR_002516 Pyto (Lu ci c et al., 2016) N/A Python 2.7.16 and 3.6.5 N/A https://www.python.org RRID:SCR_008394 Python 2.7 Packages Installed via Pip or Anaconda: matplotlib-1.5.1, networkx-1.11, nibabel-2.4.0, numpy-1.11.3, skimage-0.12.3, scipy-0.18.1, pandas-0.19.2, pathlib2-2.2.0, pathos-0.2.2.1, pytest-4.6.2 N/A https://pypi.org https://www.anaconda.com RRID:SCR_008624 RRID:SCR_002498 RRID:SCR_008633 RRID:SCR_008058 Python 3 Packages Installed via Anaconda: matplotlib3.0.2, numpy-1.15.2, pandas-0.23.0, scipy-1.1.0, seaborn-0.8.1, Statsmodels-0.9.0 N/A https://www.anaconda.com RRID:SCR_016074 Python Software to Estimate Membrane Curvature and Calculate Distances between Membranes This study and (Kalemanov et al., 2019) https://github.com/kalemaria/pycurv SerialEM (Mastronarde, 2005) http://bio3d.colorado.edu/SerialEM/ RRID:SCR_017293 TOM Toolbox (Nickell et al., 2005) https://www.biochem.mpg.de/tom tom_deconv Dimitry Tegunov https://github.com/dtegunov/tom_deconv TomSegMemTV (Martinez-Sanchez et al., 2014) https://sites.google.com/site/ 3demimageprocessing/tomosegmemtv TOMOAND (Fernández and Li, 2003) https://sites.google.com/site/ 3demimageprocessing/tomoand VTK 6.3.0 (Schroeder et al., 2006) http://www.vtk.org RRID: SCR_015013 Other Quantifoil grids 200 Mesh Copper R2/1 Quantifoil MicroTools N/A Whatman Filter Paper 597 Sigma Aldrich Cat# WHA10311814 Cover Glasses Carl Zeiss Cat# 474030-9000-000 Developmental Cell 51, 476–487.e1–e7, November 18, 2019 e2
Plasmid Preparation:Article Title: Tricalbin-Mediated Contact Sites Control ER Curvature to Maintain Plasma Membrane Integrity
Article Snippet: REAGENT or RESOURCE SOURCE IDENTIFIER Recombinant DNA Plasmid: pRS415-TCB3-GFP-TADH1 (Manford et al., 2012) pAM43 Plasmid: pRS415-Tcb3 (1–491)-GFP-TADH1 (Manford et al., 2012) pAM44 Plasmid: pRS415-TCB3 SMPD-GFP-TADH1 This study pCB2 Software and Algorithms Amira Thermo Fisher Scientific https://www.fei.com/software/amira- 3d-for-life-sciences/ RRID:SCR_014305 BD FACSDiva BD Biosciences https://www.bdbiosciences.com/en-us RRID:SCR_001456 Fiji/ImageJ NIH https://imagej.net/Fiji#Downloads RRID:SCR_002285 Graph-Tool 2.2.44 (Peixoto, 2017) https://graph-tool.skewed.de IMOD (Kremer et al., 1996) http://bio3d.colorado.edu/imod/ RRID:SCR_003297 K2Align Dimitry Tegunov https://github.com/dtegunov/k2align Mathematica 9.0 Wolfram Research, Inc. https://www.wolfram.com/mathematica RRID:SCR_014448 MATLAB MathWorks https://www.mathworks.com/ RRID:SCR_001622 ParaView 5.5.2 (Ahrens et al., 2005) https://www.paraview.org RRID:SCR_002516 Pyto (Lu ci c et al., 2016) N/A Python 2.7.16 and 3.6.5 N/A https://www.python.org RRID:SCR_008394 Python 2.7 Packages Installed via Pip or Anaconda: matplotlib-1.5.1, networkx-1.11, nibabel-2.4.0, numpy-1.11.3, skimage-0.12.3, scipy-0.18.1, pandas-0.19.2, pathlib2-2.2.0, pathos-0.2.2.1, pytest-4.6.2 N/A https://pypi.org https://www.anaconda.com RRID:SCR_008624 RRID:SCR_002498 RRID:SCR_008633 RRID:SCR_008058 Python 3 Packages Installed via Anaconda: matplotlib3.0.2, numpy-1.15.2, pandas-0.23.0, scipy-1.1.0, seaborn-0.8.1, Statsmodels-0.9.0 N/A https://www.anaconda.com RRID:SCR_016074 Python Software to Estimate Membrane Curvature and Calculate Distances between Membranes This study and (Kalemanov et al., 2019) https://github.com/kalemaria/pycurv SerialEM (Mastronarde, 2005) http://bio3d.colorado.edu/SerialEM/ RRID:SCR_017293 TOM Toolbox (Nickell et al., 2005) https://www.biochem.mpg.de/tom tom_deconv Dimitry Tegunov https://github.com/dtegunov/tom_deconv TomSegMemTV (Martinez-Sanchez et al., 2014) https://sites.google.com/site/ 3demimageprocessing/tomosegmemtv TOMOAND (Fernández and Li, 2003) https://sites.google.com/site/ 3demimageprocessing/tomoand VTK 6.3.0 (Schroeder et al., 2006) http://www.vtk.org RRID: SCR_015013 Other Quantifoil grids 200 Mesh Copper R2/1 Quantifoil MicroTools N/A Whatman Filter Paper 597 Sigma Aldrich Cat# WHA10311814 Cover Glasses Carl Zeiss Cat# 474030-9000-000 Developmental Cell 51, 476–487.e1–e7, November 18, 2019 e2
Software:Article Title: Tricalbin-Mediated Contact Sites Control ER Curvature to Maintain Plasma Membrane Integrity
Article Snippet: REAGENT or RESOURCE SOURCE IDENTIFIER Recombinant DNA Plasmid: pRS415-TCB3-GFP-TADH1 (Manford et al., 2012) pAM43 Plasmid: pRS415-Tcb3 (1–491)-GFP-TADH1 (Manford et al., 2012) pAM44 Plasmid: pRS415-TCB3 SMPD-GFP-TADH1 This study pCB2 Software and Algorithms Amira Thermo Fisher Scientific https://www.fei.com/software/amira- 3d-for-life-sciences/ RRID:SCR_014305 BD FACSDiva BD Biosciences https://www.bdbiosciences.com/en-us RRID:SCR_001456 Fiji/ImageJ NIH https://imagej.net/Fiji#Downloads RRID:SCR_002285 Graph-Tool 2.2.44 (Peixoto, 2017) https://graph-tool.skewed.de IMOD (Kremer et al., 1996) http://bio3d.colorado.edu/imod/ RRID:SCR_003297 K2Align Dimitry Tegunov https://github.com/dtegunov/k2align Mathematica 9.0 Wolfram Research, Inc. https://www.wolfram.com/mathematica RRID:SCR_014448 MATLAB MathWorks https://www.mathworks.com/ RRID:SCR_001622 ParaView 5.5.2 (Ahrens et al., 2005) https://www.paraview.org RRID:SCR_002516 Pyto (Lu ci c et al., 2016) N/A Python 2.7.16 and 3.6.5 N/A https://www.python.org RRID:SCR_008394 Python 2.7 Packages Installed via Pip or Anaconda: matplotlib-1.5.1, networkx-1.11, nibabel-2.4.0, numpy-1.11.3, skimage-0.12.3, scipy-0.18.1, pandas-0.19.2, pathlib2-2.2.0, pathos-0.2.2.1, pytest-4.6.2 N/A https://pypi.org https://www.anaconda.com RRID:SCR_008624 RRID:SCR_002498 RRID:SCR_008633 RRID:SCR_008058 Python 3 Packages Installed via Anaconda: matplotlib3.0.2, numpy-1.15.2, pandas-0.23.0, scipy-1.1.0, seaborn-0.8.1, Statsmodels-0.9.0 N/A https://www.anaconda.com RRID:SCR_016074 Python Software to Estimate Membrane Curvature and Calculate Distances between Membranes This study and (Kalemanov et al., 2019) https://github.com/kalemaria/pycurv SerialEM (Mastronarde, 2005) http://bio3d.colorado.edu/SerialEM/ RRID:SCR_017293 TOM Toolbox (Nickell et al., 2005) https://www.biochem.mpg.de/tom tom_deconv Dimitry Tegunov https://github.com/dtegunov/tom_deconv TomSegMemTV (Martinez-Sanchez et al., 2014) https://sites.google.com/site/ 3demimageprocessing/tomosegmemtv TOMOAND (Fernández and Li, 2003) https://sites.google.com/site/ 3demimageprocessing/tomoand VTK 6.3.0 (Schroeder et al., 2006) http://www.vtk.org RRID: SCR_015013 Other Quantifoil grids 200 Mesh Copper R2/1 Quantifoil MicroTools N/A Whatman Filter Paper 597 Sigma Aldrich Cat# WHA10311814 Cover Glasses Carl Zeiss Cat# 474030-9000-000 Developmental Cell 51, 476–487.e1–e7, November 18, 2019 e2
Membrane:Article Title: Tricalbin-Mediated Contact Sites Control ER Curvature to Maintain Plasma Membrane Integrity
Article Snippet: REAGENT or RESOURCE SOURCE IDENTIFIER Recombinant DNA Plasmid: pRS415-TCB3-GFP-TADH1 (Manford et al., 2012) pAM43 Plasmid: pRS415-Tcb3 (1–491)-GFP-TADH1 (Manford et al., 2012) pAM44 Plasmid: pRS415-TCB3 SMPD-GFP-TADH1 This study pCB2 Software and Algorithms Amira Thermo Fisher Scientific https://www.fei.com/software/amira- 3d-for-life-sciences/ RRID:SCR_014305 BD FACSDiva BD Biosciences https://www.bdbiosciences.com/en-us RRID:SCR_001456 Fiji/ImageJ NIH https://imagej.net/Fiji#Downloads RRID:SCR_002285 Graph-Tool 2.2.44 (Peixoto, 2017) https://graph-tool.skewed.de IMOD (Kremer et al., 1996) http://bio3d.colorado.edu/imod/ RRID:SCR_003297 K2Align Dimitry Tegunov https://github.com/dtegunov/k2align Mathematica 9.0 Wolfram Research, Inc. https://www.wolfram.com/mathematica RRID:SCR_014448 MATLAB MathWorks https://www.mathworks.com/ RRID:SCR_001622 ParaView 5.5.2 (Ahrens et al., 2005) https://www.paraview.org RRID:SCR_002516 Pyto (Lu ci c et al., 2016) N/A Python 2.7.16 and 3.6.5 N/A https://www.python.org RRID:SCR_008394 Python 2.7 Packages Installed via Pip or Anaconda: matplotlib-1.5.1, networkx-1.11, nibabel-2.4.0, numpy-1.11.3, skimage-0.12.3, scipy-0.18.1, pandas-0.19.2, pathlib2-2.2.0, pathos-0.2.2.1, pytest-4.6.2 N/A https://pypi.org https://www.anaconda.com RRID:SCR_008624 RRID:SCR_002498 RRID:SCR_008633 RRID:SCR_008058 Python 3 Packages Installed via Anaconda: matplotlib3.0.2, numpy-1.15.2, pandas-0.23.0, scipy-1.1.0, seaborn-0.8.1, Statsmodels-0.9.0 N/A https://www.anaconda.com RRID:SCR_016074 Python Software to Estimate Membrane Curvature and Calculate Distances between Membranes This study and (Kalemanov et al., 2019) https://github.com/kalemaria/pycurv SerialEM (Mastronarde, 2005) http://bio3d.colorado.edu/SerialEM/ RRID:SCR_017293 TOM Toolbox (Nickell et al., 2005) https://www.biochem.mpg.de/tom tom_deconv Dimitry Tegunov https://github.com/dtegunov/tom_deconv TomSegMemTV (Martinez-Sanchez et al., 2014) https://sites.google.com/site/ 3demimageprocessing/tomosegmemtv TOMOAND (Fernández and Li, 2003) https://sites.google.com/site/ 3demimageprocessing/tomoand VTK 6.3.0 (Schroeder et al., 2006) http://www.vtk.org RRID: SCR_015013 Other Quantifoil grids 200 Mesh Copper R2/1 Quantifoil MicroTools N/A Whatman Filter Paper 597 Sigma Aldrich Cat# WHA10311814 Cover Glasses Carl Zeiss Cat# 474030-9000-000 Developmental Cell 51, 476–487.e1–e7, November 18, 2019 e2
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