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202128 htt97q myc woerner  (Addgene inc)


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    Addgene inc 202128 htt97q myc woerner
    202128 Htt97q Myc Woerner, supplied by Addgene inc, used in various techniques. Bioz Stars score: 95/100, based on 67 PubMed citations. ZERO BIAS - scores, article reviews, protocol conditions and more
    https://www.bioz.com/product/202128+htt97q+myc+woerner/pLAMP1-mCherry+(Plasmid+%2345147)/pm38759629-183-60-73
    Average 95 stars, based on 67 article reviews
    202128 htt97q myc woerner - by Bioz Stars, 2026-11
    95/100 stars

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    Related Articles

    CRISPR:

    Article Title: Autophagy preferentially degrades non-fibrillar polyQ aggregates.
    Article Snippet: REAGENT or RESOURCE SOURCE IDENTIFIER Paraformaldehyde Sigma-Aldrich #47608 Triton X-100 Sigma-Aldrich #648466 Sucrose Sigma-Aldrich #1.07687 Opti-MEM reduced serum medium Gibco #31985062 DMEM, high glucose, GlutaMAX Gibco #10566016 Fetal bovine albumin Gibco #16000044 Penicillin-streptomycin Gibco #15140122 TrypLE Express Gibco #12604013 PBS Gibco #10010023 BSA Sigma-Aldrich #9048468 Cellulose acetate membrane GE Healthcare #10404131 nitrocellulose membrane Bio-Rad #1620150 PVDF membranes Roche #3010040001 GFP-Trap ChromTek #gtma RNeasy Mini Kit Qiagen #74004 iScript cDNA Synthesis Kit Biorad #1708890 PowerUp SYBR Green Master Mix Thermo Fisher Scientific #A25742 Syringe filters Millipore #SLVG033RS, #SLVM033RS Mesh filter Corning #352235 Quantifoil grids 200 mesh Copper R1/4 Quantifoil Micro Tools #Q29269 Quantifoil grids 200 mesh Gold R2/1 Quantifoil Micro Tools #N1-C15nAu20-01 Autogrid support Thermo Fischer Scientific Dynabeads Invitrogen #65011 Filter Paper Whatman #10311807 Deposited data Tomogram 2E This paper EMD 18110 Tomogram 3B This paper EMD 18114 Tomogram 3E This paper EMD 18115 Tomogram S4A This paper EMD 18116 Tomogram S4B This paper EMD 18117 Tomogram 5B This paper EMD 18118 Mass spectrometry datasets This paper Pride PXD04426 Raw data for microscopy and immunoblots This paper Mendeley data: https://doi.org/10.17632/ k66ygh2hy8.1 Experimental models: Cell lines HEK293 cells ATCC #CRL-1573 (RRID:CVCL_0045) Experimental models: Organisms/strains Neuro2a Htt64Q stable cell line Wang et al., 199959 RRID:CVCL_D3YS Neuro2a Htt150Q stable cell line Wang et al., 199959 RRID:CVCL_D3YT Oligonucleotides On-TARGETplus siRNA MAP1LC3A human Thermo Fisher Scientific #s39156 On-TARGETplus siRNA MAP1LC3B human Thermo Fisher Scientific #s224996 On-TARGETplus siRNA MAP1LC3C human Thermo Fisher Scientific #5s4190 On-TARGETplus siRNA P62 human Thermo Fisher Scientific D-001810 Control siRNA Thermo Fisher Scientific L-010230 MAP1LC3B CRISPR guide knockout forward: CACCGCGCGCCGTCTCC GGGAGGCA, reverse: aaacTGCCTCCC GGAGACGGCGCGC This study Benchling (Continued on next page) e2 Molecular Cell 84, 1980–1994.e1–e8, May 16, 2024 .. REAGENT or RESOURCE SOURCE IDENTIFIER MAP1LC3A CRISPR guide knockout forward: CACCGGcttccatgcagtcaggag, reverse: aaacctcctgactgcatggaagCC This study Benchling GABARAP CRISPR guide knockout forward: CACCGAAGATACGCCA CTACCTCAG; reverse: aaacCTG AGGTAGTGGCGTATCTTC This study Benchling GABARAPL2 CRISPR guide knockout forward: CACCGCATGAAGTGGATG TTCAAGG, reverse: aaacCCTTGA ACATCCACTTCATGC This study Benchling ULK1 CRISPR guide knockout forward: CACCGCCACGGTCTCTGTGCCGCCG, reverse: aaacCGGCGGCACAGAGA CCGTGGC This study Benchling Recombinant DNA Htt97Q-GFP Bence et al., 202128 Htt97Q-myc Woerner et al., 2016102 Lamp1-RFP Addgene RRID:Addgene_45147 mCherry-MAP1LC3B Addgene RRID:Addgene_40827 eGFP-MAP1LC3B-RFP Addgene RRID:Addgene_84573 Halo-WIPI2B Addgene RRID:Addgene 175025 Px330-mCherry Addgene RRID:Addgene_98750 Px458-GFP Addgene RRID:Addgene #48138 Software and algorithms Benchling (RRID:SCR_013955) https://www.benchling.com/ Fiji/ImageJ 2.15.1 (RRID:SCR_002285) Schindelin et al., 201269 https://fiji.sc/ GraphPad Prism 9.5.1 (RRID:SCR_002798) Graphstats Technologies http://www.graphpad.com/ easyFRAP Koulouras et al., 2018103 https://easyfrap.vmnet.upatras.gr/ MaxQuant v2.5.0.0 (RRID:SCR_014485) Cox and Mann, 2008104 http://www.biochem.mpg.de/5111795/ maxquant LFQ algorithm Cox et al., 201474 https://adinasarapu.github.io/posts/2018/ 04/blog-post-lfq/ Perseus 2.0.11 (RRID:SCR_015753) https://maxquant.net/perseus/ Huygens Essential 21.10.0 (RRID:SCR_014237) Scientific Volume Imaging http://svi.nl 3D-Correlation Toolbox 2.2.2 Arnold et al., 201662 https://3dct.semper.space/ SerialEM (RRID:SCR_017293) Mastronarde et al., 2005105 http://bio3d.colorado.edu/SerialEM/ MATLAB R2015b (RRID:SCR_001622) MathWorks http://www.mathworks.com/products/ matlab/ Tomoman https://github.com/williamnwan/ TOMOMAN MotionCor2 (RRID:SCR_016499) Zheng et al., 2017106 https://emcore.ucsf.edu/cryoem-software Exposure filtering Grant and Grigorieff, 2015107 IMOD 4.11 (RRID:SCR_003297) Kremer et al., 1996108 http://bio3d.colorado.edu/imod Amira XTracing Module Rigort et al., 2012109 Amira 2021.2 (RRID:SCR_007353) Thermo Fisher Scientific https://www.thermofisher.com/sg/en/ home/electron-microscopy/products/ software-em-3d-vis/amira-software.html PyCurv(RRID:SCR_008394) Salfer et al., 2020110 https://github.com/kalemaria/pycurv TomoSegMemTV 0.85 Martinez-Sanchez et al., 2014111 https://sites.google.com/site/ 3demimageprocessing/tomosegmemtv (Continued on next page) Molecular Cell 84, 1980–1994.e1–e8, May 16, 2024 e3 .. REAGENT or RESOURCE SOURCE IDENTIFIER TOM toolbox (RRID:SCR_003220) Nickell et al., 2005112 https://www.biochem.mpg.de/6348566/ tom_e PyTom v0.971 Hrabe et al., 2012113 https://pytom.sites.uu.nl/ LisC algorithm B€auerlein et al., 2022114 https://github.com/FJBauerlein/LisC_ Algorithm Cryo-care v0.2 Buchholz et al., 2019115 https://pypi.org/project/cryoCARE/ Topaz Bepler et al., 2020116 https://emgweb.nysbc.org/topaz.html MaskTomRec Fernandez et al., 2016117 https://sites.google.com/site/ 3demimageprocessing/masktomrec AIDA v4.27.039 Elysia Raytest https://www.elysia-raytest.com/en/ cataloglight/c30 aida-image-analysissoftware Zeiss Zen (RRID:SCR_013672) http://www.zeiss.com/microscopy/en_us/ products/microscope-software/zen. html#introduction LAS X Navigator (RRID: SCR_024857) https://www.leica-microsystems.com/ products/microscope-software/p/leicalas-x-ls/

    Knock-Out:

    Article Title: Autophagy preferentially degrades non-fibrillar polyQ aggregates.
    Article Snippet: REAGENT or RESOURCE SOURCE IDENTIFIER Paraformaldehyde Sigma-Aldrich #47608 Triton X-100 Sigma-Aldrich #648466 Sucrose Sigma-Aldrich #1.07687 Opti-MEM reduced serum medium Gibco #31985062 DMEM, high glucose, GlutaMAX Gibco #10566016 Fetal bovine albumin Gibco #16000044 Penicillin-streptomycin Gibco #15140122 TrypLE Express Gibco #12604013 PBS Gibco #10010023 BSA Sigma-Aldrich #9048468 Cellulose acetate membrane GE Healthcare #10404131 nitrocellulose membrane Bio-Rad #1620150 PVDF membranes Roche #3010040001 GFP-Trap ChromTek #gtma RNeasy Mini Kit Qiagen #74004 iScript cDNA Synthesis Kit Biorad #1708890 PowerUp SYBR Green Master Mix Thermo Fisher Scientific #A25742 Syringe filters Millipore #SLVG033RS, #SLVM033RS Mesh filter Corning #352235 Quantifoil grids 200 mesh Copper R1/4 Quantifoil Micro Tools #Q29269 Quantifoil grids 200 mesh Gold R2/1 Quantifoil Micro Tools #N1-C15nAu20-01 Autogrid support Thermo Fischer Scientific Dynabeads Invitrogen #65011 Filter Paper Whatman #10311807 Deposited data Tomogram 2E This paper EMD 18110 Tomogram 3B This paper EMD 18114 Tomogram 3E This paper EMD 18115 Tomogram S4A This paper EMD 18116 Tomogram S4B This paper EMD 18117 Tomogram 5B This paper EMD 18118 Mass spectrometry datasets This paper Pride PXD04426 Raw data for microscopy and immunoblots This paper Mendeley data: https://doi.org/10.17632/ k66ygh2hy8.1 Experimental models: Cell lines HEK293 cells ATCC #CRL-1573 (RRID:CVCL_0045) Experimental models: Organisms/strains Neuro2a Htt64Q stable cell line Wang et al., 199959 RRID:CVCL_D3YS Neuro2a Htt150Q stable cell line Wang et al., 199959 RRID:CVCL_D3YT Oligonucleotides On-TARGETplus siRNA MAP1LC3A human Thermo Fisher Scientific #s39156 On-TARGETplus siRNA MAP1LC3B human Thermo Fisher Scientific #s224996 On-TARGETplus siRNA MAP1LC3C human Thermo Fisher Scientific #5s4190 On-TARGETplus siRNA P62 human Thermo Fisher Scientific D-001810 Control siRNA Thermo Fisher Scientific L-010230 MAP1LC3B CRISPR guide knockout forward: CACCGCGCGCCGTCTCC GGGAGGCA, reverse: aaacTGCCTCCC GGAGACGGCGCGC This study Benchling (Continued on next page) e2 Molecular Cell 84, 1980–1994.e1–e8, May 16, 2024 .. REAGENT or RESOURCE SOURCE IDENTIFIER MAP1LC3A CRISPR guide knockout forward: CACCGGcttccatgcagtcaggag, reverse: aaacctcctgactgcatggaagCC This study Benchling GABARAP CRISPR guide knockout forward: CACCGAAGATACGCCA CTACCTCAG; reverse: aaacCTG AGGTAGTGGCGTATCTTC This study Benchling GABARAPL2 CRISPR guide knockout forward: CACCGCATGAAGTGGATG TTCAAGG, reverse: aaacCCTTGA ACATCCACTTCATGC This study Benchling ULK1 CRISPR guide knockout forward: CACCGCCACGGTCTCTGTGCCGCCG, reverse: aaacCGGCGGCACAGAGA CCGTGGC This study Benchling Recombinant DNA Htt97Q-GFP Bence et al., 202128 Htt97Q-myc Woerner et al., 2016102 Lamp1-RFP Addgene RRID:Addgene_45147 mCherry-MAP1LC3B Addgene RRID:Addgene_40827 eGFP-MAP1LC3B-RFP Addgene RRID:Addgene_84573 Halo-WIPI2B Addgene RRID:Addgene 175025 Px330-mCherry Addgene RRID:Addgene_98750 Px458-GFP Addgene RRID:Addgene #48138 Software and algorithms Benchling (RRID:SCR_013955) https://www.benchling.com/ Fiji/ImageJ 2.15.1 (RRID:SCR_002285) Schindelin et al., 201269 https://fiji.sc/ GraphPad Prism 9.5.1 (RRID:SCR_002798) Graphstats Technologies http://www.graphpad.com/ easyFRAP Koulouras et al., 2018103 https://easyfrap.vmnet.upatras.gr/ MaxQuant v2.5.0.0 (RRID:SCR_014485) Cox and Mann, 2008104 http://www.biochem.mpg.de/5111795/ maxquant LFQ algorithm Cox et al., 201474 https://adinasarapu.github.io/posts/2018/ 04/blog-post-lfq/ Perseus 2.0.11 (RRID:SCR_015753) https://maxquant.net/perseus/ Huygens Essential 21.10.0 (RRID:SCR_014237) Scientific Volume Imaging http://svi.nl 3D-Correlation Toolbox 2.2.2 Arnold et al., 201662 https://3dct.semper.space/ SerialEM (RRID:SCR_017293) Mastronarde et al., 2005105 http://bio3d.colorado.edu/SerialEM/ MATLAB R2015b (RRID:SCR_001622) MathWorks http://www.mathworks.com/products/ matlab/ Tomoman https://github.com/williamnwan/ TOMOMAN MotionCor2 (RRID:SCR_016499) Zheng et al., 2017106 https://emcore.ucsf.edu/cryoem-software Exposure filtering Grant and Grigorieff, 2015107 IMOD 4.11 (RRID:SCR_003297) Kremer et al., 1996108 http://bio3d.colorado.edu/imod Amira XTracing Module Rigort et al., 2012109 Amira 2021.2 (RRID:SCR_007353) Thermo Fisher Scientific https://www.thermofisher.com/sg/en/ home/electron-microscopy/products/ software-em-3d-vis/amira-software.html PyCurv(RRID:SCR_008394) Salfer et al., 2020110 https://github.com/kalemaria/pycurv TomoSegMemTV 0.85 Martinez-Sanchez et al., 2014111 https://sites.google.com/site/ 3demimageprocessing/tomosegmemtv (Continued on next page) Molecular Cell 84, 1980–1994.e1–e8, May 16, 2024 e3 .. REAGENT or RESOURCE SOURCE IDENTIFIER TOM toolbox (RRID:SCR_003220) Nickell et al., 2005112 https://www.biochem.mpg.de/6348566/ tom_e PyTom v0.971 Hrabe et al., 2012113 https://pytom.sites.uu.nl/ LisC algorithm B€auerlein et al., 2022114 https://github.com/FJBauerlein/LisC_ Algorithm Cryo-care v0.2 Buchholz et al., 2019115 https://pypi.org/project/cryoCARE/ Topaz Bepler et al., 2020116 https://emgweb.nysbc.org/topaz.html MaskTomRec Fernandez et al., 2016117 https://sites.google.com/site/ 3demimageprocessing/masktomrec AIDA v4.27.039 Elysia Raytest https://www.elysia-raytest.com/en/ cataloglight/c30 aida-image-analysissoftware Zeiss Zen (RRID:SCR_013672) http://www.zeiss.com/microscopy/en_us/ products/microscope-software/zen. html#introduction LAS X Navigator (RRID: SCR_024857) https://www.leica-microsystems.com/ products/microscope-software/p/leicalas-x-ls/

    Recombinant:

    Article Title: Autophagy preferentially degrades non-fibrillar polyQ aggregates.
    Article Snippet: REAGENT or RESOURCE SOURCE IDENTIFIER Paraformaldehyde Sigma-Aldrich #47608 Triton X-100 Sigma-Aldrich #648466 Sucrose Sigma-Aldrich #1.07687 Opti-MEM reduced serum medium Gibco #31985062 DMEM, high glucose, GlutaMAX Gibco #10566016 Fetal bovine albumin Gibco #16000044 Penicillin-streptomycin Gibco #15140122 TrypLE Express Gibco #12604013 PBS Gibco #10010023 BSA Sigma-Aldrich #9048468 Cellulose acetate membrane GE Healthcare #10404131 nitrocellulose membrane Bio-Rad #1620150 PVDF membranes Roche #3010040001 GFP-Trap ChromTek #gtma RNeasy Mini Kit Qiagen #74004 iScript cDNA Synthesis Kit Biorad #1708890 PowerUp SYBR Green Master Mix Thermo Fisher Scientific #A25742 Syringe filters Millipore #SLVG033RS, #SLVM033RS Mesh filter Corning #352235 Quantifoil grids 200 mesh Copper R1/4 Quantifoil Micro Tools #Q29269 Quantifoil grids 200 mesh Gold R2/1 Quantifoil Micro Tools #N1-C15nAu20-01 Autogrid support Thermo Fischer Scientific Dynabeads Invitrogen #65011 Filter Paper Whatman #10311807 Deposited data Tomogram 2E This paper EMD 18110 Tomogram 3B This paper EMD 18114 Tomogram 3E This paper EMD 18115 Tomogram S4A This paper EMD 18116 Tomogram S4B This paper EMD 18117 Tomogram 5B This paper EMD 18118 Mass spectrometry datasets This paper Pride PXD04426 Raw data for microscopy and immunoblots This paper Mendeley data: https://doi.org/10.17632/ k66ygh2hy8.1 Experimental models: Cell lines HEK293 cells ATCC #CRL-1573 (RRID:CVCL_0045) Experimental models: Organisms/strains Neuro2a Htt64Q stable cell line Wang et al., 199959 RRID:CVCL_D3YS Neuro2a Htt150Q stable cell line Wang et al., 199959 RRID:CVCL_D3YT Oligonucleotides On-TARGETplus siRNA MAP1LC3A human Thermo Fisher Scientific #s39156 On-TARGETplus siRNA MAP1LC3B human Thermo Fisher Scientific #s224996 On-TARGETplus siRNA MAP1LC3C human Thermo Fisher Scientific #5s4190 On-TARGETplus siRNA P62 human Thermo Fisher Scientific D-001810 Control siRNA Thermo Fisher Scientific L-010230 MAP1LC3B CRISPR guide knockout forward: CACCGCGCGCCGTCTCC GGGAGGCA, reverse: aaacTGCCTCCC GGAGACGGCGCGC This study Benchling (Continued on next page) e2 Molecular Cell 84, 1980–1994.e1–e8, May 16, 2024 .. REAGENT or RESOURCE SOURCE IDENTIFIER MAP1LC3A CRISPR guide knockout forward: CACCGGcttccatgcagtcaggag, reverse: aaacctcctgactgcatggaagCC This study Benchling GABARAP CRISPR guide knockout forward: CACCGAAGATACGCCA CTACCTCAG; reverse: aaacCTG AGGTAGTGGCGTATCTTC This study Benchling GABARAPL2 CRISPR guide knockout forward: CACCGCATGAAGTGGATG TTCAAGG, reverse: aaacCCTTGA ACATCCACTTCATGC This study Benchling ULK1 CRISPR guide knockout forward: CACCGCCACGGTCTCTGTGCCGCCG, reverse: aaacCGGCGGCACAGAGA CCGTGGC This study Benchling Recombinant DNA Htt97Q-GFP Bence et al., 202128 Htt97Q-myc Woerner et al., 2016102 Lamp1-RFP Addgene RRID:Addgene_45147 mCherry-MAP1LC3B Addgene RRID:Addgene_40827 eGFP-MAP1LC3B-RFP Addgene RRID:Addgene_84573 Halo-WIPI2B Addgene RRID:Addgene 175025 Px330-mCherry Addgene RRID:Addgene_98750 Px458-GFP Addgene RRID:Addgene #48138 Software and algorithms Benchling (RRID:SCR_013955) https://www.benchling.com/ Fiji/ImageJ 2.15.1 (RRID:SCR_002285) Schindelin et al., 201269 https://fiji.sc/ GraphPad Prism 9.5.1 (RRID:SCR_002798) Graphstats Technologies http://www.graphpad.com/ easyFRAP Koulouras et al., 2018103 https://easyfrap.vmnet.upatras.gr/ MaxQuant v2.5.0.0 (RRID:SCR_014485) Cox and Mann, 2008104 http://www.biochem.mpg.de/5111795/ maxquant LFQ algorithm Cox et al., 201474 https://adinasarapu.github.io/posts/2018/ 04/blog-post-lfq/ Perseus 2.0.11 (RRID:SCR_015753) https://maxquant.net/perseus/ Huygens Essential 21.10.0 (RRID:SCR_014237) Scientific Volume Imaging http://svi.nl 3D-Correlation Toolbox 2.2.2 Arnold et al., 201662 https://3dct.semper.space/ SerialEM (RRID:SCR_017293) Mastronarde et al., 2005105 http://bio3d.colorado.edu/SerialEM/ MATLAB R2015b (RRID:SCR_001622) MathWorks http://www.mathworks.com/products/ matlab/ Tomoman https://github.com/williamnwan/ TOMOMAN MotionCor2 (RRID:SCR_016499) Zheng et al., 2017106 https://emcore.ucsf.edu/cryoem-software Exposure filtering Grant and Grigorieff, 2015107 IMOD 4.11 (RRID:SCR_003297) Kremer et al., 1996108 http://bio3d.colorado.edu/imod Amira XTracing Module Rigort et al., 2012109 Amira 2021.2 (RRID:SCR_007353) Thermo Fisher Scientific https://www.thermofisher.com/sg/en/ home/electron-microscopy/products/ software-em-3d-vis/amira-software.html PyCurv(RRID:SCR_008394) Salfer et al., 2020110 https://github.com/kalemaria/pycurv TomoSegMemTV 0.85 Martinez-Sanchez et al., 2014111 https://sites.google.com/site/ 3demimageprocessing/tomosegmemtv (Continued on next page) Molecular Cell 84, 1980–1994.e1–e8, May 16, 2024 e3 .. REAGENT or RESOURCE SOURCE IDENTIFIER TOM toolbox (RRID:SCR_003220) Nickell et al., 2005112 https://www.biochem.mpg.de/6348566/ tom_e PyTom v0.971 Hrabe et al., 2012113 https://pytom.sites.uu.nl/ LisC algorithm B€auerlein et al., 2022114 https://github.com/FJBauerlein/LisC_ Algorithm Cryo-care v0.2 Buchholz et al., 2019115 https://pypi.org/project/cryoCARE/ Topaz Bepler et al., 2020116 https://emgweb.nysbc.org/topaz.html MaskTomRec Fernandez et al., 2016117 https://sites.google.com/site/ 3demimageprocessing/masktomrec AIDA v4.27.039 Elysia Raytest https://www.elysia-raytest.com/en/ cataloglight/c30 aida-image-analysissoftware Zeiss Zen (RRID:SCR_013672) http://www.zeiss.com/microscopy/en_us/ products/microscope-software/zen. html#introduction LAS X Navigator (RRID: SCR_024857) https://www.leica-microsystems.com/ products/microscope-software/p/leicalas-x-ls/

    Software:

    Article Title: Autophagy preferentially degrades non-fibrillar polyQ aggregates.
    Article Snippet: REAGENT or RESOURCE SOURCE IDENTIFIER Paraformaldehyde Sigma-Aldrich #47608 Triton X-100 Sigma-Aldrich #648466 Sucrose Sigma-Aldrich #1.07687 Opti-MEM reduced serum medium Gibco #31985062 DMEM, high glucose, GlutaMAX Gibco #10566016 Fetal bovine albumin Gibco #16000044 Penicillin-streptomycin Gibco #15140122 TrypLE Express Gibco #12604013 PBS Gibco #10010023 BSA Sigma-Aldrich #9048468 Cellulose acetate membrane GE Healthcare #10404131 nitrocellulose membrane Bio-Rad #1620150 PVDF membranes Roche #3010040001 GFP-Trap ChromTek #gtma RNeasy Mini Kit Qiagen #74004 iScript cDNA Synthesis Kit Biorad #1708890 PowerUp SYBR Green Master Mix Thermo Fisher Scientific #A25742 Syringe filters Millipore #SLVG033RS, #SLVM033RS Mesh filter Corning #352235 Quantifoil grids 200 mesh Copper R1/4 Quantifoil Micro Tools #Q29269 Quantifoil grids 200 mesh Gold R2/1 Quantifoil Micro Tools #N1-C15nAu20-01 Autogrid support Thermo Fischer Scientific Dynabeads Invitrogen #65011 Filter Paper Whatman #10311807 Deposited data Tomogram 2E This paper EMD 18110 Tomogram 3B This paper EMD 18114 Tomogram 3E This paper EMD 18115 Tomogram S4A This paper EMD 18116 Tomogram S4B This paper EMD 18117 Tomogram 5B This paper EMD 18118 Mass spectrometry datasets This paper Pride PXD04426 Raw data for microscopy and immunoblots This paper Mendeley data: https://doi.org/10.17632/ k66ygh2hy8.1 Experimental models: Cell lines HEK293 cells ATCC #CRL-1573 (RRID:CVCL_0045) Experimental models: Organisms/strains Neuro2a Htt64Q stable cell line Wang et al., 199959 RRID:CVCL_D3YS Neuro2a Htt150Q stable cell line Wang et al., 199959 RRID:CVCL_D3YT Oligonucleotides On-TARGETplus siRNA MAP1LC3A human Thermo Fisher Scientific #s39156 On-TARGETplus siRNA MAP1LC3B human Thermo Fisher Scientific #s224996 On-TARGETplus siRNA MAP1LC3C human Thermo Fisher Scientific #5s4190 On-TARGETplus siRNA P62 human Thermo Fisher Scientific D-001810 Control siRNA Thermo Fisher Scientific L-010230 MAP1LC3B CRISPR guide knockout forward: CACCGCGCGCCGTCTCC GGGAGGCA, reverse: aaacTGCCTCCC GGAGACGGCGCGC This study Benchling (Continued on next page) e2 Molecular Cell 84, 1980–1994.e1–e8, May 16, 2024 .. REAGENT or RESOURCE SOURCE IDENTIFIER MAP1LC3A CRISPR guide knockout forward: CACCGGcttccatgcagtcaggag, reverse: aaacctcctgactgcatggaagCC This study Benchling GABARAP CRISPR guide knockout forward: CACCGAAGATACGCCA CTACCTCAG; reverse: aaacCTG AGGTAGTGGCGTATCTTC This study Benchling GABARAPL2 CRISPR guide knockout forward: CACCGCATGAAGTGGATG TTCAAGG, reverse: aaacCCTTGA ACATCCACTTCATGC This study Benchling ULK1 CRISPR guide knockout forward: CACCGCCACGGTCTCTGTGCCGCCG, reverse: aaacCGGCGGCACAGAGA CCGTGGC This study Benchling Recombinant DNA Htt97Q-GFP Bence et al., 202128 Htt97Q-myc Woerner et al., 2016102 Lamp1-RFP Addgene RRID:Addgene_45147 mCherry-MAP1LC3B Addgene RRID:Addgene_40827 eGFP-MAP1LC3B-RFP Addgene RRID:Addgene_84573 Halo-WIPI2B Addgene RRID:Addgene 175025 Px330-mCherry Addgene RRID:Addgene_98750 Px458-GFP Addgene RRID:Addgene #48138 Software and algorithms Benchling (RRID:SCR_013955) https://www.benchling.com/ Fiji/ImageJ 2.15.1 (RRID:SCR_002285) Schindelin et al., 201269 https://fiji.sc/ GraphPad Prism 9.5.1 (RRID:SCR_002798) Graphstats Technologies http://www.graphpad.com/ easyFRAP Koulouras et al., 2018103 https://easyfrap.vmnet.upatras.gr/ MaxQuant v2.5.0.0 (RRID:SCR_014485) Cox and Mann, 2008104 http://www.biochem.mpg.de/5111795/ maxquant LFQ algorithm Cox et al., 201474 https://adinasarapu.github.io/posts/2018/ 04/blog-post-lfq/ Perseus 2.0.11 (RRID:SCR_015753) https://maxquant.net/perseus/ Huygens Essential 21.10.0 (RRID:SCR_014237) Scientific Volume Imaging http://svi.nl 3D-Correlation Toolbox 2.2.2 Arnold et al., 201662 https://3dct.semper.space/ SerialEM (RRID:SCR_017293) Mastronarde et al., 2005105 http://bio3d.colorado.edu/SerialEM/ MATLAB R2015b (RRID:SCR_001622) MathWorks http://www.mathworks.com/products/ matlab/ Tomoman https://github.com/williamnwan/ TOMOMAN MotionCor2 (RRID:SCR_016499) Zheng et al., 2017106 https://emcore.ucsf.edu/cryoem-software Exposure filtering Grant and Grigorieff, 2015107 IMOD 4.11 (RRID:SCR_003297) Kremer et al., 1996108 http://bio3d.colorado.edu/imod Amira XTracing Module Rigort et al., 2012109 Amira 2021.2 (RRID:SCR_007353) Thermo Fisher Scientific https://www.thermofisher.com/sg/en/ home/electron-microscopy/products/ software-em-3d-vis/amira-software.html PyCurv(RRID:SCR_008394) Salfer et al., 2020110 https://github.com/kalemaria/pycurv TomoSegMemTV 0.85 Martinez-Sanchez et al., 2014111 https://sites.google.com/site/ 3demimageprocessing/tomosegmemtv (Continued on next page) Molecular Cell 84, 1980–1994.e1–e8, May 16, 2024 e3 .. REAGENT or RESOURCE SOURCE IDENTIFIER TOM toolbox (RRID:SCR_003220) Nickell et al., 2005112 https://www.biochem.mpg.de/6348566/ tom_e PyTom v0.971 Hrabe et al., 2012113 https://pytom.sites.uu.nl/ LisC algorithm B€auerlein et al., 2022114 https://github.com/FJBauerlein/LisC_ Algorithm Cryo-care v0.2 Buchholz et al., 2019115 https://pypi.org/project/cryoCARE/ Topaz Bepler et al., 2020116 https://emgweb.nysbc.org/topaz.html MaskTomRec Fernandez et al., 2016117 https://sites.google.com/site/ 3demimageprocessing/masktomrec AIDA v4.27.039 Elysia Raytest https://www.elysia-raytest.com/en/ cataloglight/c30 aida-image-analysissoftware Zeiss Zen (RRID:SCR_013672) http://www.zeiss.com/microscopy/en_us/ products/microscope-software/zen. html#introduction LAS X Navigator (RRID: SCR_024857) https://www.leica-microsystems.com/ products/microscope-software/p/leicalas-x-ls/

    Imaging:

    Article Title: Autophagy preferentially degrades non-fibrillar polyQ aggregates.
    Article Snippet: REAGENT or RESOURCE SOURCE IDENTIFIER Paraformaldehyde Sigma-Aldrich #47608 Triton X-100 Sigma-Aldrich #648466 Sucrose Sigma-Aldrich #1.07687 Opti-MEM reduced serum medium Gibco #31985062 DMEM, high glucose, GlutaMAX Gibco #10566016 Fetal bovine albumin Gibco #16000044 Penicillin-streptomycin Gibco #15140122 TrypLE Express Gibco #12604013 PBS Gibco #10010023 BSA Sigma-Aldrich #9048468 Cellulose acetate membrane GE Healthcare #10404131 nitrocellulose membrane Bio-Rad #1620150 PVDF membranes Roche #3010040001 GFP-Trap ChromTek #gtma RNeasy Mini Kit Qiagen #74004 iScript cDNA Synthesis Kit Biorad #1708890 PowerUp SYBR Green Master Mix Thermo Fisher Scientific #A25742 Syringe filters Millipore #SLVG033RS, #SLVM033RS Mesh filter Corning #352235 Quantifoil grids 200 mesh Copper R1/4 Quantifoil Micro Tools #Q29269 Quantifoil grids 200 mesh Gold R2/1 Quantifoil Micro Tools #N1-C15nAu20-01 Autogrid support Thermo Fischer Scientific Dynabeads Invitrogen #65011 Filter Paper Whatman #10311807 Deposited data Tomogram 2E This paper EMD 18110 Tomogram 3B This paper EMD 18114 Tomogram 3E This paper EMD 18115 Tomogram S4A This paper EMD 18116 Tomogram S4B This paper EMD 18117 Tomogram 5B This paper EMD 18118 Mass spectrometry datasets This paper Pride PXD04426 Raw data for microscopy and immunoblots This paper Mendeley data: https://doi.org/10.17632/ k66ygh2hy8.1 Experimental models: Cell lines HEK293 cells ATCC #CRL-1573 (RRID:CVCL_0045) Experimental models: Organisms/strains Neuro2a Htt64Q stable cell line Wang et al., 199959 RRID:CVCL_D3YS Neuro2a Htt150Q stable cell line Wang et al., 199959 RRID:CVCL_D3YT Oligonucleotides On-TARGETplus siRNA MAP1LC3A human Thermo Fisher Scientific #s39156 On-TARGETplus siRNA MAP1LC3B human Thermo Fisher Scientific #s224996 On-TARGETplus siRNA MAP1LC3C human Thermo Fisher Scientific #5s4190 On-TARGETplus siRNA P62 human Thermo Fisher Scientific D-001810 Control siRNA Thermo Fisher Scientific L-010230 MAP1LC3B CRISPR guide knockout forward: CACCGCGCGCCGTCTCC GGGAGGCA, reverse: aaacTGCCTCCC GGAGACGGCGCGC This study Benchling (Continued on next page) e2 Molecular Cell 84, 1980–1994.e1–e8, May 16, 2024 .. REAGENT or RESOURCE SOURCE IDENTIFIER MAP1LC3A CRISPR guide knockout forward: CACCGGcttccatgcagtcaggag, reverse: aaacctcctgactgcatggaagCC This study Benchling GABARAP CRISPR guide knockout forward: CACCGAAGATACGCCA CTACCTCAG; reverse: aaacCTG AGGTAGTGGCGTATCTTC This study Benchling GABARAPL2 CRISPR guide knockout forward: CACCGCATGAAGTGGATG TTCAAGG, reverse: aaacCCTTGA ACATCCACTTCATGC This study Benchling ULK1 CRISPR guide knockout forward: CACCGCCACGGTCTCTGTGCCGCCG, reverse: aaacCGGCGGCACAGAGA CCGTGGC This study Benchling Recombinant DNA Htt97Q-GFP Bence et al., 202128 Htt97Q-myc Woerner et al., 2016102 Lamp1-RFP Addgene RRID:Addgene_45147 mCherry-MAP1LC3B Addgene RRID:Addgene_40827 eGFP-MAP1LC3B-RFP Addgene RRID:Addgene_84573 Halo-WIPI2B Addgene RRID:Addgene 175025 Px330-mCherry Addgene RRID:Addgene_98750 Px458-GFP Addgene RRID:Addgene #48138 Software and algorithms Benchling (RRID:SCR_013955) https://www.benchling.com/ Fiji/ImageJ 2.15.1 (RRID:SCR_002285) Schindelin et al., 201269 https://fiji.sc/ GraphPad Prism 9.5.1 (RRID:SCR_002798) Graphstats Technologies http://www.graphpad.com/ easyFRAP Koulouras et al., 2018103 https://easyfrap.vmnet.upatras.gr/ MaxQuant v2.5.0.0 (RRID:SCR_014485) Cox and Mann, 2008104 http://www.biochem.mpg.de/5111795/ maxquant LFQ algorithm Cox et al., 201474 https://adinasarapu.github.io/posts/2018/ 04/blog-post-lfq/ Perseus 2.0.11 (RRID:SCR_015753) https://maxquant.net/perseus/ Huygens Essential 21.10.0 (RRID:SCR_014237) Scientific Volume Imaging http://svi.nl 3D-Correlation Toolbox 2.2.2 Arnold et al., 201662 https://3dct.semper.space/ SerialEM (RRID:SCR_017293) Mastronarde et al., 2005105 http://bio3d.colorado.edu/SerialEM/ MATLAB R2015b (RRID:SCR_001622) MathWorks http://www.mathworks.com/products/ matlab/ Tomoman https://github.com/williamnwan/ TOMOMAN MotionCor2 (RRID:SCR_016499) Zheng et al., 2017106 https://emcore.ucsf.edu/cryoem-software Exposure filtering Grant and Grigorieff, 2015107 IMOD 4.11 (RRID:SCR_003297) Kremer et al., 1996108 http://bio3d.colorado.edu/imod Amira XTracing Module Rigort et al., 2012109 Amira 2021.2 (RRID:SCR_007353) Thermo Fisher Scientific https://www.thermofisher.com/sg/en/ home/electron-microscopy/products/ software-em-3d-vis/amira-software.html PyCurv(RRID:SCR_008394) Salfer et al., 2020110 https://github.com/kalemaria/pycurv TomoSegMemTV 0.85 Martinez-Sanchez et al., 2014111 https://sites.google.com/site/ 3demimageprocessing/tomosegmemtv (Continued on next page) Molecular Cell 84, 1980–1994.e1–e8, May 16, 2024 e3 .. REAGENT or RESOURCE SOURCE IDENTIFIER TOM toolbox (RRID:SCR_003220) Nickell et al., 2005112 https://www.biochem.mpg.de/6348566/ tom_e PyTom v0.971 Hrabe et al., 2012113 https://pytom.sites.uu.nl/ LisC algorithm B€auerlein et al., 2022114 https://github.com/FJBauerlein/LisC_ Algorithm Cryo-care v0.2 Buchholz et al., 2019115 https://pypi.org/project/cryoCARE/ Topaz Bepler et al., 2020116 https://emgweb.nysbc.org/topaz.html MaskTomRec Fernandez et al., 2016117 https://sites.google.com/site/ 3demimageprocessing/masktomrec AIDA v4.27.039 Elysia Raytest https://www.elysia-raytest.com/en/ cataloglight/c30 aida-image-analysissoftware Zeiss Zen (RRID:SCR_013672) http://www.zeiss.com/microscopy/en_us/ products/microscope-software/zen. html#introduction LAS X Navigator (RRID: SCR_024857) https://www.leica-microsystems.com/ products/microscope-software/p/leicalas-x-ls/



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