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rabbit polyclonal anti glua1  (Millipore)


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    Millipore rabbit polyclonal anti glua1
    (A–D) GLUA2 protein level is decreased at intracortical synapses in Gpc5 cKO mice at P28. (A) Immunostaining of intracortical presynaptic VGLUT1 and postsynaptic GLUA2 in L2/3. (B–D) Numbers of VGLUT1 (B), GLUA2 (C), and colocalized (D) puncta. N = 5 mice/condition. (E–H) <t>GLUA1</t> protein level is unchanged at intracortical synapses in Gpc5 cKO mice at P28. (E) Immunostaining of presynaptic VGLUT1 and postsynaptic GLUA1 in L2/3. (F–H) Numbers of VGLUT1 (F), GLUA1 (G), and colocalized (H) puncta. N = 6 mice/condition. (I–P) Thalamocortical synapses have unaltered AMPAR levels in Gpc5 cKO mice at P28. (I) Immunostaining of thalamocortical presynaptic VGLUT2 and postsynaptic GLUA2 in L4. (J–L) Numbers of VGLUT2 (J), GLUA2 (K), and colocalized (L) puncta. N = 5 mice/condition. (M) Immunostaining of thalamocortical presynaptic VGLUT2 and postsynaptic GLUA1 in L4. (N–P) Numbers of VGLUT2 (N), GLUA1 (O), and colocalized (P) puncta. N = 5 mice/condition. (Q–S) VGLUT2 puncta volume is decreased in P28 Gpc5 cKO mice. (Q) Immunostaining of VGLUT2 puncta in L1 VC. (R and S) VGLUT2 puncta volume in L1 and L4. N = 6 mice/condition L1, N = 5 mice/condition L4. (T) Summary of synaptic changes in Gpc5 cKO mice at P28. Scale bars: 5 μm (A, E, I, M, and Q, main) and 1 μm (A, E, I, and M, magnified). Graphs: mean ± SEM. Individual data points represent mice. Statistics: t test. See also .
    Rabbit Polyclonal Anti Glua1, supplied by Millipore, used in various techniques. Bioz Stars score: 90/100, based on 1 PubMed citations. ZERO BIAS - scores, article reviews, protocol conditions and more
    https://www.bioz.com/product/rabbit+polyclonal+anti-glua1/glua1+antibody/pmc12013928-2-0-5
    Average 90 stars, based on 1 article reviews
    rabbit polyclonal anti glua1 - by Bioz Stars, 2026-09
    90/100 stars

    Images

    1) Product Images from "Astrocyte glypican 5 regulates synapse maturation and stabilization"

    Article Title: Astrocyte glypican 5 regulates synapse maturation and stabilization

    Journal: Cell reports

    doi: 10.1016/j.celrep.2025.115374

    (A–D) GLUA2 protein level is decreased at intracortical synapses in Gpc5 cKO mice at P28. (A) Immunostaining of intracortical presynaptic VGLUT1 and postsynaptic GLUA2 in L2/3. (B–D) Numbers of VGLUT1 (B), GLUA2 (C), and colocalized (D) puncta. N = 5 mice/condition. (E–H) GLUA1 protein level is unchanged at intracortical synapses in Gpc5 cKO mice at P28. (E) Immunostaining of presynaptic VGLUT1 and postsynaptic GLUA1 in L2/3. (F–H) Numbers of VGLUT1 (F), GLUA1 (G), and colocalized (H) puncta. N = 6 mice/condition. (I–P) Thalamocortical synapses have unaltered AMPAR levels in Gpc5 cKO mice at P28. (I) Immunostaining of thalamocortical presynaptic VGLUT2 and postsynaptic GLUA2 in L4. (J–L) Numbers of VGLUT2 (J), GLUA2 (K), and colocalized (L) puncta. N = 5 mice/condition. (M) Immunostaining of thalamocortical presynaptic VGLUT2 and postsynaptic GLUA1 in L4. (N–P) Numbers of VGLUT2 (N), GLUA1 (O), and colocalized (P) puncta. N = 5 mice/condition. (Q–S) VGLUT2 puncta volume is decreased in P28 Gpc5 cKO mice. (Q) Immunostaining of VGLUT2 puncta in L1 VC. (R and S) VGLUT2 puncta volume in L1 and L4. N = 6 mice/condition L1, N = 5 mice/condition L4. (T) Summary of synaptic changes in Gpc5 cKO mice at P28. Scale bars: 5 μm (A, E, I, M, and Q, main) and 1 μm (A, E, I, and M, magnified). Graphs: mean ± SEM. Individual data points represent mice. Statistics: t test. See also .
    Figure Legend Snippet: (A–D) GLUA2 protein level is decreased at intracortical synapses in Gpc5 cKO mice at P28. (A) Immunostaining of intracortical presynaptic VGLUT1 and postsynaptic GLUA2 in L2/3. (B–D) Numbers of VGLUT1 (B), GLUA2 (C), and colocalized (D) puncta. N = 5 mice/condition. (E–H) GLUA1 protein level is unchanged at intracortical synapses in Gpc5 cKO mice at P28. (E) Immunostaining of presynaptic VGLUT1 and postsynaptic GLUA1 in L2/3. (F–H) Numbers of VGLUT1 (F), GLUA1 (G), and colocalized (H) puncta. N = 6 mice/condition. (I–P) Thalamocortical synapses have unaltered AMPAR levels in Gpc5 cKO mice at P28. (I) Immunostaining of thalamocortical presynaptic VGLUT2 and postsynaptic GLUA2 in L4. (J–L) Numbers of VGLUT2 (J), GLUA2 (K), and colocalized (L) puncta. N = 5 mice/condition. (M) Immunostaining of thalamocortical presynaptic VGLUT2 and postsynaptic GLUA1 in L4. (N–P) Numbers of VGLUT2 (N), GLUA1 (O), and colocalized (P) puncta. N = 5 mice/condition. (Q–S) VGLUT2 puncta volume is decreased in P28 Gpc5 cKO mice. (Q) Immunostaining of VGLUT2 puncta in L1 VC. (R and S) VGLUT2 puncta volume in L1 and L4. N = 6 mice/condition L1, N = 5 mice/condition L4. (T) Summary of synaptic changes in Gpc5 cKO mice at P28. Scale bars: 5 μm (A, E, I, M, and Q, main) and 1 μm (A, E, I, and M, magnified). Graphs: mean ± SEM. Individual data points represent mice. Statistics: t test. See also .

    Techniques Used: Immunostaining

    KEY RESOURCES TABLE
    Figure Legend Snippet: KEY RESOURCES TABLE

    Techniques Used: Recombinant, Modification, Saline, RNAscope, Multiplex Assay, Electron Microscopy, Negative Control, Software, Cell Culture, Fluorescence, Microscopy, Hybridization

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    Control:

    Article Title: miR-329– and miR-495–mediated Prr7 down-regulation is required for homeostatic synaptic depression in rat hippocampal neurons
    Article Snippet: Secondary antibodies in Triton/NGS/PBS were applied for 1 h. The following primary antibodies were used: rabbit polyclonal anti-Prr7 (200 ng/ml, PA5-61266; Invitrogen), chicken monoclonal anti-Map2 (1:5,000 dilution, PA1-16751; Thermo Fisher Scientific), rabbit polyclonal anti-SPAR (1:1,500 dilution, kind gift of DT Pak), rabbit polyclonal anti-GluA1 (PC246 Calbiochem EMD Biosciences, or ABN241 Sigma-Aldrich at final concentrations 1 μg/ml for whole-cell staining, 2 μg/ml for surface staining), rabbit anti-Synapsin1 (AB1543, 1:1,000; Merck Millipore), and mouse anti-PSD-95 (810401, 1:200; BioLegend).

    Article Title: Huntingtin coordinates dendritic spine morphology and function through cofilin-mediated control of the actin cytoskeleton.
    Article Snippet: REAGENT or RESOURCE SOURCE IDENTIFIER Antibodies Mouse monoclonal anti-actin Sigma Cat# A5441; RRID: AB_476744 Mouse monoclonal anti-mCherry Abcam Cat# AB125096; RRID: AB_11133266 Mouse monoclonal anti-PSD95 Millipore Cat# MAB1598; RRID: AB_94278 Mouse monoclonal anti-RAC1 Millipore Cat# 05-389; RRID: AB_309712 Rabbit polyclonal anti-RAC1 Thermo Fischer Cat# PA1-091; RRID: AB_2539856 Mouse monoclonal anti-synaptophysin Sigma Cat# S5768; RRID: AB_477523 Rabbit monoclonal anti-cofilin Cell Signaling Cat# 5175; RRID: AB_10622000 Rabbit monoclonal anti-phospho-cofilin Cell Signaling Cat# 3313; RRID: AB_2080597 Rabbit polyclonal anti-GFP Institut Curie N/A Rabbit polyclonal anti-GLUA1 Millipore Cat# AB1504; RRID: AB_2113602 Rabbit monoclonal anti-HTT (D7F7) Cell Signaling Cat# 5656; RRID: AB_10827977 Mouse anti-HTT (4C8) MilliporeSi Cat# MAB2166; RRID: AB_2123255 Rabbit polyclonal anti-LIMK Cell Signaling Cat# 3842; RRID: AB_2281332 Rabbit polyclonal anti-phospho-LIMK Cell Signaling Cat# 3841; RRID: AB_2136943 Rabbit polyclonal anti-TRIO Centre de Recherche en Biologie cellulaire de Montpellier, CRBM Generated as in DeGeer et al., 2013 N/A Rabbit polyclonal anti-SRGAP2 Proteintech Cat# 22519-1-AP; RRID: AB_2879114 Chemicals B27 supplement Thermo Fisher Cat# 17504044 Bicuculline methiodide Sigma Cat# 14343 CaCl2 Sigma Cat# C5080 Calcium chloride solution Sigma Cat# 21115 EGTA Sigma Cat# 4378 Dako Fluorescent mounting medium Agilent Cat# S302380-2 D-(+)-Glucose Sigma Cat# G7528 Glutamax Thermo Fischer Cat# 35050038 Glycine hydrochloride Sigma Cat# G2879 HEPES Euromedex Cat#10-110-C KCl Sigma Cat# P9333 Lipofectamine 3000 Thermo Fischer Cat# L3000001 Magnesium sulfate solution Sigma Cat# M3409 MgATP Sigma Cat# A9187 MgSO4 Sigma Cat# M5921 NaCl Sigma Cat# S7653 NaGTP Sigma Cat# G8877 NaHCO3 Sigma Cat# S5761 NaH2PO4 Sigma Cat# S0751 Penicillin/streptomycin Thermo Fischer Cat# 15140122 PFA formaldehyde 32% Euromedex Cat# 15714-S Phosphocreatine disodium hydrate Sigma Cat# P7936 Poly L Lysine Sigma Cat# P6282 Potassium gluconate Sigma Cat# P1847 Strychnine hydrochoride Sigma Cat# S8753 (Continued on next page) e1 Cell Reports 40, 111261, August 30, 2022

    Article Title: Disuse plasticity limits spinal cord injury recovery
    Article Snippet: Compound Sakura Finetek Cat# 4583 Vectashield Mounting Medium with DAPI Vector Laboratories Cat# H-1200-10 Critical commercial assays Jo urn al Pr e-p roo f Phosphorylated Neurofilament H Human ELISA BioVendor Cat# RD191138300R Corticosterone EIA IDS Cat# AC-14F1 BCA Protein Assay Kit Pierce Cat# 23225 Deposited data Raw data This paper https://doi.org/10.3494 5/F52P4M Experimental models: Organisms/strains Sprague-Dawley Rat Charles River Laboratories RRID: MGI: 5651135 Software and algorithms Kinema Tracer System Kissei Comtec http://www.kinematrac er.com/ Odyssey Application Software Version 3.0 LI-COR Biosciences RRID: SCR_014579 NIS Elements Imaging Software Nikon Instruments RRID: SCR_014329; https://calm.ucsf.edu/h ardware-and-softwareimage-analysis ImageJ NIH RRID: SCR_003070 AutoQuant Media Cybernetics RRID: SCR_002465 MetaMorph Automation and Image Analysis Software Molecular Devices RRID: SCR_002368 Adobe Photoshop Adobe RRID: SCR_014199 SPSS Statistics version 26.0 IBM RRID: SCR_016479 Graphpad Prism Graphpad RRID: SCR_002798 Adobe Illustrator Adobe RRID: SCR_010279 Other Infinite Horizon Impactor Precision Systems and Instrumentation IH-0400; https://psiimpactors.co m/product/ih400/ Treadmill Muromachi Kikai MK-680; https://muromachi.com /en/archives/english/19 36/ Biological Amplifier Nihon Kohden NEC Biotop 6R12; https://doi.org/10.1371/ journal.pone.0171937 AD Converter Cambridge Electronic Design Limited Micro 1401; https://ced.co.uk/produ cts/microwaveformio Constant Current Stimulator Digitimer DS7A; https://www.digitimer.c om/product/humanneurophysiology/periph eral-stimulators/ds7ads7ah-hv-currentstimulator/ Jo urn al P e-p roo f Plate Reader Tecan GENios; https://www.tecan.com/ customer-news/geniosan-innovativedetection-device-thatdelivers-flexibility-tothe-molecular-biologylaboratory-2347 Infrared Imaging System LI-COR Biosciences Odyssey Infrared Imaging System; RRID: SCR_023765; https://doi.org/10.1038/ s41598-024-70096-0 Cryostat Leica Biosystems CM1950; RRID: SCR_018061; https://www.leicabiosys tems.com/us/histologyequipment/cryostats/lei ca-cm1950/ Inverted Microscope Nikon Instruments ECLIPSE Ti inverted microscope system; RRID: SCR_021242; https://calm.ucsf.edu/c su-22-spinning-diskconfocal Spinning Disk Confocal Microscope Yokogawa Electric Corporation CSU-22; RRID: SCR_020907; https://calm.ucsf.edu/c su-22-spinning-diskconfocal Jo urn al Pr e-p roo f

    Article Title: Disuse plasticity limits spinal cord injury recovery
    Article Snippet: Polyacrylamide gel electrophoresis was performed by loading 10 μg of protein per sample into an individual lane of a precast 10-20% Tris-HCl polyacrylamide gel with three independent replications according to a randomized counterbalancing fashion blindly., Protein was transferred to a nitrocellulose membrane, blocked, and probed with primary antibodies: rabbit polyclonal anti-GluA1 (1:200; Millipore, Billerica, MA; Cat# AB1504, RRID: AB_2113602 ), rabbit polyclonal anti-GluA2 (1:200; Millipore; AB1768-25UG, RRID: AB_2247874 ), rabbit monoclonal anti-pS831-GluA1 (1:200; Millipore; Cat# 04-823, RRID: AB_1977218 ), rabbit polyclonal anti-pS880-GluA2 (1:200; Millipore; Cat# 07-294, RRID: AB_568822 ), and mouse monoclonal anti-β-Actin as a loading control (1:1500; BD Biosciences; Cat# 612657, RRID: AB_399901 ) in blocking buffer.

    Article Title: Absence of chordin-like 1 aids motor recovery in a mouse model of stroke
    Article Snippet: Sections were then incubated with the corresponding primary antibodies: rabbit polyclonal anti-GluA2 (dilution 1:1000, Millipore AB1768-I, RRID: AB_2922404), rabbit polyclonal anti-GluA1 (dilution 1:400, Millipore AB1504, RRID:AB_2113602) or rabbit polyclonal anti-PSD95 (dilution 1:400, Invitrogen 51-6900) in combination with guinea pig polyclonal anti-VGlut1 (dilution 1:2000, Millipore AB5905, RRID:AB_2301751) in 5% goat serum, 100 mM lysine in PBS and left overnight at 4 °C in a humidified chamber.

    Article Title: Early developmental deletion of forebrain Ank2 causes seizure-related phenotypes by reshaping the synaptic proteome.
    Article Snippet: REAGENT or RESOURCE SOURCE IDENTIFIER Antibodies Mouse monoclonal anti-AnkB NeuroMab Cat#75–144; RRID: AB_10673094 Rabbit polyclonal anti-Kalirin MilliPORE SiGMA Cat#07–122; RRID: AB 310380 Rabbit polyclonal anti-RPS4X Proteintech Cat# 14799-1-AP; RRID: AB 2238567 Mouse monoclonal anti-Sodium Potassium ATPase Alpha 1 NOVUS BIOLOGICALS Cat# NB300-146; RRID: AB 2060981 Rabbit monoclonal anti-NF-L Abcam Cat# ab223343; RRID: AB 2891198 Rabbit monoclonal anti-GAPDH Cell Signaling Cat# 5174; RRID: AB 10622025 Rabbit polyclonal anti-Shank3 Synaptic Systems Cat#162 302; RRID: AB_2619862 Rabbit polyclonal anti-GluA1 MilliPORE SiGMA Cat#AB1504; RRID: AB_2113602 Rabbit polyclonal anti-GluA2 MilliPORE SiGMA Cat#AB10529; RRID: AB_10807819 Mouse monoclonal anti-AnkG NeuroMab Cat#75–146; RRID: AB_10673030 Goat anti-mouse 647 Thermo Fisher Scientific Cat#A-21134; RRID: AB_2535773 Bacterial and virus strains E. coli HST08 TaKaRa Cat#636766 Chemicals, peptides, and recombinant proteins Perampanel Toronto Research Chemicals Cat#P285520 Valproic acid sodium salt Millipore SiGMA Cat#P4543 Tetrodotoxin TOCRIS Cat#1078 Critical commercial assays Micro BCATM Protein Assay Kit Thermo Fisher Scientific Cat#23235 TMT10plexTM Isobaric Label Reagents and Kits Thermo Fisher Scientific Cat#90113 FD Rapid GlogiStain Kit FD NeuroTechnologies, Inc. Cat#PK401 Deposited data Raw Mass Spectrometry Data Files This paper MSV000091894 Experimental models: Organisms/strains Mouse/B6.129(Cg)-Ank2tm1.1Pmoh/MnrJ The Jackson Laboratory #031428 Mouse/B6.Cg-Tg(Camk2a-cre)T29-1Stl/J The Jackson Laboratory #005359 Mouse/B6.129S2-Emx1tm1(cre)Krj/J The Jackson Laboratory #005628 Mouse/B6.129(Cg)-Tg(NEX-cre) Goebbels et al., 2006 N/A Oligonucleotides AnkB F: GC AGTC TCA ACA CAA CTA AGC CAT CCT TTT Dr. Peter Mohler N/A AnkB R: GCT GAG GAG GTA GAC AAG AAC CTT TTT GTG Dr. Peter Mohler N/A Camk2a F: GTT CTC CGT TTG CAC TCA GG The Jackson Laboratory N/A Camk2a R: CAG GTT CTT GCG AAC CTC AT The Jackson Laboratory N/A Emx1 F: CAA CGG GGA GGA CAT TGA The Jackson Laboratory N/A Emx1 R: TCG ATA AGC CAG GGG TTC The Jackson Laboratory N/A NEX F: GAG TCC TGG AAT CAG TCT TTT TC Goebbels et al., 2006 N/A NEX R: CCG CAT AAC CAG TGA AAC AG Goebbels et al., 2006 N/A Recombinant DNA pEGFP-N2 Clontech #6801-1 Software and algorithms FIJI (ImageJ) NIH https://fiji.sc/ (Continued on next page) 12 Cell Reports 42, 112784, July 25, 2023

    Article Title: Disuse plasticity limits spinal cord injury recovery
    Article Snippet: Rabbit Polyclonal Anti-GluA1 , Millipore , Cat# AB1504; RRID: AB_2113602.

    Blocking Assay:

    Article Title: miR-329– and miR-495–mediated Prr7 down-regulation is required for homeostatic synaptic depression in rat hippocampal neurons
    Article Snippet: Secondary antibodies in Triton/NGS/PBS were applied for 1 h. The following primary antibodies were used: rabbit polyclonal anti-Prr7 (200 ng/ml, PA5-61266; Invitrogen), chicken monoclonal anti-Map2 (1:5,000 dilution, PA1-16751; Thermo Fisher Scientific), rabbit polyclonal anti-SPAR (1:1,500 dilution, kind gift of DT Pak), rabbit polyclonal anti-GluA1 (PC246 Calbiochem EMD Biosciences, or ABN241 Sigma-Aldrich at final concentrations 1 μg/ml for whole-cell staining, 2 μg/ml for surface staining), rabbit anti-Synapsin1 (AB1543, 1:1,000; Merck Millipore), and mouse anti-PSD-95 (810401, 1:200; BioLegend).

    Article Title: Huntingtin coordinates dendritic spine morphology and function through cofilin-mediated control of the actin cytoskeleton.
    Article Snippet: REAGENT or RESOURCE SOURCE IDENTIFIER Antibodies Mouse monoclonal anti-actin Sigma Cat# A5441; RRID: AB_476744 Mouse monoclonal anti-mCherry Abcam Cat# AB125096; RRID: AB_11133266 Mouse monoclonal anti-PSD95 Millipore Cat# MAB1598; RRID: AB_94278 Mouse monoclonal anti-RAC1 Millipore Cat# 05-389; RRID: AB_309712 Rabbit polyclonal anti-RAC1 Thermo Fischer Cat# PA1-091; RRID: AB_2539856 Mouse monoclonal anti-synaptophysin Sigma Cat# S5768; RRID: AB_477523 Rabbit monoclonal anti-cofilin Cell Signaling Cat# 5175; RRID: AB_10622000 Rabbit monoclonal anti-phospho-cofilin Cell Signaling Cat# 3313; RRID: AB_2080597 Rabbit polyclonal anti-GFP Institut Curie N/A Rabbit polyclonal anti-GLUA1 Millipore Cat# AB1504; RRID: AB_2113602 Rabbit monoclonal anti-HTT (D7F7) Cell Signaling Cat# 5656; RRID: AB_10827977 Mouse anti-HTT (4C8) MilliporeSi Cat# MAB2166; RRID: AB_2123255 Rabbit polyclonal anti-LIMK Cell Signaling Cat# 3842; RRID: AB_2281332 Rabbit polyclonal anti-phospho-LIMK Cell Signaling Cat# 3841; RRID: AB_2136943 Rabbit polyclonal anti-TRIO Centre de Recherche en Biologie cellulaire de Montpellier, CRBM Generated as in DeGeer et al., 2013 N/A Rabbit polyclonal anti-SRGAP2 Proteintech Cat# 22519-1-AP; RRID: AB_2879114 Chemicals B27 supplement Thermo Fisher Cat# 17504044 Bicuculline methiodide Sigma Cat# 14343 CaCl2 Sigma Cat# C5080 Calcium chloride solution Sigma Cat# 21115 EGTA Sigma Cat# 4378 Dako Fluorescent mounting medium Agilent Cat# S302380-2 D-(+)-Glucose Sigma Cat# G7528 Glutamax Thermo Fischer Cat# 35050038 Glycine hydrochloride Sigma Cat# G2879 HEPES Euromedex Cat#10-110-C KCl Sigma Cat# P9333 Lipofectamine 3000 Thermo Fischer Cat# L3000001 Magnesium sulfate solution Sigma Cat# M3409 MgATP Sigma Cat# A9187 MgSO4 Sigma Cat# M5921 NaCl Sigma Cat# S7653 NaGTP Sigma Cat# G8877 NaHCO3 Sigma Cat# S5761 NaH2PO4 Sigma Cat# S0751 Penicillin/streptomycin Thermo Fischer Cat# 15140122 PFA formaldehyde 32% Euromedex Cat# 15714-S Phosphocreatine disodium hydrate Sigma Cat# P7936 Poly L Lysine Sigma Cat# P6282 Potassium gluconate Sigma Cat# P1847 Strychnine hydrochoride Sigma Cat# S8753 (Continued on next page) e1 Cell Reports 40, 111261, August 30, 2022

    Article Title: Disuse plasticity limits spinal cord injury recovery
    Article Snippet: Compound Sakura Finetek Cat# 4583 Vectashield Mounting Medium with DAPI Vector Laboratories Cat# H-1200-10 Critical commercial assays Jo urn al Pr e-p roo f Phosphorylated Neurofilament H Human ELISA BioVendor Cat# RD191138300R Corticosterone EIA IDS Cat# AC-14F1 BCA Protein Assay Kit Pierce Cat# 23225 Deposited data Raw data This paper https://doi.org/10.3494 5/F52P4M Experimental models: Organisms/strains Sprague-Dawley Rat Charles River Laboratories RRID: MGI: 5651135 Software and algorithms Kinema Tracer System Kissei Comtec http://www.kinematrac er.com/ Odyssey Application Software Version 3.0 LI-COR Biosciences RRID: SCR_014579 NIS Elements Imaging Software Nikon Instruments RRID: SCR_014329; https://calm.ucsf.edu/h ardware-and-softwareimage-analysis ImageJ NIH RRID: SCR_003070 AutoQuant Media Cybernetics RRID: SCR_002465 MetaMorph Automation and Image Analysis Software Molecular Devices RRID: SCR_002368 Adobe Photoshop Adobe RRID: SCR_014199 SPSS Statistics version 26.0 IBM RRID: SCR_016479 Graphpad Prism Graphpad RRID: SCR_002798 Adobe Illustrator Adobe RRID: SCR_010279 Other Infinite Horizon Impactor Precision Systems and Instrumentation IH-0400; https://psiimpactors.co m/product/ih400/ Treadmill Muromachi Kikai MK-680; https://muromachi.com /en/archives/english/19 36/ Biological Amplifier Nihon Kohden NEC Biotop 6R12; https://doi.org/10.1371/ journal.pone.0171937 AD Converter Cambridge Electronic Design Limited Micro 1401; https://ced.co.uk/produ cts/microwaveformio Constant Current Stimulator Digitimer DS7A; https://www.digitimer.c om/product/humanneurophysiology/periph eral-stimulators/ds7ads7ah-hv-currentstimulator/ Jo urn al P e-p roo f Plate Reader Tecan GENios; https://www.tecan.com/ customer-news/geniosan-innovativedetection-device-thatdelivers-flexibility-tothe-molecular-biologylaboratory-2347 Infrared Imaging System LI-COR Biosciences Odyssey Infrared Imaging System; RRID: SCR_023765; https://doi.org/10.1038/ s41598-024-70096-0 Cryostat Leica Biosystems CM1950; RRID: SCR_018061; https://www.leicabiosys tems.com/us/histologyequipment/cryostats/lei ca-cm1950/ Inverted Microscope Nikon Instruments ECLIPSE Ti inverted microscope system; RRID: SCR_021242; https://calm.ucsf.edu/c su-22-spinning-diskconfocal Spinning Disk Confocal Microscope Yokogawa Electric Corporation CSU-22; RRID: SCR_020907; https://calm.ucsf.edu/c su-22-spinning-diskconfocal Jo urn al Pr e-p roo f

    Article Title: Disuse plasticity limits spinal cord injury recovery
    Article Snippet: Polyacrylamide gel electrophoresis was performed by loading 10 μg of protein per sample into an individual lane of a precast 10-20% Tris-HCl polyacrylamide gel with three independent replications according to a randomized counterbalancing fashion blindly., Protein was transferred to a nitrocellulose membrane, blocked, and probed with primary antibodies: rabbit polyclonal anti-GluA1 (1:200; Millipore, Billerica, MA; Cat# AB1504, RRID: AB_2113602 ), rabbit polyclonal anti-GluA2 (1:200; Millipore; AB1768-25UG, RRID: AB_2247874 ), rabbit monoclonal anti-pS831-GluA1 (1:200; Millipore; Cat# 04-823, RRID: AB_1977218 ), rabbit polyclonal anti-pS880-GluA2 (1:200; Millipore; Cat# 07-294, RRID: AB_568822 ), and mouse monoclonal anti-β-Actin as a loading control (1:1500; BD Biosciences; Cat# 612657, RRID: AB_399901 ) in blocking buffer.

    Article Title: Absence of chordin-like 1 aids motor recovery in a mouse model of stroke
    Article Snippet: Sections were then incubated with the corresponding primary antibodies: rabbit polyclonal anti-GluA2 (dilution 1:1000, Millipore AB1768-I, RRID: AB_2922404), rabbit polyclonal anti-GluA1 (dilution 1:400, Millipore AB1504, RRID:AB_2113602) or rabbit polyclonal anti-PSD95 (dilution 1:400, Invitrogen 51-6900) in combination with guinea pig polyclonal anti-VGlut1 (dilution 1:2000, Millipore AB5905, RRID:AB_2301751) in 5% goat serum, 100 mM lysine in PBS and left overnight at 4 °C in a humidified chamber.

    Article Title: Early developmental deletion of forebrain Ank2 causes seizure-related phenotypes by reshaping the synaptic proteome.
    Article Snippet: REAGENT or RESOURCE SOURCE IDENTIFIER Antibodies Mouse monoclonal anti-AnkB NeuroMab Cat#75–144; RRID: AB_10673094 Rabbit polyclonal anti-Kalirin MilliPORE SiGMA Cat#07–122; RRID: AB 310380 Rabbit polyclonal anti-RPS4X Proteintech Cat# 14799-1-AP; RRID: AB 2238567 Mouse monoclonal anti-Sodium Potassium ATPase Alpha 1 NOVUS BIOLOGICALS Cat# NB300-146; RRID: AB 2060981 Rabbit monoclonal anti-NF-L Abcam Cat# ab223343; RRID: AB 2891198 Rabbit monoclonal anti-GAPDH Cell Signaling Cat# 5174; RRID: AB 10622025 Rabbit polyclonal anti-Shank3 Synaptic Systems Cat#162 302; RRID: AB_2619862 Rabbit polyclonal anti-GluA1 MilliPORE SiGMA Cat#AB1504; RRID: AB_2113602 Rabbit polyclonal anti-GluA2 MilliPORE SiGMA Cat#AB10529; RRID: AB_10807819 Mouse monoclonal anti-AnkG NeuroMab Cat#75–146; RRID: AB_10673030 Goat anti-mouse 647 Thermo Fisher Scientific Cat#A-21134; RRID: AB_2535773 Bacterial and virus strains E. coli HST08 TaKaRa Cat#636766 Chemicals, peptides, and recombinant proteins Perampanel Toronto Research Chemicals Cat#P285520 Valproic acid sodium salt Millipore SiGMA Cat#P4543 Tetrodotoxin TOCRIS Cat#1078 Critical commercial assays Micro BCATM Protein Assay Kit Thermo Fisher Scientific Cat#23235 TMT10plexTM Isobaric Label Reagents and Kits Thermo Fisher Scientific Cat#90113 FD Rapid GlogiStain Kit FD NeuroTechnologies, Inc. Cat#PK401 Deposited data Raw Mass Spectrometry Data Files This paper MSV000091894 Experimental models: Organisms/strains Mouse/B6.129(Cg)-Ank2tm1.1Pmoh/MnrJ The Jackson Laboratory #031428 Mouse/B6.Cg-Tg(Camk2a-cre)T29-1Stl/J The Jackson Laboratory #005359 Mouse/B6.129S2-Emx1tm1(cre)Krj/J The Jackson Laboratory #005628 Mouse/B6.129(Cg)-Tg(NEX-cre) Goebbels et al., 2006 N/A Oligonucleotides AnkB F: GC AGTC TCA ACA CAA CTA AGC CAT CCT TTT Dr. Peter Mohler N/A AnkB R: GCT GAG GAG GTA GAC AAG AAC CTT TTT GTG Dr. Peter Mohler N/A Camk2a F: GTT CTC CGT TTG CAC TCA GG The Jackson Laboratory N/A Camk2a R: CAG GTT CTT GCG AAC CTC AT The Jackson Laboratory N/A Emx1 F: CAA CGG GGA GGA CAT TGA The Jackson Laboratory N/A Emx1 R: TCG ATA AGC CAG GGG TTC The Jackson Laboratory N/A NEX F: GAG TCC TGG AAT CAG TCT TTT TC Goebbels et al., 2006 N/A NEX R: CCG CAT AAC CAG TGA AAC AG Goebbels et al., 2006 N/A Recombinant DNA pEGFP-N2 Clontech #6801-1 Software and algorithms FIJI (ImageJ) NIH https://fiji.sc/ (Continued on next page) 12 Cell Reports 42, 112784, July 25, 2023

    Article Title: Disuse plasticity limits spinal cord injury recovery
    Article Snippet: Rabbit Polyclonal Anti-GluA1 , Millipore , Cat# AB1504; RRID: AB_2113602.

    Recombinant:

    Article Title: miR-329– and miR-495–mediated Prr7 down-regulation is required for homeostatic synaptic depression in rat hippocampal neurons
    Article Snippet: Secondary antibodies in Triton/NGS/PBS were applied for 1 h. The following primary antibodies were used: rabbit polyclonal anti-Prr7 (200 ng/ml, PA5-61266; Invitrogen), chicken monoclonal anti-Map2 (1:5,000 dilution, PA1-16751; Thermo Fisher Scientific), rabbit polyclonal anti-SPAR (1:1,500 dilution, kind gift of DT Pak), rabbit polyclonal anti-GluA1 (PC246 Calbiochem EMD Biosciences, or ABN241 Sigma-Aldrich at final concentrations 1 μg/ml for whole-cell staining, 2 μg/ml for surface staining), rabbit anti-Synapsin1 (AB1543, 1:1,000; Merck Millipore), and mouse anti-PSD-95 (810401, 1:200; BioLegend).

    Article Title: Huntingtin coordinates dendritic spine morphology and function through cofilin-mediated control of the actin cytoskeleton.
    Article Snippet: REAGENT or RESOURCE SOURCE IDENTIFIER Antibodies Mouse monoclonal anti-actin Sigma Cat# A5441; RRID: AB_476744 Mouse monoclonal anti-mCherry Abcam Cat# AB125096; RRID: AB_11133266 Mouse monoclonal anti-PSD95 Millipore Cat# MAB1598; RRID: AB_94278 Mouse monoclonal anti-RAC1 Millipore Cat# 05-389; RRID: AB_309712 Rabbit polyclonal anti-RAC1 Thermo Fischer Cat# PA1-091; RRID: AB_2539856 Mouse monoclonal anti-synaptophysin Sigma Cat# S5768; RRID: AB_477523 Rabbit monoclonal anti-cofilin Cell Signaling Cat# 5175; RRID: AB_10622000 Rabbit monoclonal anti-phospho-cofilin Cell Signaling Cat# 3313; RRID: AB_2080597 Rabbit polyclonal anti-GFP Institut Curie N/A Rabbit polyclonal anti-GLUA1 Millipore Cat# AB1504; RRID: AB_2113602 Rabbit monoclonal anti-HTT (D7F7) Cell Signaling Cat# 5656; RRID: AB_10827977 Mouse anti-HTT (4C8) MilliporeSi Cat# MAB2166; RRID: AB_2123255 Rabbit polyclonal anti-LIMK Cell Signaling Cat# 3842; RRID: AB_2281332 Rabbit polyclonal anti-phospho-LIMK Cell Signaling Cat# 3841; RRID: AB_2136943 Rabbit polyclonal anti-TRIO Centre de Recherche en Biologie cellulaire de Montpellier, CRBM Generated as in DeGeer et al., 2013 N/A Rabbit polyclonal anti-SRGAP2 Proteintech Cat# 22519-1-AP; RRID: AB_2879114 Chemicals B27 supplement Thermo Fisher Cat# 17504044 Bicuculline methiodide Sigma Cat# 14343 CaCl2 Sigma Cat# C5080 Calcium chloride solution Sigma Cat# 21115 EGTA Sigma Cat# 4378 Dako Fluorescent mounting medium Agilent Cat# S302380-2 D-(+)-Glucose Sigma Cat# G7528 Glutamax Thermo Fischer Cat# 35050038 Glycine hydrochloride Sigma Cat# G2879 HEPES Euromedex Cat#10-110-C KCl Sigma Cat# P9333 Lipofectamine 3000 Thermo Fischer Cat# L3000001 Magnesium sulfate solution Sigma Cat# M3409 MgATP Sigma Cat# A9187 MgSO4 Sigma Cat# M5921 NaCl Sigma Cat# S7653 NaGTP Sigma Cat# G8877 NaHCO3 Sigma Cat# S5761 NaH2PO4 Sigma Cat# S0751 Penicillin/streptomycin Thermo Fischer Cat# 15140122 PFA formaldehyde 32% Euromedex Cat# 15714-S Phosphocreatine disodium hydrate Sigma Cat# P7936 Poly L Lysine Sigma Cat# P6282 Potassium gluconate Sigma Cat# P1847 Strychnine hydrochoride Sigma Cat# S8753 (Continued on next page) e1 Cell Reports 40, 111261, August 30, 2022

    Article Title: Disuse plasticity limits spinal cord injury recovery
    Article Snippet: Compound Sakura Finetek Cat# 4583 Vectashield Mounting Medium with DAPI Vector Laboratories Cat# H-1200-10 Critical commercial assays Jo urn al Pr e-p roo f Phosphorylated Neurofilament H Human ELISA BioVendor Cat# RD191138300R Corticosterone EIA IDS Cat# AC-14F1 BCA Protein Assay Kit Pierce Cat# 23225 Deposited data Raw data This paper https://doi.org/10.3494 5/F52P4M Experimental models: Organisms/strains Sprague-Dawley Rat Charles River Laboratories RRID: MGI: 5651135 Software and algorithms Kinema Tracer System Kissei Comtec http://www.kinematrac er.com/ Odyssey Application Software Version 3.0 LI-COR Biosciences RRID: SCR_014579 NIS Elements Imaging Software Nikon Instruments RRID: SCR_014329; https://calm.ucsf.edu/h ardware-and-softwareimage-analysis ImageJ NIH RRID: SCR_003070 AutoQuant Media Cybernetics RRID: SCR_002465 MetaMorph Automation and Image Analysis Software Molecular Devices RRID: SCR_002368 Adobe Photoshop Adobe RRID: SCR_014199 SPSS Statistics version 26.0 IBM RRID: SCR_016479 Graphpad Prism Graphpad RRID: SCR_002798 Adobe Illustrator Adobe RRID: SCR_010279 Other Infinite Horizon Impactor Precision Systems and Instrumentation IH-0400; https://psiimpactors.co m/product/ih400/ Treadmill Muromachi Kikai MK-680; https://muromachi.com /en/archives/english/19 36/ Biological Amplifier Nihon Kohden NEC Biotop 6R12; https://doi.org/10.1371/ journal.pone.0171937 AD Converter Cambridge Electronic Design Limited Micro 1401; https://ced.co.uk/produ cts/microwaveformio Constant Current Stimulator Digitimer DS7A; https://www.digitimer.c om/product/humanneurophysiology/periph eral-stimulators/ds7ads7ah-hv-currentstimulator/ Jo urn al P e-p roo f Plate Reader Tecan GENios; https://www.tecan.com/ customer-news/geniosan-innovativedetection-device-thatdelivers-flexibility-tothe-molecular-biologylaboratory-2347 Infrared Imaging System LI-COR Biosciences Odyssey Infrared Imaging System; RRID: SCR_023765; https://doi.org/10.1038/ s41598-024-70096-0 Cryostat Leica Biosystems CM1950; RRID: SCR_018061; https://www.leicabiosys tems.com/us/histologyequipment/cryostats/lei ca-cm1950/ Inverted Microscope Nikon Instruments ECLIPSE Ti inverted microscope system; RRID: SCR_021242; https://calm.ucsf.edu/c su-22-spinning-diskconfocal Spinning Disk Confocal Microscope Yokogawa Electric Corporation CSU-22; RRID: SCR_020907; https://calm.ucsf.edu/c su-22-spinning-diskconfocal Jo urn al Pr e-p roo f

    Article Title: Disuse plasticity limits spinal cord injury recovery
    Article Snippet: Polyacrylamide gel electrophoresis was performed by loading 10 μg of protein per sample into an individual lane of a precast 10-20% Tris-HCl polyacrylamide gel with three independent replications according to a randomized counterbalancing fashion blindly., Protein was transferred to a nitrocellulose membrane, blocked, and probed with primary antibodies: rabbit polyclonal anti-GluA1 (1:200; Millipore, Billerica, MA; Cat# AB1504, RRID: AB_2113602 ), rabbit polyclonal anti-GluA2 (1:200; Millipore; AB1768-25UG, RRID: AB_2247874 ), rabbit monoclonal anti-pS831-GluA1 (1:200; Millipore; Cat# 04-823, RRID: AB_1977218 ), rabbit polyclonal anti-pS880-GluA2 (1:200; Millipore; Cat# 07-294, RRID: AB_568822 ), and mouse monoclonal anti-β-Actin as a loading control (1:1500; BD Biosciences; Cat# 612657, RRID: AB_399901 ) in blocking buffer.

    Article Title: Absence of chordin-like 1 aids motor recovery in a mouse model of stroke
    Article Snippet: Sections were then incubated with the corresponding primary antibodies: rabbit polyclonal anti-GluA2 (dilution 1:1000, Millipore AB1768-I, RRID: AB_2922404), rabbit polyclonal anti-GluA1 (dilution 1:400, Millipore AB1504, RRID:AB_2113602) or rabbit polyclonal anti-PSD95 (dilution 1:400, Invitrogen 51-6900) in combination with guinea pig polyclonal anti-VGlut1 (dilution 1:2000, Millipore AB5905, RRID:AB_2301751) in 5% goat serum, 100 mM lysine in PBS and left overnight at 4 °C in a humidified chamber.

    Article Title: Early developmental deletion of forebrain Ank2 causes seizure-related phenotypes by reshaping the synaptic proteome.
    Article Snippet: REAGENT or RESOURCE SOURCE IDENTIFIER Antibodies Mouse monoclonal anti-AnkB NeuroMab Cat#75–144; RRID: AB_10673094 Rabbit polyclonal anti-Kalirin MilliPORE SiGMA Cat#07–122; RRID: AB 310380 Rabbit polyclonal anti-RPS4X Proteintech Cat# 14799-1-AP; RRID: AB 2238567 Mouse monoclonal anti-Sodium Potassium ATPase Alpha 1 NOVUS BIOLOGICALS Cat# NB300-146; RRID: AB 2060981 Rabbit monoclonal anti-NF-L Abcam Cat# ab223343; RRID: AB 2891198 Rabbit monoclonal anti-GAPDH Cell Signaling Cat# 5174; RRID: AB 10622025 Rabbit polyclonal anti-Shank3 Synaptic Systems Cat#162 302; RRID: AB_2619862 Rabbit polyclonal anti-GluA1 MilliPORE SiGMA Cat#AB1504; RRID: AB_2113602 Rabbit polyclonal anti-GluA2 MilliPORE SiGMA Cat#AB10529; RRID: AB_10807819 Mouse monoclonal anti-AnkG NeuroMab Cat#75–146; RRID: AB_10673030 Goat anti-mouse 647 Thermo Fisher Scientific Cat#A-21134; RRID: AB_2535773 Bacterial and virus strains E. coli HST08 TaKaRa Cat#636766 Chemicals, peptides, and recombinant proteins Perampanel Toronto Research Chemicals Cat#P285520 Valproic acid sodium salt Millipore SiGMA Cat#P4543 Tetrodotoxin TOCRIS Cat#1078 Critical commercial assays Micro BCATM Protein Assay Kit Thermo Fisher Scientific Cat#23235 TMT10plexTM Isobaric Label Reagents and Kits Thermo Fisher Scientific Cat#90113 FD Rapid GlogiStain Kit FD NeuroTechnologies, Inc. Cat#PK401 Deposited data Raw Mass Spectrometry Data Files This paper MSV000091894 Experimental models: Organisms/strains Mouse/B6.129(Cg)-Ank2tm1.1Pmoh/MnrJ The Jackson Laboratory #031428 Mouse/B6.Cg-Tg(Camk2a-cre)T29-1Stl/J The Jackson Laboratory #005359 Mouse/B6.129S2-Emx1tm1(cre)Krj/J The Jackson Laboratory #005628 Mouse/B6.129(Cg)-Tg(NEX-cre) Goebbels et al., 2006 N/A Oligonucleotides AnkB F: GC AGTC TCA ACA CAA CTA AGC CAT CCT TTT Dr. Peter Mohler N/A AnkB R: GCT GAG GAG GTA GAC AAG AAC CTT TTT GTG Dr. Peter Mohler N/A Camk2a F: GTT CTC CGT TTG CAC TCA GG The Jackson Laboratory N/A Camk2a R: CAG GTT CTT GCG AAC CTC AT The Jackson Laboratory N/A Emx1 F: CAA CGG GGA GGA CAT TGA The Jackson Laboratory N/A Emx1 R: TCG ATA AGC CAG GGG TTC The Jackson Laboratory N/A NEX F: GAG TCC TGG AAT CAG TCT TTT TC Goebbels et al., 2006 N/A NEX R: CCG CAT AAC CAG TGA AAC AG Goebbels et al., 2006 N/A Recombinant DNA pEGFP-N2 Clontech #6801-1 Software and algorithms FIJI (ImageJ) NIH https://fiji.sc/ (Continued on next page) 12 Cell Reports 42, 112784, July 25, 2023

    Article Title: Disuse plasticity limits spinal cord injury recovery
    Article Snippet: Rabbit Polyclonal Anti-GluA1 , Millipore , Cat# AB1504; RRID: AB_2113602.

    Protease Inhibitor:

    Article Title: miR-329– and miR-495–mediated Prr7 down-regulation is required for homeostatic synaptic depression in rat hippocampal neurons
    Article Snippet: Secondary antibodies in Triton/NGS/PBS were applied for 1 h. The following primary antibodies were used: rabbit polyclonal anti-Prr7 (200 ng/ml, PA5-61266; Invitrogen), chicken monoclonal anti-Map2 (1:5,000 dilution, PA1-16751; Thermo Fisher Scientific), rabbit polyclonal anti-SPAR (1:1,500 dilution, kind gift of DT Pak), rabbit polyclonal anti-GluA1 (PC246 Calbiochem EMD Biosciences, or ABN241 Sigma-Aldrich at final concentrations 1 μg/ml for whole-cell staining, 2 μg/ml for surface staining), rabbit anti-Synapsin1 (AB1543, 1:1,000; Merck Millipore), and mouse anti-PSD-95 (810401, 1:200; BioLegend).

    Article Title: Huntingtin coordinates dendritic spine morphology and function through cofilin-mediated control of the actin cytoskeleton.
    Article Snippet: REAGENT or RESOURCE SOURCE IDENTIFIER Antibodies Mouse monoclonal anti-actin Sigma Cat# A5441; RRID: AB_476744 Mouse monoclonal anti-mCherry Abcam Cat# AB125096; RRID: AB_11133266 Mouse monoclonal anti-PSD95 Millipore Cat# MAB1598; RRID: AB_94278 Mouse monoclonal anti-RAC1 Millipore Cat# 05-389; RRID: AB_309712 Rabbit polyclonal anti-RAC1 Thermo Fischer Cat# PA1-091; RRID: AB_2539856 Mouse monoclonal anti-synaptophysin Sigma Cat# S5768; RRID: AB_477523 Rabbit monoclonal anti-cofilin Cell Signaling Cat# 5175; RRID: AB_10622000 Rabbit monoclonal anti-phospho-cofilin Cell Signaling Cat# 3313; RRID: AB_2080597 Rabbit polyclonal anti-GFP Institut Curie N/A Rabbit polyclonal anti-GLUA1 Millipore Cat# AB1504; RRID: AB_2113602 Rabbit monoclonal anti-HTT (D7F7) Cell Signaling Cat# 5656; RRID: AB_10827977 Mouse anti-HTT (4C8) MilliporeSi Cat# MAB2166; RRID: AB_2123255 Rabbit polyclonal anti-LIMK Cell Signaling Cat# 3842; RRID: AB_2281332 Rabbit polyclonal anti-phospho-LIMK Cell Signaling Cat# 3841; RRID: AB_2136943 Rabbit polyclonal anti-TRIO Centre de Recherche en Biologie cellulaire de Montpellier, CRBM Generated as in DeGeer et al., 2013 N/A Rabbit polyclonal anti-SRGAP2 Proteintech Cat# 22519-1-AP; RRID: AB_2879114 Chemicals B27 supplement Thermo Fisher Cat# 17504044 Bicuculline methiodide Sigma Cat# 14343 CaCl2 Sigma Cat# C5080 Calcium chloride solution Sigma Cat# 21115 EGTA Sigma Cat# 4378 Dako Fluorescent mounting medium Agilent Cat# S302380-2 D-(+)-Glucose Sigma Cat# G7528 Glutamax Thermo Fischer Cat# 35050038 Glycine hydrochloride Sigma Cat# G2879 HEPES Euromedex Cat#10-110-C KCl Sigma Cat# P9333 Lipofectamine 3000 Thermo Fischer Cat# L3000001 Magnesium sulfate solution Sigma Cat# M3409 MgATP Sigma Cat# A9187 MgSO4 Sigma Cat# M5921 NaCl Sigma Cat# S7653 NaGTP Sigma Cat# G8877 NaHCO3 Sigma Cat# S5761 NaH2PO4 Sigma Cat# S0751 Penicillin/streptomycin Thermo Fischer Cat# 15140122 PFA formaldehyde 32% Euromedex Cat# 15714-S Phosphocreatine disodium hydrate Sigma Cat# P7936 Poly L Lysine Sigma Cat# P6282 Potassium gluconate Sigma Cat# P1847 Strychnine hydrochoride Sigma Cat# S8753 (Continued on next page) e1 Cell Reports 40, 111261, August 30, 2022

    Article Title: Disuse plasticity limits spinal cord injury recovery
    Article Snippet: Compound Sakura Finetek Cat# 4583 Vectashield Mounting Medium with DAPI Vector Laboratories Cat# H-1200-10 Critical commercial assays Jo urn al Pr e-p roo f Phosphorylated Neurofilament H Human ELISA BioVendor Cat# RD191138300R Corticosterone EIA IDS Cat# AC-14F1 BCA Protein Assay Kit Pierce Cat# 23225 Deposited data Raw data This paper https://doi.org/10.3494 5/F52P4M Experimental models: Organisms/strains Sprague-Dawley Rat Charles River Laboratories RRID: MGI: 5651135 Software and algorithms Kinema Tracer System Kissei Comtec http://www.kinematrac er.com/ Odyssey Application Software Version 3.0 LI-COR Biosciences RRID: SCR_014579 NIS Elements Imaging Software Nikon Instruments RRID: SCR_014329; https://calm.ucsf.edu/h ardware-and-softwareimage-analysis ImageJ NIH RRID: SCR_003070 AutoQuant Media Cybernetics RRID: SCR_002465 MetaMorph Automation and Image Analysis Software Molecular Devices RRID: SCR_002368 Adobe Photoshop Adobe RRID: SCR_014199 SPSS Statistics version 26.0 IBM RRID: SCR_016479 Graphpad Prism Graphpad RRID: SCR_002798 Adobe Illustrator Adobe RRID: SCR_010279 Other Infinite Horizon Impactor Precision Systems and Instrumentation IH-0400; https://psiimpactors.co m/product/ih400/ Treadmill Muromachi Kikai MK-680; https://muromachi.com /en/archives/english/19 36/ Biological Amplifier Nihon Kohden NEC Biotop 6R12; https://doi.org/10.1371/ journal.pone.0171937 AD Converter Cambridge Electronic Design Limited Micro 1401; https://ced.co.uk/produ cts/microwaveformio Constant Current Stimulator Digitimer DS7A; https://www.digitimer.c om/product/humanneurophysiology/periph eral-stimulators/ds7ads7ah-hv-currentstimulator/ Jo urn al P e-p roo f Plate Reader Tecan GENios; https://www.tecan.com/ customer-news/geniosan-innovativedetection-device-thatdelivers-flexibility-tothe-molecular-biologylaboratory-2347 Infrared Imaging System LI-COR Biosciences Odyssey Infrared Imaging System; RRID: SCR_023765; https://doi.org/10.1038/ s41598-024-70096-0 Cryostat Leica Biosystems CM1950; RRID: SCR_018061; https://www.leicabiosys tems.com/us/histologyequipment/cryostats/lei ca-cm1950/ Inverted Microscope Nikon Instruments ECLIPSE Ti inverted microscope system; RRID: SCR_021242; https://calm.ucsf.edu/c su-22-spinning-diskconfocal Spinning Disk Confocal Microscope Yokogawa Electric Corporation CSU-22; RRID: SCR_020907; https://calm.ucsf.edu/c su-22-spinning-diskconfocal Jo urn al Pr e-p roo f

    Article Title: Disuse plasticity limits spinal cord injury recovery
    Article Snippet: Polyacrylamide gel electrophoresis was performed by loading 10 μg of protein per sample into an individual lane of a precast 10-20% Tris-HCl polyacrylamide gel with three independent replications according to a randomized counterbalancing fashion blindly., Protein was transferred to a nitrocellulose membrane, blocked, and probed with primary antibodies: rabbit polyclonal anti-GluA1 (1:200; Millipore, Billerica, MA; Cat# AB1504, RRID: AB_2113602 ), rabbit polyclonal anti-GluA2 (1:200; Millipore; AB1768-25UG, RRID: AB_2247874 ), rabbit monoclonal anti-pS831-GluA1 (1:200; Millipore; Cat# 04-823, RRID: AB_1977218 ), rabbit polyclonal anti-pS880-GluA2 (1:200; Millipore; Cat# 07-294, RRID: AB_568822 ), and mouse monoclonal anti-β-Actin as a loading control (1:1500; BD Biosciences; Cat# 612657, RRID: AB_399901 ) in blocking buffer.

    Article Title: Absence of chordin-like 1 aids motor recovery in a mouse model of stroke
    Article Snippet: Sections were then incubated with the corresponding primary antibodies: rabbit polyclonal anti-GluA2 (dilution 1:1000, Millipore AB1768-I, RRID: AB_2922404), rabbit polyclonal anti-GluA1 (dilution 1:400, Millipore AB1504, RRID:AB_2113602) or rabbit polyclonal anti-PSD95 (dilution 1:400, Invitrogen 51-6900) in combination with guinea pig polyclonal anti-VGlut1 (dilution 1:2000, Millipore AB5905, RRID:AB_2301751) in 5% goat serum, 100 mM lysine in PBS and left overnight at 4 °C in a humidified chamber.

    Article Title: Early developmental deletion of forebrain Ank2 causes seizure-related phenotypes by reshaping the synaptic proteome.
    Article Snippet: REAGENT or RESOURCE SOURCE IDENTIFIER Antibodies Mouse monoclonal anti-AnkB NeuroMab Cat#75–144; RRID: AB_10673094 Rabbit polyclonal anti-Kalirin MilliPORE SiGMA Cat#07–122; RRID: AB 310380 Rabbit polyclonal anti-RPS4X Proteintech Cat# 14799-1-AP; RRID: AB 2238567 Mouse monoclonal anti-Sodium Potassium ATPase Alpha 1 NOVUS BIOLOGICALS Cat# NB300-146; RRID: AB 2060981 Rabbit monoclonal anti-NF-L Abcam Cat# ab223343; RRID: AB 2891198 Rabbit monoclonal anti-GAPDH Cell Signaling Cat# 5174; RRID: AB 10622025 Rabbit polyclonal anti-Shank3 Synaptic Systems Cat#162 302; RRID: AB_2619862 Rabbit polyclonal anti-GluA1 MilliPORE SiGMA Cat#AB1504; RRID: AB_2113602 Rabbit polyclonal anti-GluA2 MilliPORE SiGMA Cat#AB10529; RRID: AB_10807819 Mouse monoclonal anti-AnkG NeuroMab Cat#75–146; RRID: AB_10673030 Goat anti-mouse 647 Thermo Fisher Scientific Cat#A-21134; RRID: AB_2535773 Bacterial and virus strains E. coli HST08 TaKaRa Cat#636766 Chemicals, peptides, and recombinant proteins Perampanel Toronto Research Chemicals Cat#P285520 Valproic acid sodium salt Millipore SiGMA Cat#P4543 Tetrodotoxin TOCRIS Cat#1078 Critical commercial assays Micro BCATM Protein Assay Kit Thermo Fisher Scientific Cat#23235 TMT10plexTM Isobaric Label Reagents and Kits Thermo Fisher Scientific Cat#90113 FD Rapid GlogiStain Kit FD NeuroTechnologies, Inc. Cat#PK401 Deposited data Raw Mass Spectrometry Data Files This paper MSV000091894 Experimental models: Organisms/strains Mouse/B6.129(Cg)-Ank2tm1.1Pmoh/MnrJ The Jackson Laboratory #031428 Mouse/B6.Cg-Tg(Camk2a-cre)T29-1Stl/J The Jackson Laboratory #005359 Mouse/B6.129S2-Emx1tm1(cre)Krj/J The Jackson Laboratory #005628 Mouse/B6.129(Cg)-Tg(NEX-cre) Goebbels et al., 2006 N/A Oligonucleotides AnkB F: GC AGTC TCA ACA CAA CTA AGC CAT CCT TTT Dr. Peter Mohler N/A AnkB R: GCT GAG GAG GTA GAC AAG AAC CTT TTT GTG Dr. Peter Mohler N/A Camk2a F: GTT CTC CGT TTG CAC TCA GG The Jackson Laboratory N/A Camk2a R: CAG GTT CTT GCG AAC CTC AT The Jackson Laboratory N/A Emx1 F: CAA CGG GGA GGA CAT TGA The Jackson Laboratory N/A Emx1 R: TCG ATA AGC CAG GGG TTC The Jackson Laboratory N/A NEX F: GAG TCC TGG AAT CAG TCT TTT TC Goebbels et al., 2006 N/A NEX R: CCG CAT AAC CAG TGA AAC AG Goebbels et al., 2006 N/A Recombinant DNA pEGFP-N2 Clontech #6801-1 Software and algorithms FIJI (ImageJ) NIH https://fiji.sc/ (Continued on next page) 12 Cell Reports 42, 112784, July 25, 2023

    Article Title: Disuse plasticity limits spinal cord injury recovery
    Article Snippet: Rabbit Polyclonal Anti-GluA1 , Millipore , Cat# AB1504; RRID: AB_2113602.

    Plasmid Preparation:

    Article Title: miR-329– and miR-495–mediated Prr7 down-regulation is required for homeostatic synaptic depression in rat hippocampal neurons
    Article Snippet: Secondary antibodies in Triton/NGS/PBS were applied for 1 h. The following primary antibodies were used: rabbit polyclonal anti-Prr7 (200 ng/ml, PA5-61266; Invitrogen), chicken monoclonal anti-Map2 (1:5,000 dilution, PA1-16751; Thermo Fisher Scientific), rabbit polyclonal anti-SPAR (1:1,500 dilution, kind gift of DT Pak), rabbit polyclonal anti-GluA1 (PC246 Calbiochem EMD Biosciences, or ABN241 Sigma-Aldrich at final concentrations 1 μg/ml for whole-cell staining, 2 μg/ml for surface staining), rabbit anti-Synapsin1 (AB1543, 1:1,000; Merck Millipore), and mouse anti-PSD-95 (810401, 1:200; BioLegend).

    Article Title: Huntingtin coordinates dendritic spine morphology and function through cofilin-mediated control of the actin cytoskeleton.
    Article Snippet: REAGENT or RESOURCE SOURCE IDENTIFIER Antibodies Mouse monoclonal anti-actin Sigma Cat# A5441; RRID: AB_476744 Mouse monoclonal anti-mCherry Abcam Cat# AB125096; RRID: AB_11133266 Mouse monoclonal anti-PSD95 Millipore Cat# MAB1598; RRID: AB_94278 Mouse monoclonal anti-RAC1 Millipore Cat# 05-389; RRID: AB_309712 Rabbit polyclonal anti-RAC1 Thermo Fischer Cat# PA1-091; RRID: AB_2539856 Mouse monoclonal anti-synaptophysin Sigma Cat# S5768; RRID: AB_477523 Rabbit monoclonal anti-cofilin Cell Signaling Cat# 5175; RRID: AB_10622000 Rabbit monoclonal anti-phospho-cofilin Cell Signaling Cat# 3313; RRID: AB_2080597 Rabbit polyclonal anti-GFP Institut Curie N/A Rabbit polyclonal anti-GLUA1 Millipore Cat# AB1504; RRID: AB_2113602 Rabbit monoclonal anti-HTT (D7F7) Cell Signaling Cat# 5656; RRID: AB_10827977 Mouse anti-HTT (4C8) MilliporeSi Cat# MAB2166; RRID: AB_2123255 Rabbit polyclonal anti-LIMK Cell Signaling Cat# 3842; RRID: AB_2281332 Rabbit polyclonal anti-phospho-LIMK Cell Signaling Cat# 3841; RRID: AB_2136943 Rabbit polyclonal anti-TRIO Centre de Recherche en Biologie cellulaire de Montpellier, CRBM Generated as in DeGeer et al., 2013 N/A Rabbit polyclonal anti-SRGAP2 Proteintech Cat# 22519-1-AP; RRID: AB_2879114 Chemicals B27 supplement Thermo Fisher Cat# 17504044 Bicuculline methiodide Sigma Cat# 14343 CaCl2 Sigma Cat# C5080 Calcium chloride solution Sigma Cat# 21115 EGTA Sigma Cat# 4378 Dako Fluorescent mounting medium Agilent Cat# S302380-2 D-(+)-Glucose Sigma Cat# G7528 Glutamax Thermo Fischer Cat# 35050038 Glycine hydrochloride Sigma Cat# G2879 HEPES Euromedex Cat#10-110-C KCl Sigma Cat# P9333 Lipofectamine 3000 Thermo Fischer Cat# L3000001 Magnesium sulfate solution Sigma Cat# M3409 MgATP Sigma Cat# A9187 MgSO4 Sigma Cat# M5921 NaCl Sigma Cat# S7653 NaGTP Sigma Cat# G8877 NaHCO3 Sigma Cat# S5761 NaH2PO4 Sigma Cat# S0751 Penicillin/streptomycin Thermo Fischer Cat# 15140122 PFA formaldehyde 32% Euromedex Cat# 15714-S Phosphocreatine disodium hydrate Sigma Cat# P7936 Poly L Lysine Sigma Cat# P6282 Potassium gluconate Sigma Cat# P1847 Strychnine hydrochoride Sigma Cat# S8753 (Continued on next page) e1 Cell Reports 40, 111261, August 30, 2022

    Article Title: Disuse plasticity limits spinal cord injury recovery
    Article Snippet: Compound Sakura Finetek Cat# 4583 Vectashield Mounting Medium with DAPI Vector Laboratories Cat# H-1200-10 Critical commercial assays Jo urn al Pr e-p roo f Phosphorylated Neurofilament H Human ELISA BioVendor Cat# RD191138300R Corticosterone EIA IDS Cat# AC-14F1 BCA Protein Assay Kit Pierce Cat# 23225 Deposited data Raw data This paper https://doi.org/10.3494 5/F52P4M Experimental models: Organisms/strains Sprague-Dawley Rat Charles River Laboratories RRID: MGI: 5651135 Software and algorithms Kinema Tracer System Kissei Comtec http://www.kinematrac er.com/ Odyssey Application Software Version 3.0 LI-COR Biosciences RRID: SCR_014579 NIS Elements Imaging Software Nikon Instruments RRID: SCR_014329; https://calm.ucsf.edu/h ardware-and-softwareimage-analysis ImageJ NIH RRID: SCR_003070 AutoQuant Media Cybernetics RRID: SCR_002465 MetaMorph Automation and Image Analysis Software Molecular Devices RRID: SCR_002368 Adobe Photoshop Adobe RRID: SCR_014199 SPSS Statistics version 26.0 IBM RRID: SCR_016479 Graphpad Prism Graphpad RRID: SCR_002798 Adobe Illustrator Adobe RRID: SCR_010279 Other Infinite Horizon Impactor Precision Systems and Instrumentation IH-0400; https://psiimpactors.co m/product/ih400/ Treadmill Muromachi Kikai MK-680; https://muromachi.com /en/archives/english/19 36/ Biological Amplifier Nihon Kohden NEC Biotop 6R12; https://doi.org/10.1371/ journal.pone.0171937 AD Converter Cambridge Electronic Design Limited Micro 1401; https://ced.co.uk/produ cts/microwaveformio Constant Current Stimulator Digitimer DS7A; https://www.digitimer.c om/product/humanneurophysiology/periph eral-stimulators/ds7ads7ah-hv-currentstimulator/ Jo urn al P e-p roo f Plate Reader Tecan GENios; https://www.tecan.com/ customer-news/geniosan-innovativedetection-device-thatdelivers-flexibility-tothe-molecular-biologylaboratory-2347 Infrared Imaging System LI-COR Biosciences Odyssey Infrared Imaging System; RRID: SCR_023765; https://doi.org/10.1038/ s41598-024-70096-0 Cryostat Leica Biosystems CM1950; RRID: SCR_018061; https://www.leicabiosys tems.com/us/histologyequipment/cryostats/lei ca-cm1950/ Inverted Microscope Nikon Instruments ECLIPSE Ti inverted microscope system; RRID: SCR_021242; https://calm.ucsf.edu/c su-22-spinning-diskconfocal Spinning Disk Confocal Microscope Yokogawa Electric Corporation CSU-22; RRID: SCR_020907; https://calm.ucsf.edu/c su-22-spinning-diskconfocal Jo urn al Pr e-p roo f

    Article Title: Disuse plasticity limits spinal cord injury recovery
    Article Snippet: Polyacrylamide gel electrophoresis was performed by loading 10 μg of protein per sample into an individual lane of a precast 10-20% Tris-HCl polyacrylamide gel with three independent replications according to a randomized counterbalancing fashion blindly., Protein was transferred to a nitrocellulose membrane, blocked, and probed with primary antibodies: rabbit polyclonal anti-GluA1 (1:200; Millipore, Billerica, MA; Cat# AB1504, RRID: AB_2113602 ), rabbit polyclonal anti-GluA2 (1:200; Millipore; AB1768-25UG, RRID: AB_2247874 ), rabbit monoclonal anti-pS831-GluA1 (1:200; Millipore; Cat# 04-823, RRID: AB_1977218 ), rabbit polyclonal anti-pS880-GluA2 (1:200; Millipore; Cat# 07-294, RRID: AB_568822 ), and mouse monoclonal anti-β-Actin as a loading control (1:1500; BD Biosciences; Cat# 612657, RRID: AB_399901 ) in blocking buffer.

    Article Title: Absence of chordin-like 1 aids motor recovery in a mouse model of stroke
    Article Snippet: Sections were then incubated with the corresponding primary antibodies: rabbit polyclonal anti-GluA2 (dilution 1:1000, Millipore AB1768-I, RRID: AB_2922404), rabbit polyclonal anti-GluA1 (dilution 1:400, Millipore AB1504, RRID:AB_2113602) or rabbit polyclonal anti-PSD95 (dilution 1:400, Invitrogen 51-6900) in combination with guinea pig polyclonal anti-VGlut1 (dilution 1:2000, Millipore AB5905, RRID:AB_2301751) in 5% goat serum, 100 mM lysine in PBS and left overnight at 4 °C in a humidified chamber.

    Article Title: Early developmental deletion of forebrain Ank2 causes seizure-related phenotypes by reshaping the synaptic proteome.
    Article Snippet: REAGENT or RESOURCE SOURCE IDENTIFIER Antibodies Mouse monoclonal anti-AnkB NeuroMab Cat#75–144; RRID: AB_10673094 Rabbit polyclonal anti-Kalirin MilliPORE SiGMA Cat#07–122; RRID: AB 310380 Rabbit polyclonal anti-RPS4X Proteintech Cat# 14799-1-AP; RRID: AB 2238567 Mouse monoclonal anti-Sodium Potassium ATPase Alpha 1 NOVUS BIOLOGICALS Cat# NB300-146; RRID: AB 2060981 Rabbit monoclonal anti-NF-L Abcam Cat# ab223343; RRID: AB 2891198 Rabbit monoclonal anti-GAPDH Cell Signaling Cat# 5174; RRID: AB 10622025 Rabbit polyclonal anti-Shank3 Synaptic Systems Cat#162 302; RRID: AB_2619862 Rabbit polyclonal anti-GluA1 MilliPORE SiGMA Cat#AB1504; RRID: AB_2113602 Rabbit polyclonal anti-GluA2 MilliPORE SiGMA Cat#AB10529; RRID: AB_10807819 Mouse monoclonal anti-AnkG NeuroMab Cat#75–146; RRID: AB_10673030 Goat anti-mouse 647 Thermo Fisher Scientific Cat#A-21134; RRID: AB_2535773 Bacterial and virus strains E. coli HST08 TaKaRa Cat#636766 Chemicals, peptides, and recombinant proteins Perampanel Toronto Research Chemicals Cat#P285520 Valproic acid sodium salt Millipore SiGMA Cat#P4543 Tetrodotoxin TOCRIS Cat#1078 Critical commercial assays Micro BCATM Protein Assay Kit Thermo Fisher Scientific Cat#23235 TMT10plexTM Isobaric Label Reagents and Kits Thermo Fisher Scientific Cat#90113 FD Rapid GlogiStain Kit FD NeuroTechnologies, Inc. Cat#PK401 Deposited data Raw Mass Spectrometry Data Files This paper MSV000091894 Experimental models: Organisms/strains Mouse/B6.129(Cg)-Ank2tm1.1Pmoh/MnrJ The Jackson Laboratory #031428 Mouse/B6.Cg-Tg(Camk2a-cre)T29-1Stl/J The Jackson Laboratory #005359 Mouse/B6.129S2-Emx1tm1(cre)Krj/J The Jackson Laboratory #005628 Mouse/B6.129(Cg)-Tg(NEX-cre) Goebbels et al., 2006 N/A Oligonucleotides AnkB F: GC AGTC TCA ACA CAA CTA AGC CAT CCT TTT Dr. Peter Mohler N/A AnkB R: GCT GAG GAG GTA GAC AAG AAC CTT TTT GTG Dr. Peter Mohler N/A Camk2a F: GTT CTC CGT TTG CAC TCA GG The Jackson Laboratory N/A Camk2a R: CAG GTT CTT GCG AAC CTC AT The Jackson Laboratory N/A Emx1 F: CAA CGG GGA GGA CAT TGA The Jackson Laboratory N/A Emx1 R: TCG ATA AGC CAG GGG TTC The Jackson Laboratory N/A NEX F: GAG TCC TGG AAT CAG TCT TTT TC Goebbels et al., 2006 N/A NEX R: CCG CAT AAC CAG TGA AAC AG Goebbels et al., 2006 N/A Recombinant DNA pEGFP-N2 Clontech #6801-1 Software and algorithms FIJI (ImageJ) NIH https://fiji.sc/ (Continued on next page) 12 Cell Reports 42, 112784, July 25, 2023

    Article Title: Disuse plasticity limits spinal cord injury recovery
    Article Snippet: Rabbit Polyclonal Anti-GluA1 , Millipore , Cat# AB1504; RRID: AB_2113602.

    Enzyme-linked Immunosorbent Assay:

    Article Title: miR-329– and miR-495–mediated Prr7 down-regulation is required for homeostatic synaptic depression in rat hippocampal neurons
    Article Snippet: Secondary antibodies in Triton/NGS/PBS were applied for 1 h. The following primary antibodies were used: rabbit polyclonal anti-Prr7 (200 ng/ml, PA5-61266; Invitrogen), chicken monoclonal anti-Map2 (1:5,000 dilution, PA1-16751; Thermo Fisher Scientific), rabbit polyclonal anti-SPAR (1:1,500 dilution, kind gift of DT Pak), rabbit polyclonal anti-GluA1 (PC246 Calbiochem EMD Biosciences, or ABN241 Sigma-Aldrich at final concentrations 1 μg/ml for whole-cell staining, 2 μg/ml for surface staining), rabbit anti-Synapsin1 (AB1543, 1:1,000; Merck Millipore), and mouse anti-PSD-95 (810401, 1:200; BioLegend).

    Article Title: Huntingtin coordinates dendritic spine morphology and function through cofilin-mediated control of the actin cytoskeleton.
    Article Snippet: REAGENT or RESOURCE SOURCE IDENTIFIER Antibodies Mouse monoclonal anti-actin Sigma Cat# A5441; RRID: AB_476744 Mouse monoclonal anti-mCherry Abcam Cat# AB125096; RRID: AB_11133266 Mouse monoclonal anti-PSD95 Millipore Cat# MAB1598; RRID: AB_94278 Mouse monoclonal anti-RAC1 Millipore Cat# 05-389; RRID: AB_309712 Rabbit polyclonal anti-RAC1 Thermo Fischer Cat# PA1-091; RRID: AB_2539856 Mouse monoclonal anti-synaptophysin Sigma Cat# S5768; RRID: AB_477523 Rabbit monoclonal anti-cofilin Cell Signaling Cat# 5175; RRID: AB_10622000 Rabbit monoclonal anti-phospho-cofilin Cell Signaling Cat# 3313; RRID: AB_2080597 Rabbit polyclonal anti-GFP Institut Curie N/A Rabbit polyclonal anti-GLUA1 Millipore Cat# AB1504; RRID: AB_2113602 Rabbit monoclonal anti-HTT (D7F7) Cell Signaling Cat# 5656; RRID: AB_10827977 Mouse anti-HTT (4C8) MilliporeSi Cat# MAB2166; RRID: AB_2123255 Rabbit polyclonal anti-LIMK Cell Signaling Cat# 3842; RRID: AB_2281332 Rabbit polyclonal anti-phospho-LIMK Cell Signaling Cat# 3841; RRID: AB_2136943 Rabbit polyclonal anti-TRIO Centre de Recherche en Biologie cellulaire de Montpellier, CRBM Generated as in DeGeer et al., 2013 N/A Rabbit polyclonal anti-SRGAP2 Proteintech Cat# 22519-1-AP; RRID: AB_2879114 Chemicals B27 supplement Thermo Fisher Cat# 17504044 Bicuculline methiodide Sigma Cat# 14343 CaCl2 Sigma Cat# C5080 Calcium chloride solution Sigma Cat# 21115 EGTA Sigma Cat# 4378 Dako Fluorescent mounting medium Agilent Cat# S302380-2 D-(+)-Glucose Sigma Cat# G7528 Glutamax Thermo Fischer Cat# 35050038 Glycine hydrochloride Sigma Cat# G2879 HEPES Euromedex Cat#10-110-C KCl Sigma Cat# P9333 Lipofectamine 3000 Thermo Fischer Cat# L3000001 Magnesium sulfate solution Sigma Cat# M3409 MgATP Sigma Cat# A9187 MgSO4 Sigma Cat# M5921 NaCl Sigma Cat# S7653 NaGTP Sigma Cat# G8877 NaHCO3 Sigma Cat# S5761 NaH2PO4 Sigma Cat# S0751 Penicillin/streptomycin Thermo Fischer Cat# 15140122 PFA formaldehyde 32% Euromedex Cat# 15714-S Phosphocreatine disodium hydrate Sigma Cat# P7936 Poly L Lysine Sigma Cat# P6282 Potassium gluconate Sigma Cat# P1847 Strychnine hydrochoride Sigma Cat# S8753 (Continued on next page) e1 Cell Reports 40, 111261, August 30, 2022

    Article Title: Disuse plasticity limits spinal cord injury recovery
    Article Snippet: Compound Sakura Finetek Cat# 4583 Vectashield Mounting Medium with DAPI Vector Laboratories Cat# H-1200-10 Critical commercial assays Jo urn al Pr e-p roo f Phosphorylated Neurofilament H Human ELISA BioVendor Cat# RD191138300R Corticosterone EIA IDS Cat# AC-14F1 BCA Protein Assay Kit Pierce Cat# 23225 Deposited data Raw data This paper https://doi.org/10.3494 5/F52P4M Experimental models: Organisms/strains Sprague-Dawley Rat Charles River Laboratories RRID: MGI: 5651135 Software and algorithms Kinema Tracer System Kissei Comtec http://www.kinematrac er.com/ Odyssey Application Software Version 3.0 LI-COR Biosciences RRID: SCR_014579 NIS Elements Imaging Software Nikon Instruments RRID: SCR_014329; https://calm.ucsf.edu/h ardware-and-softwareimage-analysis ImageJ NIH RRID: SCR_003070 AutoQuant Media Cybernetics RRID: SCR_002465 MetaMorph Automation and Image Analysis Software Molecular Devices RRID: SCR_002368 Adobe Photoshop Adobe RRID: SCR_014199 SPSS Statistics version 26.0 IBM RRID: SCR_016479 Graphpad Prism Graphpad RRID: SCR_002798 Adobe Illustrator Adobe RRID: SCR_010279 Other Infinite Horizon Impactor Precision Systems and Instrumentation IH-0400; https://psiimpactors.co m/product/ih400/ Treadmill Muromachi Kikai MK-680; https://muromachi.com /en/archives/english/19 36/ Biological Amplifier Nihon Kohden NEC Biotop 6R12; https://doi.org/10.1371/ journal.pone.0171937 AD Converter Cambridge Electronic Design Limited Micro 1401; https://ced.co.uk/produ cts/microwaveformio Constant Current Stimulator Digitimer DS7A; https://www.digitimer.c om/product/humanneurophysiology/periph eral-stimulators/ds7ads7ah-hv-currentstimulator/ Jo urn al P e-p roo f Plate Reader Tecan GENios; https://www.tecan.com/ customer-news/geniosan-innovativedetection-device-thatdelivers-flexibility-tothe-molecular-biologylaboratory-2347 Infrared Imaging System LI-COR Biosciences Odyssey Infrared Imaging System; RRID: SCR_023765; https://doi.org/10.1038/ s41598-024-70096-0 Cryostat Leica Biosystems CM1950; RRID: SCR_018061; https://www.leicabiosys tems.com/us/histologyequipment/cryostats/lei ca-cm1950/ Inverted Microscope Nikon Instruments ECLIPSE Ti inverted microscope system; RRID: SCR_021242; https://calm.ucsf.edu/c su-22-spinning-diskconfocal Spinning Disk Confocal Microscope Yokogawa Electric Corporation CSU-22; RRID: SCR_020907; https://calm.ucsf.edu/c su-22-spinning-diskconfocal Jo urn al Pr e-p roo f

    Article Title: Disuse plasticity limits spinal cord injury recovery
    Article Snippet: Polyacrylamide gel electrophoresis was performed by loading 10 μg of protein per sample into an individual lane of a precast 10-20% Tris-HCl polyacrylamide gel with three independent replications according to a randomized counterbalancing fashion blindly., Protein was transferred to a nitrocellulose membrane, blocked, and probed with primary antibodies: rabbit polyclonal anti-GluA1 (1:200; Millipore, Billerica, MA; Cat# AB1504, RRID: AB_2113602 ), rabbit polyclonal anti-GluA2 (1:200; Millipore; AB1768-25UG, RRID: AB_2247874 ), rabbit monoclonal anti-pS831-GluA1 (1:200; Millipore; Cat# 04-823, RRID: AB_1977218 ), rabbit polyclonal anti-pS880-GluA2 (1:200; Millipore; Cat# 07-294, RRID: AB_568822 ), and mouse monoclonal anti-β-Actin as a loading control (1:1500; BD Biosciences; Cat# 612657, RRID: AB_399901 ) in blocking buffer.

    Article Title: Absence of chordin-like 1 aids motor recovery in a mouse model of stroke
    Article Snippet: Sections were then incubated with the corresponding primary antibodies: rabbit polyclonal anti-GluA2 (dilution 1:1000, Millipore AB1768-I, RRID: AB_2922404), rabbit polyclonal anti-GluA1 (dilution 1:400, Millipore AB1504, RRID:AB_2113602) or rabbit polyclonal anti-PSD95 (dilution 1:400, Invitrogen 51-6900) in combination with guinea pig polyclonal anti-VGlut1 (dilution 1:2000, Millipore AB5905, RRID:AB_2301751) in 5% goat serum, 100 mM lysine in PBS and left overnight at 4 °C in a humidified chamber.

    Article Title: Early developmental deletion of forebrain Ank2 causes seizure-related phenotypes by reshaping the synaptic proteome.
    Article Snippet: REAGENT or RESOURCE SOURCE IDENTIFIER Antibodies Mouse monoclonal anti-AnkB NeuroMab Cat#75–144; RRID: AB_10673094 Rabbit polyclonal anti-Kalirin MilliPORE SiGMA Cat#07–122; RRID: AB 310380 Rabbit polyclonal anti-RPS4X Proteintech Cat# 14799-1-AP; RRID: AB 2238567 Mouse monoclonal anti-Sodium Potassium ATPase Alpha 1 NOVUS BIOLOGICALS Cat# NB300-146; RRID: AB 2060981 Rabbit monoclonal anti-NF-L Abcam Cat# ab223343; RRID: AB 2891198 Rabbit monoclonal anti-GAPDH Cell Signaling Cat# 5174; RRID: AB 10622025 Rabbit polyclonal anti-Shank3 Synaptic Systems Cat#162 302; RRID: AB_2619862 Rabbit polyclonal anti-GluA1 MilliPORE SiGMA Cat#AB1504; RRID: AB_2113602 Rabbit polyclonal anti-GluA2 MilliPORE SiGMA Cat#AB10529; RRID: AB_10807819 Mouse monoclonal anti-AnkG NeuroMab Cat#75–146; RRID: AB_10673030 Goat anti-mouse 647 Thermo Fisher Scientific Cat#A-21134; RRID: AB_2535773 Bacterial and virus strains E. coli HST08 TaKaRa Cat#636766 Chemicals, peptides, and recombinant proteins Perampanel Toronto Research Chemicals Cat#P285520 Valproic acid sodium salt Millipore SiGMA Cat#P4543 Tetrodotoxin TOCRIS Cat#1078 Critical commercial assays Micro BCATM Protein Assay Kit Thermo Fisher Scientific Cat#23235 TMT10plexTM Isobaric Label Reagents and Kits Thermo Fisher Scientific Cat#90113 FD Rapid GlogiStain Kit FD NeuroTechnologies, Inc. Cat#PK401 Deposited data Raw Mass Spectrometry Data Files This paper MSV000091894 Experimental models: Organisms/strains Mouse/B6.129(Cg)-Ank2tm1.1Pmoh/MnrJ The Jackson Laboratory #031428 Mouse/B6.Cg-Tg(Camk2a-cre)T29-1Stl/J The Jackson Laboratory #005359 Mouse/B6.129S2-Emx1tm1(cre)Krj/J The Jackson Laboratory #005628 Mouse/B6.129(Cg)-Tg(NEX-cre) Goebbels et al., 2006 N/A Oligonucleotides AnkB F: GC AGTC TCA ACA CAA CTA AGC CAT CCT TTT Dr. Peter Mohler N/A AnkB R: GCT GAG GAG GTA GAC AAG AAC CTT TTT GTG Dr. Peter Mohler N/A Camk2a F: GTT CTC CGT TTG CAC TCA GG The Jackson Laboratory N/A Camk2a R: CAG GTT CTT GCG AAC CTC AT The Jackson Laboratory N/A Emx1 F: CAA CGG GGA GGA CAT TGA The Jackson Laboratory N/A Emx1 R: TCG ATA AGC CAG GGG TTC The Jackson Laboratory N/A NEX F: GAG TCC TGG AAT CAG TCT TTT TC Goebbels et al., 2006 N/A NEX R: CCG CAT AAC CAG TGA AAC AG Goebbels et al., 2006 N/A Recombinant DNA pEGFP-N2 Clontech #6801-1 Software and algorithms FIJI (ImageJ) NIH https://fiji.sc/ (Continued on next page) 12 Cell Reports 42, 112784, July 25, 2023

    Article Title: Disuse plasticity limits spinal cord injury recovery
    Article Snippet: Rabbit Polyclonal Anti-GluA1 , Millipore , Cat# AB1504; RRID: AB_2113602.

    Bicinchoninic Acid Protein Assay:

    Article Title: miR-329– and miR-495–mediated Prr7 down-regulation is required for homeostatic synaptic depression in rat hippocampal neurons
    Article Snippet: Secondary antibodies in Triton/NGS/PBS were applied for 1 h. The following primary antibodies were used: rabbit polyclonal anti-Prr7 (200 ng/ml, PA5-61266; Invitrogen), chicken monoclonal anti-Map2 (1:5,000 dilution, PA1-16751; Thermo Fisher Scientific), rabbit polyclonal anti-SPAR (1:1,500 dilution, kind gift of DT Pak), rabbit polyclonal anti-GluA1 (PC246 Calbiochem EMD Biosciences, or ABN241 Sigma-Aldrich at final concentrations 1 μg/ml for whole-cell staining, 2 μg/ml for surface staining), rabbit anti-Synapsin1 (AB1543, 1:1,000; Merck Millipore), and mouse anti-PSD-95 (810401, 1:200; BioLegend).

    Article Title: Huntingtin coordinates dendritic spine morphology and function through cofilin-mediated control of the actin cytoskeleton.
    Article Snippet: REAGENT or RESOURCE SOURCE IDENTIFIER Antibodies Mouse monoclonal anti-actin Sigma Cat# A5441; RRID: AB_476744 Mouse monoclonal anti-mCherry Abcam Cat# AB125096; RRID: AB_11133266 Mouse monoclonal anti-PSD95 Millipore Cat# MAB1598; RRID: AB_94278 Mouse monoclonal anti-RAC1 Millipore Cat# 05-389; RRID: AB_309712 Rabbit polyclonal anti-RAC1 Thermo Fischer Cat# PA1-091; RRID: AB_2539856 Mouse monoclonal anti-synaptophysin Sigma Cat# S5768; RRID: AB_477523 Rabbit monoclonal anti-cofilin Cell Signaling Cat# 5175; RRID: AB_10622000 Rabbit monoclonal anti-phospho-cofilin Cell Signaling Cat# 3313; RRID: AB_2080597 Rabbit polyclonal anti-GFP Institut Curie N/A Rabbit polyclonal anti-GLUA1 Millipore Cat# AB1504; RRID: AB_2113602 Rabbit monoclonal anti-HTT (D7F7) Cell Signaling Cat# 5656; RRID: AB_10827977 Mouse anti-HTT (4C8) MilliporeSi Cat# MAB2166; RRID: AB_2123255 Rabbit polyclonal anti-LIMK Cell Signaling Cat# 3842; RRID: AB_2281332 Rabbit polyclonal anti-phospho-LIMK Cell Signaling Cat# 3841; RRID: AB_2136943 Rabbit polyclonal anti-TRIO Centre de Recherche en Biologie cellulaire de Montpellier, CRBM Generated as in DeGeer et al., 2013 N/A Rabbit polyclonal anti-SRGAP2 Proteintech Cat# 22519-1-AP; RRID: AB_2879114 Chemicals B27 supplement Thermo Fisher Cat# 17504044 Bicuculline methiodide Sigma Cat# 14343 CaCl2 Sigma Cat# C5080 Calcium chloride solution Sigma Cat# 21115 EGTA Sigma Cat# 4378 Dako Fluorescent mounting medium Agilent Cat# S302380-2 D-(+)-Glucose Sigma Cat# G7528 Glutamax Thermo Fischer Cat# 35050038 Glycine hydrochloride Sigma Cat# G2879 HEPES Euromedex Cat#10-110-C KCl Sigma Cat# P9333 Lipofectamine 3000 Thermo Fischer Cat# L3000001 Magnesium sulfate solution Sigma Cat# M3409 MgATP Sigma Cat# A9187 MgSO4 Sigma Cat# M5921 NaCl Sigma Cat# S7653 NaGTP Sigma Cat# G8877 NaHCO3 Sigma Cat# S5761 NaH2PO4 Sigma Cat# S0751 Penicillin/streptomycin Thermo Fischer Cat# 15140122 PFA formaldehyde 32% Euromedex Cat# 15714-S Phosphocreatine disodium hydrate Sigma Cat# P7936 Poly L Lysine Sigma Cat# P6282 Potassium gluconate Sigma Cat# P1847 Strychnine hydrochoride Sigma Cat# S8753 (Continued on next page) e1 Cell Reports 40, 111261, August 30, 2022

    Article Title: Disuse plasticity limits spinal cord injury recovery
    Article Snippet: Compound Sakura Finetek Cat# 4583 Vectashield Mounting Medium with DAPI Vector Laboratories Cat# H-1200-10 Critical commercial assays Jo urn al Pr e-p roo f Phosphorylated Neurofilament H Human ELISA BioVendor Cat# RD191138300R Corticosterone EIA IDS Cat# AC-14F1 BCA Protein Assay Kit Pierce Cat# 23225 Deposited data Raw data This paper https://doi.org/10.3494 5/F52P4M Experimental models: Organisms/strains Sprague-Dawley Rat Charles River Laboratories RRID: MGI: 5651135 Software and algorithms Kinema Tracer System Kissei Comtec http://www.kinematrac er.com/ Odyssey Application Software Version 3.0 LI-COR Biosciences RRID: SCR_014579 NIS Elements Imaging Software Nikon Instruments RRID: SCR_014329; https://calm.ucsf.edu/h ardware-and-softwareimage-analysis ImageJ NIH RRID: SCR_003070 AutoQuant Media Cybernetics RRID: SCR_002465 MetaMorph Automation and Image Analysis Software Molecular Devices RRID: SCR_002368 Adobe Photoshop Adobe RRID: SCR_014199 SPSS Statistics version 26.0 IBM RRID: SCR_016479 Graphpad Prism Graphpad RRID: SCR_002798 Adobe Illustrator Adobe RRID: SCR_010279 Other Infinite Horizon Impactor Precision Systems and Instrumentation IH-0400; https://psiimpactors.co m/product/ih400/ Treadmill Muromachi Kikai MK-680; https://muromachi.com /en/archives/english/19 36/ Biological Amplifier Nihon Kohden NEC Biotop 6R12; https://doi.org/10.1371/ journal.pone.0171937 AD Converter Cambridge Electronic Design Limited Micro 1401; https://ced.co.uk/produ cts/microwaveformio Constant Current Stimulator Digitimer DS7A; https://www.digitimer.c om/product/humanneurophysiology/periph eral-stimulators/ds7ads7ah-hv-currentstimulator/ Jo urn al P e-p roo f Plate Reader Tecan GENios; https://www.tecan.com/ customer-news/geniosan-innovativedetection-device-thatdelivers-flexibility-tothe-molecular-biologylaboratory-2347 Infrared Imaging System LI-COR Biosciences Odyssey Infrared Imaging System; RRID: SCR_023765; https://doi.org/10.1038/ s41598-024-70096-0 Cryostat Leica Biosystems CM1950; RRID: SCR_018061; https://www.leicabiosys tems.com/us/histologyequipment/cryostats/lei ca-cm1950/ Inverted Microscope Nikon Instruments ECLIPSE Ti inverted microscope system; RRID: SCR_021242; https://calm.ucsf.edu/c su-22-spinning-diskconfocal Spinning Disk Confocal Microscope Yokogawa Electric Corporation CSU-22; RRID: SCR_020907; https://calm.ucsf.edu/c su-22-spinning-diskconfocal Jo urn al Pr e-p roo f

    Article Title: Disuse plasticity limits spinal cord injury recovery
    Article Snippet: Polyacrylamide gel electrophoresis was performed by loading 10 μg of protein per sample into an individual lane of a precast 10-20% Tris-HCl polyacrylamide gel with three independent replications according to a randomized counterbalancing fashion blindly., Protein was transferred to a nitrocellulose membrane, blocked, and probed with primary antibodies: rabbit polyclonal anti-GluA1 (1:200; Millipore, Billerica, MA; Cat# AB1504, RRID: AB_2113602 ), rabbit polyclonal anti-GluA2 (1:200; Millipore; AB1768-25UG, RRID: AB_2247874 ), rabbit monoclonal anti-pS831-GluA1 (1:200; Millipore; Cat# 04-823, RRID: AB_1977218 ), rabbit polyclonal anti-pS880-GluA2 (1:200; Millipore; Cat# 07-294, RRID: AB_568822 ), and mouse monoclonal anti-β-Actin as a loading control (1:1500; BD Biosciences; Cat# 612657, RRID: AB_399901 ) in blocking buffer.

    Article Title: Absence of chordin-like 1 aids motor recovery in a mouse model of stroke
    Article Snippet: Sections were then incubated with the corresponding primary antibodies: rabbit polyclonal anti-GluA2 (dilution 1:1000, Millipore AB1768-I, RRID: AB_2922404), rabbit polyclonal anti-GluA1 (dilution 1:400, Millipore AB1504, RRID:AB_2113602) or rabbit polyclonal anti-PSD95 (dilution 1:400, Invitrogen 51-6900) in combination with guinea pig polyclonal anti-VGlut1 (dilution 1:2000, Millipore AB5905, RRID:AB_2301751) in 5% goat serum, 100 mM lysine in PBS and left overnight at 4 °C in a humidified chamber.

    Article Title: Early developmental deletion of forebrain Ank2 causes seizure-related phenotypes by reshaping the synaptic proteome.
    Article Snippet: REAGENT or RESOURCE SOURCE IDENTIFIER Antibodies Mouse monoclonal anti-AnkB NeuroMab Cat#75–144; RRID: AB_10673094 Rabbit polyclonal anti-Kalirin MilliPORE SiGMA Cat#07–122; RRID: AB 310380 Rabbit polyclonal anti-RPS4X Proteintech Cat# 14799-1-AP; RRID: AB 2238567 Mouse monoclonal anti-Sodium Potassium ATPase Alpha 1 NOVUS BIOLOGICALS Cat# NB300-146; RRID: AB 2060981 Rabbit monoclonal anti-NF-L Abcam Cat# ab223343; RRID: AB 2891198 Rabbit monoclonal anti-GAPDH Cell Signaling Cat# 5174; RRID: AB 10622025 Rabbit polyclonal anti-Shank3 Synaptic Systems Cat#162 302; RRID: AB_2619862 Rabbit polyclonal anti-GluA1 MilliPORE SiGMA Cat#AB1504; RRID: AB_2113602 Rabbit polyclonal anti-GluA2 MilliPORE SiGMA Cat#AB10529; RRID: AB_10807819 Mouse monoclonal anti-AnkG NeuroMab Cat#75–146; RRID: AB_10673030 Goat anti-mouse 647 Thermo Fisher Scientific Cat#A-21134; RRID: AB_2535773 Bacterial and virus strains E. coli HST08 TaKaRa Cat#636766 Chemicals, peptides, and recombinant proteins Perampanel Toronto Research Chemicals Cat#P285520 Valproic acid sodium salt Millipore SiGMA Cat#P4543 Tetrodotoxin TOCRIS Cat#1078 Critical commercial assays Micro BCATM Protein Assay Kit Thermo Fisher Scientific Cat#23235 TMT10plexTM Isobaric Label Reagents and Kits Thermo Fisher Scientific Cat#90113 FD Rapid GlogiStain Kit FD NeuroTechnologies, Inc. Cat#PK401 Deposited data Raw Mass Spectrometry Data Files This paper MSV000091894 Experimental models: Organisms/strains Mouse/B6.129(Cg)-Ank2tm1.1Pmoh/MnrJ The Jackson Laboratory #031428 Mouse/B6.Cg-Tg(Camk2a-cre)T29-1Stl/J The Jackson Laboratory #005359 Mouse/B6.129S2-Emx1tm1(cre)Krj/J The Jackson Laboratory #005628 Mouse/B6.129(Cg)-Tg(NEX-cre) Goebbels et al., 2006 N/A Oligonucleotides AnkB F: GC AGTC TCA ACA CAA CTA AGC CAT CCT TTT Dr. Peter Mohler N/A AnkB R: GCT GAG GAG GTA GAC AAG AAC CTT TTT GTG Dr. Peter Mohler N/A Camk2a F: GTT CTC CGT TTG CAC TCA GG The Jackson Laboratory N/A Camk2a R: CAG GTT CTT GCG AAC CTC AT The Jackson Laboratory N/A Emx1 F: CAA CGG GGA GGA CAT TGA The Jackson Laboratory N/A Emx1 R: TCG ATA AGC CAG GGG TTC The Jackson Laboratory N/A NEX F: GAG TCC TGG AAT CAG TCT TTT TC Goebbels et al., 2006 N/A NEX R: CCG CAT AAC CAG TGA AAC AG Goebbels et al., 2006 N/A Recombinant DNA pEGFP-N2 Clontech #6801-1 Software and algorithms FIJI (ImageJ) NIH https://fiji.sc/ (Continued on next page) 12 Cell Reports 42, 112784, July 25, 2023

    Article Title: Disuse plasticity limits spinal cord injury recovery
    Article Snippet: Rabbit Polyclonal Anti-GluA1 , Millipore , Cat# AB1504; RRID: AB_2113602.

    Software:

    Article Title: miR-329– and miR-495–mediated Prr7 down-regulation is required for homeostatic synaptic depression in rat hippocampal neurons
    Article Snippet: Secondary antibodies in Triton/NGS/PBS were applied for 1 h. The following primary antibodies were used: rabbit polyclonal anti-Prr7 (200 ng/ml, PA5-61266; Invitrogen), chicken monoclonal anti-Map2 (1:5,000 dilution, PA1-16751; Thermo Fisher Scientific), rabbit polyclonal anti-SPAR (1:1,500 dilution, kind gift of DT Pak), rabbit polyclonal anti-GluA1 (PC246 Calbiochem EMD Biosciences, or ABN241 Sigma-Aldrich at final concentrations 1 μg/ml for whole-cell staining, 2 μg/ml for surface staining), rabbit anti-Synapsin1 (AB1543, 1:1,000; Merck Millipore), and mouse anti-PSD-95 (810401, 1:200; BioLegend).

    Article Title: Huntingtin coordinates dendritic spine morphology and function through cofilin-mediated control of the actin cytoskeleton.
    Article Snippet: REAGENT or RESOURCE SOURCE IDENTIFIER Antibodies Mouse monoclonal anti-actin Sigma Cat# A5441; RRID: AB_476744 Mouse monoclonal anti-mCherry Abcam Cat# AB125096; RRID: AB_11133266 Mouse monoclonal anti-PSD95 Millipore Cat# MAB1598; RRID: AB_94278 Mouse monoclonal anti-RAC1 Millipore Cat# 05-389; RRID: AB_309712 Rabbit polyclonal anti-RAC1 Thermo Fischer Cat# PA1-091; RRID: AB_2539856 Mouse monoclonal anti-synaptophysin Sigma Cat# S5768; RRID: AB_477523 Rabbit monoclonal anti-cofilin Cell Signaling Cat# 5175; RRID: AB_10622000 Rabbit monoclonal anti-phospho-cofilin Cell Signaling Cat# 3313; RRID: AB_2080597 Rabbit polyclonal anti-GFP Institut Curie N/A Rabbit polyclonal anti-GLUA1 Millipore Cat# AB1504; RRID: AB_2113602 Rabbit monoclonal anti-HTT (D7F7) Cell Signaling Cat# 5656; RRID: AB_10827977 Mouse anti-HTT (4C8) MilliporeSi Cat# MAB2166; RRID: AB_2123255 Rabbit polyclonal anti-LIMK Cell Signaling Cat# 3842; RRID: AB_2281332 Rabbit polyclonal anti-phospho-LIMK Cell Signaling Cat# 3841; RRID: AB_2136943 Rabbit polyclonal anti-TRIO Centre de Recherche en Biologie cellulaire de Montpellier, CRBM Generated as in DeGeer et al., 2013 N/A Rabbit polyclonal anti-SRGAP2 Proteintech Cat# 22519-1-AP; RRID: AB_2879114 Chemicals B27 supplement Thermo Fisher Cat# 17504044 Bicuculline methiodide Sigma Cat# 14343 CaCl2 Sigma Cat# C5080 Calcium chloride solution Sigma Cat# 21115 EGTA Sigma Cat# 4378 Dako Fluorescent mounting medium Agilent Cat# S302380-2 D-(+)-Glucose Sigma Cat# G7528 Glutamax Thermo Fischer Cat# 35050038 Glycine hydrochloride Sigma Cat# G2879 HEPES Euromedex Cat#10-110-C KCl Sigma Cat# P9333 Lipofectamine 3000 Thermo Fischer Cat# L3000001 Magnesium sulfate solution Sigma Cat# M3409 MgATP Sigma Cat# A9187 MgSO4 Sigma Cat# M5921 NaCl Sigma Cat# S7653 NaGTP Sigma Cat# G8877 NaHCO3 Sigma Cat# S5761 NaH2PO4 Sigma Cat# S0751 Penicillin/streptomycin Thermo Fischer Cat# 15140122 PFA formaldehyde 32% Euromedex Cat# 15714-S Phosphocreatine disodium hydrate Sigma Cat# P7936 Poly L Lysine Sigma Cat# P6282 Potassium gluconate Sigma Cat# P1847 Strychnine hydrochoride Sigma Cat# S8753 (Continued on next page) e1 Cell Reports 40, 111261, August 30, 2022

    Article Title: Disuse plasticity limits spinal cord injury recovery
    Article Snippet: Compound Sakura Finetek Cat# 4583 Vectashield Mounting Medium with DAPI Vector Laboratories Cat# H-1200-10 Critical commercial assays Jo urn al Pr e-p roo f Phosphorylated Neurofilament H Human ELISA BioVendor Cat# RD191138300R Corticosterone EIA IDS Cat# AC-14F1 BCA Protein Assay Kit Pierce Cat# 23225 Deposited data Raw data This paper https://doi.org/10.3494 5/F52P4M Experimental models: Organisms/strains Sprague-Dawley Rat Charles River Laboratories RRID: MGI: 5651135 Software and algorithms Kinema Tracer System Kissei Comtec http://www.kinematrac er.com/ Odyssey Application Software Version 3.0 LI-COR Biosciences RRID: SCR_014579 NIS Elements Imaging Software Nikon Instruments RRID: SCR_014329; https://calm.ucsf.edu/h ardware-and-softwareimage-analysis ImageJ NIH RRID: SCR_003070 AutoQuant Media Cybernetics RRID: SCR_002465 MetaMorph Automation and Image Analysis Software Molecular Devices RRID: SCR_002368 Adobe Photoshop Adobe RRID: SCR_014199 SPSS Statistics version 26.0 IBM RRID: SCR_016479 Graphpad Prism Graphpad RRID: SCR_002798 Adobe Illustrator Adobe RRID: SCR_010279 Other Infinite Horizon Impactor Precision Systems and Instrumentation IH-0400; https://psiimpactors.co m/product/ih400/ Treadmill Muromachi Kikai MK-680; https://muromachi.com /en/archives/english/19 36/ Biological Amplifier Nihon Kohden NEC Biotop 6R12; https://doi.org/10.1371/ journal.pone.0171937 AD Converter Cambridge Electronic Design Limited Micro 1401; https://ced.co.uk/produ cts/microwaveformio Constant Current Stimulator Digitimer DS7A; https://www.digitimer.c om/product/humanneurophysiology/periph eral-stimulators/ds7ads7ah-hv-currentstimulator/ Jo urn al P e-p roo f Plate Reader Tecan GENios; https://www.tecan.com/ customer-news/geniosan-innovativedetection-device-thatdelivers-flexibility-tothe-molecular-biologylaboratory-2347 Infrared Imaging System LI-COR Biosciences Odyssey Infrared Imaging System; RRID: SCR_023765; https://doi.org/10.1038/ s41598-024-70096-0 Cryostat Leica Biosystems CM1950; RRID: SCR_018061; https://www.leicabiosys tems.com/us/histologyequipment/cryostats/lei ca-cm1950/ Inverted Microscope Nikon Instruments ECLIPSE Ti inverted microscope system; RRID: SCR_021242; https://calm.ucsf.edu/c su-22-spinning-diskconfocal Spinning Disk Confocal Microscope Yokogawa Electric Corporation CSU-22; RRID: SCR_020907; https://calm.ucsf.edu/c su-22-spinning-diskconfocal Jo urn al Pr e-p roo f

    Article Title: Disuse plasticity limits spinal cord injury recovery
    Article Snippet: Polyacrylamide gel electrophoresis was performed by loading 10 μg of protein per sample into an individual lane of a precast 10-20% Tris-HCl polyacrylamide gel with three independent replications according to a randomized counterbalancing fashion blindly., Protein was transferred to a nitrocellulose membrane, blocked, and probed with primary antibodies: rabbit polyclonal anti-GluA1 (1:200; Millipore, Billerica, MA; Cat# AB1504, RRID: AB_2113602 ), rabbit polyclonal anti-GluA2 (1:200; Millipore; AB1768-25UG, RRID: AB_2247874 ), rabbit monoclonal anti-pS831-GluA1 (1:200; Millipore; Cat# 04-823, RRID: AB_1977218 ), rabbit polyclonal anti-pS880-GluA2 (1:200; Millipore; Cat# 07-294, RRID: AB_568822 ), and mouse monoclonal anti-β-Actin as a loading control (1:1500; BD Biosciences; Cat# 612657, RRID: AB_399901 ) in blocking buffer.

    Article Title: Absence of chordin-like 1 aids motor recovery in a mouse model of stroke
    Article Snippet: Sections were then incubated with the corresponding primary antibodies: rabbit polyclonal anti-GluA2 (dilution 1:1000, Millipore AB1768-I, RRID: AB_2922404), rabbit polyclonal anti-GluA1 (dilution 1:400, Millipore AB1504, RRID:AB_2113602) or rabbit polyclonal anti-PSD95 (dilution 1:400, Invitrogen 51-6900) in combination with guinea pig polyclonal anti-VGlut1 (dilution 1:2000, Millipore AB5905, RRID:AB_2301751) in 5% goat serum, 100 mM lysine in PBS and left overnight at 4 °C in a humidified chamber.

    Article Title: Early developmental deletion of forebrain Ank2 causes seizure-related phenotypes by reshaping the synaptic proteome.
    Article Snippet: REAGENT or RESOURCE SOURCE IDENTIFIER Antibodies Mouse monoclonal anti-AnkB NeuroMab Cat#75–144; RRID: AB_10673094 Rabbit polyclonal anti-Kalirin MilliPORE SiGMA Cat#07–122; RRID: AB 310380 Rabbit polyclonal anti-RPS4X Proteintech Cat# 14799-1-AP; RRID: AB 2238567 Mouse monoclonal anti-Sodium Potassium ATPase Alpha 1 NOVUS BIOLOGICALS Cat# NB300-146; RRID: AB 2060981 Rabbit monoclonal anti-NF-L Abcam Cat# ab223343; RRID: AB 2891198 Rabbit monoclonal anti-GAPDH Cell Signaling Cat# 5174; RRID: AB 10622025 Rabbit polyclonal anti-Shank3 Synaptic Systems Cat#162 302; RRID: AB_2619862 Rabbit polyclonal anti-GluA1 MilliPORE SiGMA Cat#AB1504; RRID: AB_2113602 Rabbit polyclonal anti-GluA2 MilliPORE SiGMA Cat#AB10529; RRID: AB_10807819 Mouse monoclonal anti-AnkG NeuroMab Cat#75–146; RRID: AB_10673030 Goat anti-mouse 647 Thermo Fisher Scientific Cat#A-21134; RRID: AB_2535773 Bacterial and virus strains E. coli HST08 TaKaRa Cat#636766 Chemicals, peptides, and recombinant proteins Perampanel Toronto Research Chemicals Cat#P285520 Valproic acid sodium salt Millipore SiGMA Cat#P4543 Tetrodotoxin TOCRIS Cat#1078 Critical commercial assays Micro BCATM Protein Assay Kit Thermo Fisher Scientific Cat#23235 TMT10plexTM Isobaric Label Reagents and Kits Thermo Fisher Scientific Cat#90113 FD Rapid GlogiStain Kit FD NeuroTechnologies, Inc. Cat#PK401 Deposited data Raw Mass Spectrometry Data Files This paper MSV000091894 Experimental models: Organisms/strains Mouse/B6.129(Cg)-Ank2tm1.1Pmoh/MnrJ The Jackson Laboratory #031428 Mouse/B6.Cg-Tg(Camk2a-cre)T29-1Stl/J The Jackson Laboratory #005359 Mouse/B6.129S2-Emx1tm1(cre)Krj/J The Jackson Laboratory #005628 Mouse/B6.129(Cg)-Tg(NEX-cre) Goebbels et al., 2006 N/A Oligonucleotides AnkB F: GC AGTC TCA ACA CAA CTA AGC CAT CCT TTT Dr. Peter Mohler N/A AnkB R: GCT GAG GAG GTA GAC AAG AAC CTT TTT GTG Dr. Peter Mohler N/A Camk2a F: GTT CTC CGT TTG CAC TCA GG The Jackson Laboratory N/A Camk2a R: CAG GTT CTT GCG AAC CTC AT The Jackson Laboratory N/A Emx1 F: CAA CGG GGA GGA CAT TGA The Jackson Laboratory N/A Emx1 R: TCG ATA AGC CAG GGG TTC The Jackson Laboratory N/A NEX F: GAG TCC TGG AAT CAG TCT TTT TC Goebbels et al., 2006 N/A NEX R: CCG CAT AAC CAG TGA AAC AG Goebbels et al., 2006 N/A Recombinant DNA pEGFP-N2 Clontech #6801-1 Software and algorithms FIJI (ImageJ) NIH https://fiji.sc/ (Continued on next page) 12 Cell Reports 42, 112784, July 25, 2023

    Article Title: Disuse plasticity limits spinal cord injury recovery
    Article Snippet: Rabbit Polyclonal Anti-GluA1 , Millipore , Cat# AB1504; RRID: AB_2113602.

    Imaging:

    Article Title: miR-329– and miR-495–mediated Prr7 down-regulation is required for homeostatic synaptic depression in rat hippocampal neurons
    Article Snippet: Secondary antibodies in Triton/NGS/PBS were applied for 1 h. The following primary antibodies were used: rabbit polyclonal anti-Prr7 (200 ng/ml, PA5-61266; Invitrogen), chicken monoclonal anti-Map2 (1:5,000 dilution, PA1-16751; Thermo Fisher Scientific), rabbit polyclonal anti-SPAR (1:1,500 dilution, kind gift of DT Pak), rabbit polyclonal anti-GluA1 (PC246 Calbiochem EMD Biosciences, or ABN241 Sigma-Aldrich at final concentrations 1 μg/ml for whole-cell staining, 2 μg/ml for surface staining), rabbit anti-Synapsin1 (AB1543, 1:1,000; Merck Millipore), and mouse anti-PSD-95 (810401, 1:200; BioLegend).

    Article Title: Huntingtin coordinates dendritic spine morphology and function through cofilin-mediated control of the actin cytoskeleton.
    Article Snippet: REAGENT or RESOURCE SOURCE IDENTIFIER Antibodies Mouse monoclonal anti-actin Sigma Cat# A5441; RRID: AB_476744 Mouse monoclonal anti-mCherry Abcam Cat# AB125096; RRID: AB_11133266 Mouse monoclonal anti-PSD95 Millipore Cat# MAB1598; RRID: AB_94278 Mouse monoclonal anti-RAC1 Millipore Cat# 05-389; RRID: AB_309712 Rabbit polyclonal anti-RAC1 Thermo Fischer Cat# PA1-091; RRID: AB_2539856 Mouse monoclonal anti-synaptophysin Sigma Cat# S5768; RRID: AB_477523 Rabbit monoclonal anti-cofilin Cell Signaling Cat# 5175; RRID: AB_10622000 Rabbit monoclonal anti-phospho-cofilin Cell Signaling Cat# 3313; RRID: AB_2080597 Rabbit polyclonal anti-GFP Institut Curie N/A Rabbit polyclonal anti-GLUA1 Millipore Cat# AB1504; RRID: AB_2113602 Rabbit monoclonal anti-HTT (D7F7) Cell Signaling Cat# 5656; RRID: AB_10827977 Mouse anti-HTT (4C8) MilliporeSi Cat# MAB2166; RRID: AB_2123255 Rabbit polyclonal anti-LIMK Cell Signaling Cat# 3842; RRID: AB_2281332 Rabbit polyclonal anti-phospho-LIMK Cell Signaling Cat# 3841; RRID: AB_2136943 Rabbit polyclonal anti-TRIO Centre de Recherche en Biologie cellulaire de Montpellier, CRBM Generated as in DeGeer et al., 2013 N/A Rabbit polyclonal anti-SRGAP2 Proteintech Cat# 22519-1-AP; RRID: AB_2879114 Chemicals B27 supplement Thermo Fisher Cat# 17504044 Bicuculline methiodide Sigma Cat# 14343 CaCl2 Sigma Cat# C5080 Calcium chloride solution Sigma Cat# 21115 EGTA Sigma Cat# 4378 Dako Fluorescent mounting medium Agilent Cat# S302380-2 D-(+)-Glucose Sigma Cat# G7528 Glutamax Thermo Fischer Cat# 35050038 Glycine hydrochloride Sigma Cat# G2879 HEPES Euromedex Cat#10-110-C KCl Sigma Cat# P9333 Lipofectamine 3000 Thermo Fischer Cat# L3000001 Magnesium sulfate solution Sigma Cat# M3409 MgATP Sigma Cat# A9187 MgSO4 Sigma Cat# M5921 NaCl Sigma Cat# S7653 NaGTP Sigma Cat# G8877 NaHCO3 Sigma Cat# S5761 NaH2PO4 Sigma Cat# S0751 Penicillin/streptomycin Thermo Fischer Cat# 15140122 PFA formaldehyde 32% Euromedex Cat# 15714-S Phosphocreatine disodium hydrate Sigma Cat# P7936 Poly L Lysine Sigma Cat# P6282 Potassium gluconate Sigma Cat# P1847 Strychnine hydrochoride Sigma Cat# S8753 (Continued on next page) e1 Cell Reports 40, 111261, August 30, 2022

    Article Title: Disuse plasticity limits spinal cord injury recovery
    Article Snippet: Compound Sakura Finetek Cat# 4583 Vectashield Mounting Medium with DAPI Vector Laboratories Cat# H-1200-10 Critical commercial assays Jo urn al Pr e-p roo f Phosphorylated Neurofilament H Human ELISA BioVendor Cat# RD191138300R Corticosterone EIA IDS Cat# AC-14F1 BCA Protein Assay Kit Pierce Cat# 23225 Deposited data Raw data This paper https://doi.org/10.3494 5/F52P4M Experimental models: Organisms/strains Sprague-Dawley Rat Charles River Laboratories RRID: MGI: 5651135 Software and algorithms Kinema Tracer System Kissei Comtec http://www.kinematrac er.com/ Odyssey Application Software Version 3.0 LI-COR Biosciences RRID: SCR_014579 NIS Elements Imaging Software Nikon Instruments RRID: SCR_014329; https://calm.ucsf.edu/h ardware-and-softwareimage-analysis ImageJ NIH RRID: SCR_003070 AutoQuant Media Cybernetics RRID: SCR_002465 MetaMorph Automation and Image Analysis Software Molecular Devices RRID: SCR_002368 Adobe Photoshop Adobe RRID: SCR_014199 SPSS Statistics version 26.0 IBM RRID: SCR_016479 Graphpad Prism Graphpad RRID: SCR_002798 Adobe Illustrator Adobe RRID: SCR_010279 Other Infinite Horizon Impactor Precision Systems and Instrumentation IH-0400; https://psiimpactors.co m/product/ih400/ Treadmill Muromachi Kikai MK-680; https://muromachi.com /en/archives/english/19 36/ Biological Amplifier Nihon Kohden NEC Biotop 6R12; https://doi.org/10.1371/ journal.pone.0171937 AD Converter Cambridge Electronic Design Limited Micro 1401; https://ced.co.uk/produ cts/microwaveformio Constant Current Stimulator Digitimer DS7A; https://www.digitimer.c om/product/humanneurophysiology/periph eral-stimulators/ds7ads7ah-hv-currentstimulator/ Jo urn al P e-p roo f Plate Reader Tecan GENios; https://www.tecan.com/ customer-news/geniosan-innovativedetection-device-thatdelivers-flexibility-tothe-molecular-biologylaboratory-2347 Infrared Imaging System LI-COR Biosciences Odyssey Infrared Imaging System; RRID: SCR_023765; https://doi.org/10.1038/ s41598-024-70096-0 Cryostat Leica Biosystems CM1950; RRID: SCR_018061; https://www.leicabiosys tems.com/us/histologyequipment/cryostats/lei ca-cm1950/ Inverted Microscope Nikon Instruments ECLIPSE Ti inverted microscope system; RRID: SCR_021242; https://calm.ucsf.edu/c su-22-spinning-diskconfocal Spinning Disk Confocal Microscope Yokogawa Electric Corporation CSU-22; RRID: SCR_020907; https://calm.ucsf.edu/c su-22-spinning-diskconfocal Jo urn al Pr e-p roo f

    Article Title: Disuse plasticity limits spinal cord injury recovery
    Article Snippet: Polyacrylamide gel electrophoresis was performed by loading 10 μg of protein per sample into an individual lane of a precast 10-20% Tris-HCl polyacrylamide gel with three independent replications according to a randomized counterbalancing fashion blindly., Protein was transferred to a nitrocellulose membrane, blocked, and probed with primary antibodies: rabbit polyclonal anti-GluA1 (1:200; Millipore, Billerica, MA; Cat# AB1504, RRID: AB_2113602 ), rabbit polyclonal anti-GluA2 (1:200; Millipore; AB1768-25UG, RRID: AB_2247874 ), rabbit monoclonal anti-pS831-GluA1 (1:200; Millipore; Cat# 04-823, RRID: AB_1977218 ), rabbit polyclonal anti-pS880-GluA2 (1:200; Millipore; Cat# 07-294, RRID: AB_568822 ), and mouse monoclonal anti-β-Actin as a loading control (1:1500; BD Biosciences; Cat# 612657, RRID: AB_399901 ) in blocking buffer.

    Article Title: Absence of chordin-like 1 aids motor recovery in a mouse model of stroke
    Article Snippet: Sections were then incubated with the corresponding primary antibodies: rabbit polyclonal anti-GluA2 (dilution 1:1000, Millipore AB1768-I, RRID: AB_2922404), rabbit polyclonal anti-GluA1 (dilution 1:400, Millipore AB1504, RRID:AB_2113602) or rabbit polyclonal anti-PSD95 (dilution 1:400, Invitrogen 51-6900) in combination with guinea pig polyclonal anti-VGlut1 (dilution 1:2000, Millipore AB5905, RRID:AB_2301751) in 5% goat serum, 100 mM lysine in PBS and left overnight at 4 °C in a humidified chamber.

    Article Title: Early developmental deletion of forebrain Ank2 causes seizure-related phenotypes by reshaping the synaptic proteome.
    Article Snippet: REAGENT or RESOURCE SOURCE IDENTIFIER Antibodies Mouse monoclonal anti-AnkB NeuroMab Cat#75–144; RRID: AB_10673094 Rabbit polyclonal anti-Kalirin MilliPORE SiGMA Cat#07–122; RRID: AB 310380 Rabbit polyclonal anti-RPS4X Proteintech Cat# 14799-1-AP; RRID: AB 2238567 Mouse monoclonal anti-Sodium Potassium ATPase Alpha 1 NOVUS BIOLOGICALS Cat# NB300-146; RRID: AB 2060981 Rabbit monoclonal anti-NF-L Abcam Cat# ab223343; RRID: AB 2891198 Rabbit monoclonal anti-GAPDH Cell Signaling Cat# 5174; RRID: AB 10622025 Rabbit polyclonal anti-Shank3 Synaptic Systems Cat#162 302; RRID: AB_2619862 Rabbit polyclonal anti-GluA1 MilliPORE SiGMA Cat#AB1504; RRID: AB_2113602 Rabbit polyclonal anti-GluA2 MilliPORE SiGMA Cat#AB10529; RRID: AB_10807819 Mouse monoclonal anti-AnkG NeuroMab Cat#75–146; RRID: AB_10673030 Goat anti-mouse 647 Thermo Fisher Scientific Cat#A-21134; RRID: AB_2535773 Bacterial and virus strains E. coli HST08 TaKaRa Cat#636766 Chemicals, peptides, and recombinant proteins Perampanel Toronto Research Chemicals Cat#P285520 Valproic acid sodium salt Millipore SiGMA Cat#P4543 Tetrodotoxin TOCRIS Cat#1078 Critical commercial assays Micro BCATM Protein Assay Kit Thermo Fisher Scientific Cat#23235 TMT10plexTM Isobaric Label Reagents and Kits Thermo Fisher Scientific Cat#90113 FD Rapid GlogiStain Kit FD NeuroTechnologies, Inc. Cat#PK401 Deposited data Raw Mass Spectrometry Data Files This paper MSV000091894 Experimental models: Organisms/strains Mouse/B6.129(Cg)-Ank2tm1.1Pmoh/MnrJ The Jackson Laboratory #031428 Mouse/B6.Cg-Tg(Camk2a-cre)T29-1Stl/J The Jackson Laboratory #005359 Mouse/B6.129S2-Emx1tm1(cre)Krj/J The Jackson Laboratory #005628 Mouse/B6.129(Cg)-Tg(NEX-cre) Goebbels et al., 2006 N/A Oligonucleotides AnkB F: GC AGTC TCA ACA CAA CTA AGC CAT CCT TTT Dr. Peter Mohler N/A AnkB R: GCT GAG GAG GTA GAC AAG AAC CTT TTT GTG Dr. Peter Mohler N/A Camk2a F: GTT CTC CGT TTG CAC TCA GG The Jackson Laboratory N/A Camk2a R: CAG GTT CTT GCG AAC CTC AT The Jackson Laboratory N/A Emx1 F: CAA CGG GGA GGA CAT TGA The Jackson Laboratory N/A Emx1 R: TCG ATA AGC CAG GGG TTC The Jackson Laboratory N/A NEX F: GAG TCC TGG AAT CAG TCT TTT TC Goebbels et al., 2006 N/A NEX R: CCG CAT AAC CAG TGA AAC AG Goebbels et al., 2006 N/A Recombinant DNA pEGFP-N2 Clontech #6801-1 Software and algorithms FIJI (ImageJ) NIH https://fiji.sc/ (Continued on next page) 12 Cell Reports 42, 112784, July 25, 2023

    Article Title: Disuse plasticity limits spinal cord injury recovery
    Article Snippet: Rabbit Polyclonal Anti-GluA1 , Millipore , Cat# AB1504; RRID: AB_2113602.

    Inverted Microscopy:

    Article Title: miR-329– and miR-495–mediated Prr7 down-regulation is required for homeostatic synaptic depression in rat hippocampal neurons
    Article Snippet: Secondary antibodies in Triton/NGS/PBS were applied for 1 h. The following primary antibodies were used: rabbit polyclonal anti-Prr7 (200 ng/ml, PA5-61266; Invitrogen), chicken monoclonal anti-Map2 (1:5,000 dilution, PA1-16751; Thermo Fisher Scientific), rabbit polyclonal anti-SPAR (1:1,500 dilution, kind gift of DT Pak), rabbit polyclonal anti-GluA1 (PC246 Calbiochem EMD Biosciences, or ABN241 Sigma-Aldrich at final concentrations 1 μg/ml for whole-cell staining, 2 μg/ml for surface staining), rabbit anti-Synapsin1 (AB1543, 1:1,000; Merck Millipore), and mouse anti-PSD-95 (810401, 1:200; BioLegend).

    Article Title: Huntingtin coordinates dendritic spine morphology and function through cofilin-mediated control of the actin cytoskeleton.
    Article Snippet: REAGENT or RESOURCE SOURCE IDENTIFIER Antibodies Mouse monoclonal anti-actin Sigma Cat# A5441; RRID: AB_476744 Mouse monoclonal anti-mCherry Abcam Cat# AB125096; RRID: AB_11133266 Mouse monoclonal anti-PSD95 Millipore Cat# MAB1598; RRID: AB_94278 Mouse monoclonal anti-RAC1 Millipore Cat# 05-389; RRID: AB_309712 Rabbit polyclonal anti-RAC1 Thermo Fischer Cat# PA1-091; RRID: AB_2539856 Mouse monoclonal anti-synaptophysin Sigma Cat# S5768; RRID: AB_477523 Rabbit monoclonal anti-cofilin Cell Signaling Cat# 5175; RRID: AB_10622000 Rabbit monoclonal anti-phospho-cofilin Cell Signaling Cat# 3313; RRID: AB_2080597 Rabbit polyclonal anti-GFP Institut Curie N/A Rabbit polyclonal anti-GLUA1 Millipore Cat# AB1504; RRID: AB_2113602 Rabbit monoclonal anti-HTT (D7F7) Cell Signaling Cat# 5656; RRID: AB_10827977 Mouse anti-HTT (4C8) MilliporeSi Cat# MAB2166; RRID: AB_2123255 Rabbit polyclonal anti-LIMK Cell Signaling Cat# 3842; RRID: AB_2281332 Rabbit polyclonal anti-phospho-LIMK Cell Signaling Cat# 3841; RRID: AB_2136943 Rabbit polyclonal anti-TRIO Centre de Recherche en Biologie cellulaire de Montpellier, CRBM Generated as in DeGeer et al., 2013 N/A Rabbit polyclonal anti-SRGAP2 Proteintech Cat# 22519-1-AP; RRID: AB_2879114 Chemicals B27 supplement Thermo Fisher Cat# 17504044 Bicuculline methiodide Sigma Cat# 14343 CaCl2 Sigma Cat# C5080 Calcium chloride solution Sigma Cat# 21115 EGTA Sigma Cat# 4378 Dako Fluorescent mounting medium Agilent Cat# S302380-2 D-(+)-Glucose Sigma Cat# G7528 Glutamax Thermo Fischer Cat# 35050038 Glycine hydrochloride Sigma Cat# G2879 HEPES Euromedex Cat#10-110-C KCl Sigma Cat# P9333 Lipofectamine 3000 Thermo Fischer Cat# L3000001 Magnesium sulfate solution Sigma Cat# M3409 MgATP Sigma Cat# A9187 MgSO4 Sigma Cat# M5921 NaCl Sigma Cat# S7653 NaGTP Sigma Cat# G8877 NaHCO3 Sigma Cat# S5761 NaH2PO4 Sigma Cat# S0751 Penicillin/streptomycin Thermo Fischer Cat# 15140122 PFA formaldehyde 32% Euromedex Cat# 15714-S Phosphocreatine disodium hydrate Sigma Cat# P7936 Poly L Lysine Sigma Cat# P6282 Potassium gluconate Sigma Cat# P1847 Strychnine hydrochoride Sigma Cat# S8753 (Continued on next page) e1 Cell Reports 40, 111261, August 30, 2022

    Article Title: Disuse plasticity limits spinal cord injury recovery
    Article Snippet: Compound Sakura Finetek Cat# 4583 Vectashield Mounting Medium with DAPI Vector Laboratories Cat# H-1200-10 Critical commercial assays Jo urn al Pr e-p roo f Phosphorylated Neurofilament H Human ELISA BioVendor Cat# RD191138300R Corticosterone EIA IDS Cat# AC-14F1 BCA Protein Assay Kit Pierce Cat# 23225 Deposited data Raw data This paper https://doi.org/10.3494 5/F52P4M Experimental models: Organisms/strains Sprague-Dawley Rat Charles River Laboratories RRID: MGI: 5651135 Software and algorithms Kinema Tracer System Kissei Comtec http://www.kinematrac er.com/ Odyssey Application Software Version 3.0 LI-COR Biosciences RRID: SCR_014579 NIS Elements Imaging Software Nikon Instruments RRID: SCR_014329; https://calm.ucsf.edu/h ardware-and-softwareimage-analysis ImageJ NIH RRID: SCR_003070 AutoQuant Media Cybernetics RRID: SCR_002465 MetaMorph Automation and Image Analysis Software Molecular Devices RRID: SCR_002368 Adobe Photoshop Adobe RRID: SCR_014199 SPSS Statistics version 26.0 IBM RRID: SCR_016479 Graphpad Prism Graphpad RRID: SCR_002798 Adobe Illustrator Adobe RRID: SCR_010279 Other Infinite Horizon Impactor Precision Systems and Instrumentation IH-0400; https://psiimpactors.co m/product/ih400/ Treadmill Muromachi Kikai MK-680; https://muromachi.com /en/archives/english/19 36/ Biological Amplifier Nihon Kohden NEC Biotop 6R12; https://doi.org/10.1371/ journal.pone.0171937 AD Converter Cambridge Electronic Design Limited Micro 1401; https://ced.co.uk/produ cts/microwaveformio Constant Current Stimulator Digitimer DS7A; https://www.digitimer.c om/product/humanneurophysiology/periph eral-stimulators/ds7ads7ah-hv-currentstimulator/ Jo urn al P e-p roo f Plate Reader Tecan GENios; https://www.tecan.com/ customer-news/geniosan-innovativedetection-device-thatdelivers-flexibility-tothe-molecular-biologylaboratory-2347 Infrared Imaging System LI-COR Biosciences Odyssey Infrared Imaging System; RRID: SCR_023765; https://doi.org/10.1038/ s41598-024-70096-0 Cryostat Leica Biosystems CM1950; RRID: SCR_018061; https://www.leicabiosys tems.com/us/histologyequipment/cryostats/lei ca-cm1950/ Inverted Microscope Nikon Instruments ECLIPSE Ti inverted microscope system; RRID: SCR_021242; https://calm.ucsf.edu/c su-22-spinning-diskconfocal Spinning Disk Confocal Microscope Yokogawa Electric Corporation CSU-22; RRID: SCR_020907; https://calm.ucsf.edu/c su-22-spinning-diskconfocal Jo urn al Pr e-p roo f

    Article Title: Disuse plasticity limits spinal cord injury recovery
    Article Snippet: Polyacrylamide gel electrophoresis was performed by loading 10 μg of protein per sample into an individual lane of a precast 10-20% Tris-HCl polyacrylamide gel with three independent replications according to a randomized counterbalancing fashion blindly., Protein was transferred to a nitrocellulose membrane, blocked, and probed with primary antibodies: rabbit polyclonal anti-GluA1 (1:200; Millipore, Billerica, MA; Cat# AB1504, RRID: AB_2113602 ), rabbit polyclonal anti-GluA2 (1:200; Millipore; AB1768-25UG, RRID: AB_2247874 ), rabbit monoclonal anti-pS831-GluA1 (1:200; Millipore; Cat# 04-823, RRID: AB_1977218 ), rabbit polyclonal anti-pS880-GluA2 (1:200; Millipore; Cat# 07-294, RRID: AB_568822 ), and mouse monoclonal anti-β-Actin as a loading control (1:1500; BD Biosciences; Cat# 612657, RRID: AB_399901 ) in blocking buffer.

    Article Title: Absence of chordin-like 1 aids motor recovery in a mouse model of stroke
    Article Snippet: Sections were then incubated with the corresponding primary antibodies: rabbit polyclonal anti-GluA2 (dilution 1:1000, Millipore AB1768-I, RRID: AB_2922404), rabbit polyclonal anti-GluA1 (dilution 1:400, Millipore AB1504, RRID:AB_2113602) or rabbit polyclonal anti-PSD95 (dilution 1:400, Invitrogen 51-6900) in combination with guinea pig polyclonal anti-VGlut1 (dilution 1:2000, Millipore AB5905, RRID:AB_2301751) in 5% goat serum, 100 mM lysine in PBS and left overnight at 4 °C in a humidified chamber.

    Article Title: Early developmental deletion of forebrain Ank2 causes seizure-related phenotypes by reshaping the synaptic proteome.
    Article Snippet: REAGENT or RESOURCE SOURCE IDENTIFIER Antibodies Mouse monoclonal anti-AnkB NeuroMab Cat#75–144; RRID: AB_10673094 Rabbit polyclonal anti-Kalirin MilliPORE SiGMA Cat#07–122; RRID: AB 310380 Rabbit polyclonal anti-RPS4X Proteintech Cat# 14799-1-AP; RRID: AB 2238567 Mouse monoclonal anti-Sodium Potassium ATPase Alpha 1 NOVUS BIOLOGICALS Cat# NB300-146; RRID: AB 2060981 Rabbit monoclonal anti-NF-L Abcam Cat# ab223343; RRID: AB 2891198 Rabbit monoclonal anti-GAPDH Cell Signaling Cat# 5174; RRID: AB 10622025 Rabbit polyclonal anti-Shank3 Synaptic Systems Cat#162 302; RRID: AB_2619862 Rabbit polyclonal anti-GluA1 MilliPORE SiGMA Cat#AB1504; RRID: AB_2113602 Rabbit polyclonal anti-GluA2 MilliPORE SiGMA Cat#AB10529; RRID: AB_10807819 Mouse monoclonal anti-AnkG NeuroMab Cat#75–146; RRID: AB_10673030 Goat anti-mouse 647 Thermo Fisher Scientific Cat#A-21134; RRID: AB_2535773 Bacterial and virus strains E. coli HST08 TaKaRa Cat#636766 Chemicals, peptides, and recombinant proteins Perampanel Toronto Research Chemicals Cat#P285520 Valproic acid sodium salt Millipore SiGMA Cat#P4543 Tetrodotoxin TOCRIS Cat#1078 Critical commercial assays Micro BCATM Protein Assay Kit Thermo Fisher Scientific Cat#23235 TMT10plexTM Isobaric Label Reagents and Kits Thermo Fisher Scientific Cat#90113 FD Rapid GlogiStain Kit FD NeuroTechnologies, Inc. Cat#PK401 Deposited data Raw Mass Spectrometry Data Files This paper MSV000091894 Experimental models: Organisms/strains Mouse/B6.129(Cg)-Ank2tm1.1Pmoh/MnrJ The Jackson Laboratory #031428 Mouse/B6.Cg-Tg(Camk2a-cre)T29-1Stl/J The Jackson Laboratory #005359 Mouse/B6.129S2-Emx1tm1(cre)Krj/J The Jackson Laboratory #005628 Mouse/B6.129(Cg)-Tg(NEX-cre) Goebbels et al., 2006 N/A Oligonucleotides AnkB F: GC AGTC TCA ACA CAA CTA AGC CAT CCT TTT Dr. Peter Mohler N/A AnkB R: GCT GAG GAG GTA GAC AAG AAC CTT TTT GTG Dr. Peter Mohler N/A Camk2a F: GTT CTC CGT TTG CAC TCA GG The Jackson Laboratory N/A Camk2a R: CAG GTT CTT GCG AAC CTC AT The Jackson Laboratory N/A Emx1 F: CAA CGG GGA GGA CAT TGA The Jackson Laboratory N/A Emx1 R: TCG ATA AGC CAG GGG TTC The Jackson Laboratory N/A NEX F: GAG TCC TGG AAT CAG TCT TTT TC Goebbels et al., 2006 N/A NEX R: CCG CAT AAC CAG TGA AAC AG Goebbels et al., 2006 N/A Recombinant DNA pEGFP-N2 Clontech #6801-1 Software and algorithms FIJI (ImageJ) NIH https://fiji.sc/ (Continued on next page) 12 Cell Reports 42, 112784, July 25, 2023

    Article Title: Disuse plasticity limits spinal cord injury recovery
    Article Snippet: Rabbit Polyclonal Anti-GluA1 , Millipore , Cat# AB1504; RRID: AB_2113602.

    Microscopy:

    Article Title: miR-329– and miR-495–mediated Prr7 down-regulation is required for homeostatic synaptic depression in rat hippocampal neurons
    Article Snippet: Secondary antibodies in Triton/NGS/PBS were applied for 1 h. The following primary antibodies were used: rabbit polyclonal anti-Prr7 (200 ng/ml, PA5-61266; Invitrogen), chicken monoclonal anti-Map2 (1:5,000 dilution, PA1-16751; Thermo Fisher Scientific), rabbit polyclonal anti-SPAR (1:1,500 dilution, kind gift of DT Pak), rabbit polyclonal anti-GluA1 (PC246 Calbiochem EMD Biosciences, or ABN241 Sigma-Aldrich at final concentrations 1 μg/ml for whole-cell staining, 2 μg/ml for surface staining), rabbit anti-Synapsin1 (AB1543, 1:1,000; Merck Millipore), and mouse anti-PSD-95 (810401, 1:200; BioLegend).

    Article Title: Huntingtin coordinates dendritic spine morphology and function through cofilin-mediated control of the actin cytoskeleton.
    Article Snippet: REAGENT or RESOURCE SOURCE IDENTIFIER Antibodies Mouse monoclonal anti-actin Sigma Cat# A5441; RRID: AB_476744 Mouse monoclonal anti-mCherry Abcam Cat# AB125096; RRID: AB_11133266 Mouse monoclonal anti-PSD95 Millipore Cat# MAB1598; RRID: AB_94278 Mouse monoclonal anti-RAC1 Millipore Cat# 05-389; RRID: AB_309712 Rabbit polyclonal anti-RAC1 Thermo Fischer Cat# PA1-091; RRID: AB_2539856 Mouse monoclonal anti-synaptophysin Sigma Cat# S5768; RRID: AB_477523 Rabbit monoclonal anti-cofilin Cell Signaling Cat# 5175; RRID: AB_10622000 Rabbit monoclonal anti-phospho-cofilin Cell Signaling Cat# 3313; RRID: AB_2080597 Rabbit polyclonal anti-GFP Institut Curie N/A Rabbit polyclonal anti-GLUA1 Millipore Cat# AB1504; RRID: AB_2113602 Rabbit monoclonal anti-HTT (D7F7) Cell Signaling Cat# 5656; RRID: AB_10827977 Mouse anti-HTT (4C8) MilliporeSi Cat# MAB2166; RRID: AB_2123255 Rabbit polyclonal anti-LIMK Cell Signaling Cat# 3842; RRID: AB_2281332 Rabbit polyclonal anti-phospho-LIMK Cell Signaling Cat# 3841; RRID: AB_2136943 Rabbit polyclonal anti-TRIO Centre de Recherche en Biologie cellulaire de Montpellier, CRBM Generated as in DeGeer et al., 2013 N/A Rabbit polyclonal anti-SRGAP2 Proteintech Cat# 22519-1-AP; RRID: AB_2879114 Chemicals B27 supplement Thermo Fisher Cat# 17504044 Bicuculline methiodide Sigma Cat# 14343 CaCl2 Sigma Cat# C5080 Calcium chloride solution Sigma Cat# 21115 EGTA Sigma Cat# 4378 Dako Fluorescent mounting medium Agilent Cat# S302380-2 D-(+)-Glucose Sigma Cat# G7528 Glutamax Thermo Fischer Cat# 35050038 Glycine hydrochloride Sigma Cat# G2879 HEPES Euromedex Cat#10-110-C KCl Sigma Cat# P9333 Lipofectamine 3000 Thermo Fischer Cat# L3000001 Magnesium sulfate solution Sigma Cat# M3409 MgATP Sigma Cat# A9187 MgSO4 Sigma Cat# M5921 NaCl Sigma Cat# S7653 NaGTP Sigma Cat# G8877 NaHCO3 Sigma Cat# S5761 NaH2PO4 Sigma Cat# S0751 Penicillin/streptomycin Thermo Fischer Cat# 15140122 PFA formaldehyde 32% Euromedex Cat# 15714-S Phosphocreatine disodium hydrate Sigma Cat# P7936 Poly L Lysine Sigma Cat# P6282 Potassium gluconate Sigma Cat# P1847 Strychnine hydrochoride Sigma Cat# S8753 (Continued on next page) e1 Cell Reports 40, 111261, August 30, 2022

    Article Title: Disuse plasticity limits spinal cord injury recovery
    Article Snippet: Compound Sakura Finetek Cat# 4583 Vectashield Mounting Medium with DAPI Vector Laboratories Cat# H-1200-10 Critical commercial assays Jo urn al Pr e-p roo f Phosphorylated Neurofilament H Human ELISA BioVendor Cat# RD191138300R Corticosterone EIA IDS Cat# AC-14F1 BCA Protein Assay Kit Pierce Cat# 23225 Deposited data Raw data This paper https://doi.org/10.3494 5/F52P4M Experimental models: Organisms/strains Sprague-Dawley Rat Charles River Laboratories RRID: MGI: 5651135 Software and algorithms Kinema Tracer System Kissei Comtec http://www.kinematrac er.com/ Odyssey Application Software Version 3.0 LI-COR Biosciences RRID: SCR_014579 NIS Elements Imaging Software Nikon Instruments RRID: SCR_014329; https://calm.ucsf.edu/h ardware-and-softwareimage-analysis ImageJ NIH RRID: SCR_003070 AutoQuant Media Cybernetics RRID: SCR_002465 MetaMorph Automation and Image Analysis Software Molecular Devices RRID: SCR_002368 Adobe Photoshop Adobe RRID: SCR_014199 SPSS Statistics version 26.0 IBM RRID: SCR_016479 Graphpad Prism Graphpad RRID: SCR_002798 Adobe Illustrator Adobe RRID: SCR_010279 Other Infinite Horizon Impactor Precision Systems and Instrumentation IH-0400; https://psiimpactors.co m/product/ih400/ Treadmill Muromachi Kikai MK-680; https://muromachi.com /en/archives/english/19 36/ Biological Amplifier Nihon Kohden NEC Biotop 6R12; https://doi.org/10.1371/ journal.pone.0171937 AD Converter Cambridge Electronic Design Limited Micro 1401; https://ced.co.uk/produ cts/microwaveformio Constant Current Stimulator Digitimer DS7A; https://www.digitimer.c om/product/humanneurophysiology/periph eral-stimulators/ds7ads7ah-hv-currentstimulator/ Jo urn al P e-p roo f Plate Reader Tecan GENios; https://www.tecan.com/ customer-news/geniosan-innovativedetection-device-thatdelivers-flexibility-tothe-molecular-biologylaboratory-2347 Infrared Imaging System LI-COR Biosciences Odyssey Infrared Imaging System; RRID: SCR_023765; https://doi.org/10.1038/ s41598-024-70096-0 Cryostat Leica Biosystems CM1950; RRID: SCR_018061; https://www.leicabiosys tems.com/us/histologyequipment/cryostats/lei ca-cm1950/ Inverted Microscope Nikon Instruments ECLIPSE Ti inverted microscope system; RRID: SCR_021242; https://calm.ucsf.edu/c su-22-spinning-diskconfocal Spinning Disk Confocal Microscope Yokogawa Electric Corporation CSU-22; RRID: SCR_020907; https://calm.ucsf.edu/c su-22-spinning-diskconfocal Jo urn al Pr e-p roo f

    Article Title: Disuse plasticity limits spinal cord injury recovery
    Article Snippet: Polyacrylamide gel electrophoresis was performed by loading 10 μg of protein per sample into an individual lane of a precast 10-20% Tris-HCl polyacrylamide gel with three independent replications according to a randomized counterbalancing fashion blindly., Protein was transferred to a nitrocellulose membrane, blocked, and probed with primary antibodies: rabbit polyclonal anti-GluA1 (1:200; Millipore, Billerica, MA; Cat# AB1504, RRID: AB_2113602 ), rabbit polyclonal anti-GluA2 (1:200; Millipore; AB1768-25UG, RRID: AB_2247874 ), rabbit monoclonal anti-pS831-GluA1 (1:200; Millipore; Cat# 04-823, RRID: AB_1977218 ), rabbit polyclonal anti-pS880-GluA2 (1:200; Millipore; Cat# 07-294, RRID: AB_568822 ), and mouse monoclonal anti-β-Actin as a loading control (1:1500; BD Biosciences; Cat# 612657, RRID: AB_399901 ) in blocking buffer.

    Article Title: Absence of chordin-like 1 aids motor recovery in a mouse model of stroke
    Article Snippet: Sections were then incubated with the corresponding primary antibodies: rabbit polyclonal anti-GluA2 (dilution 1:1000, Millipore AB1768-I, RRID: AB_2922404), rabbit polyclonal anti-GluA1 (dilution 1:400, Millipore AB1504, RRID:AB_2113602) or rabbit polyclonal anti-PSD95 (dilution 1:400, Invitrogen 51-6900) in combination with guinea pig polyclonal anti-VGlut1 (dilution 1:2000, Millipore AB5905, RRID:AB_2301751) in 5% goat serum, 100 mM lysine in PBS and left overnight at 4 °C in a humidified chamber.

    Article Title: Early developmental deletion of forebrain Ank2 causes seizure-related phenotypes by reshaping the synaptic proteome.
    Article Snippet: REAGENT or RESOURCE SOURCE IDENTIFIER Antibodies Mouse monoclonal anti-AnkB NeuroMab Cat#75–144; RRID: AB_10673094 Rabbit polyclonal anti-Kalirin MilliPORE SiGMA Cat#07–122; RRID: AB 310380 Rabbit polyclonal anti-RPS4X Proteintech Cat# 14799-1-AP; RRID: AB 2238567 Mouse monoclonal anti-Sodium Potassium ATPase Alpha 1 NOVUS BIOLOGICALS Cat# NB300-146; RRID: AB 2060981 Rabbit monoclonal anti-NF-L Abcam Cat# ab223343; RRID: AB 2891198 Rabbit monoclonal anti-GAPDH Cell Signaling Cat# 5174; RRID: AB 10622025 Rabbit polyclonal anti-Shank3 Synaptic Systems Cat#162 302; RRID: AB_2619862 Rabbit polyclonal anti-GluA1 MilliPORE SiGMA Cat#AB1504; RRID: AB_2113602 Rabbit polyclonal anti-GluA2 MilliPORE SiGMA Cat#AB10529; RRID: AB_10807819 Mouse monoclonal anti-AnkG NeuroMab Cat#75–146; RRID: AB_10673030 Goat anti-mouse 647 Thermo Fisher Scientific Cat#A-21134; RRID: AB_2535773 Bacterial and virus strains E. coli HST08 TaKaRa Cat#636766 Chemicals, peptides, and recombinant proteins Perampanel Toronto Research Chemicals Cat#P285520 Valproic acid sodium salt Millipore SiGMA Cat#P4543 Tetrodotoxin TOCRIS Cat#1078 Critical commercial assays Micro BCATM Protein Assay Kit Thermo Fisher Scientific Cat#23235 TMT10plexTM Isobaric Label Reagents and Kits Thermo Fisher Scientific Cat#90113 FD Rapid GlogiStain Kit FD NeuroTechnologies, Inc. Cat#PK401 Deposited data Raw Mass Spectrometry Data Files This paper MSV000091894 Experimental models: Organisms/strains Mouse/B6.129(Cg)-Ank2tm1.1Pmoh/MnrJ The Jackson Laboratory #031428 Mouse/B6.Cg-Tg(Camk2a-cre)T29-1Stl/J The Jackson Laboratory #005359 Mouse/B6.129S2-Emx1tm1(cre)Krj/J The Jackson Laboratory #005628 Mouse/B6.129(Cg)-Tg(NEX-cre) Goebbels et al., 2006 N/A Oligonucleotides AnkB F: GC AGTC TCA ACA CAA CTA AGC CAT CCT TTT Dr. Peter Mohler N/A AnkB R: GCT GAG GAG GTA GAC AAG AAC CTT TTT GTG Dr. Peter Mohler N/A Camk2a F: GTT CTC CGT TTG CAC TCA GG The Jackson Laboratory N/A Camk2a R: CAG GTT CTT GCG AAC CTC AT The Jackson Laboratory N/A Emx1 F: CAA CGG GGA GGA CAT TGA The Jackson Laboratory N/A Emx1 R: TCG ATA AGC CAG GGG TTC The Jackson Laboratory N/A NEX F: GAG TCC TGG AAT CAG TCT TTT TC Goebbels et al., 2006 N/A NEX R: CCG CAT AAC CAG TGA AAC AG Goebbels et al., 2006 N/A Recombinant DNA pEGFP-N2 Clontech #6801-1 Software and algorithms FIJI (ImageJ) NIH https://fiji.sc/ (Continued on next page) 12 Cell Reports 42, 112784, July 25, 2023

    Article Title: Disuse plasticity limits spinal cord injury recovery
    Article Snippet: Rabbit Polyclonal Anti-GluA1 , Millipore , Cat# AB1504; RRID: AB_2113602.

    Virus:

    Article Title: miR-329– and miR-495–mediated Prr7 down-regulation is required for homeostatic synaptic depression in rat hippocampal neurons
    Article Snippet: Secondary antibodies in Triton/NGS/PBS were applied for 1 h. The following primary antibodies were used: rabbit polyclonal anti-Prr7 (200 ng/ml, PA5-61266; Invitrogen), chicken monoclonal anti-Map2 (1:5,000 dilution, PA1-16751; Thermo Fisher Scientific), rabbit polyclonal anti-SPAR (1:1,500 dilution, kind gift of DT Pak), rabbit polyclonal anti-GluA1 (PC246 Calbiochem EMD Biosciences, or ABN241 Sigma-Aldrich at final concentrations 1 μg/ml for whole-cell staining, 2 μg/ml for surface staining), rabbit anti-Synapsin1 (AB1543, 1:1,000; Merck Millipore), and mouse anti-PSD-95 (810401, 1:200; BioLegend).

    Article Title: Huntingtin coordinates dendritic spine morphology and function through cofilin-mediated control of the actin cytoskeleton.
    Article Snippet: REAGENT or RESOURCE SOURCE IDENTIFIER Antibodies Mouse monoclonal anti-actin Sigma Cat# A5441; RRID: AB_476744 Mouse monoclonal anti-mCherry Abcam Cat# AB125096; RRID: AB_11133266 Mouse monoclonal anti-PSD95 Millipore Cat# MAB1598; RRID: AB_94278 Mouse monoclonal anti-RAC1 Millipore Cat# 05-389; RRID: AB_309712 Rabbit polyclonal anti-RAC1 Thermo Fischer Cat# PA1-091; RRID: AB_2539856 Mouse monoclonal anti-synaptophysin Sigma Cat# S5768; RRID: AB_477523 Rabbit monoclonal anti-cofilin Cell Signaling Cat# 5175; RRID: AB_10622000 Rabbit monoclonal anti-phospho-cofilin Cell Signaling Cat# 3313; RRID: AB_2080597 Rabbit polyclonal anti-GFP Institut Curie N/A Rabbit polyclonal anti-GLUA1 Millipore Cat# AB1504; RRID: AB_2113602 Rabbit monoclonal anti-HTT (D7F7) Cell Signaling Cat# 5656; RRID: AB_10827977 Mouse anti-HTT (4C8) MilliporeSi Cat# MAB2166; RRID: AB_2123255 Rabbit polyclonal anti-LIMK Cell Signaling Cat# 3842; RRID: AB_2281332 Rabbit polyclonal anti-phospho-LIMK Cell Signaling Cat# 3841; RRID: AB_2136943 Rabbit polyclonal anti-TRIO Centre de Recherche en Biologie cellulaire de Montpellier, CRBM Generated as in DeGeer et al., 2013 N/A Rabbit polyclonal anti-SRGAP2 Proteintech Cat# 22519-1-AP; RRID: AB_2879114 Chemicals B27 supplement Thermo Fisher Cat# 17504044 Bicuculline methiodide Sigma Cat# 14343 CaCl2 Sigma Cat# C5080 Calcium chloride solution Sigma Cat# 21115 EGTA Sigma Cat# 4378 Dako Fluorescent mounting medium Agilent Cat# S302380-2 D-(+)-Glucose Sigma Cat# G7528 Glutamax Thermo Fischer Cat# 35050038 Glycine hydrochloride Sigma Cat# G2879 HEPES Euromedex Cat#10-110-C KCl Sigma Cat# P9333 Lipofectamine 3000 Thermo Fischer Cat# L3000001 Magnesium sulfate solution Sigma Cat# M3409 MgATP Sigma Cat# A9187 MgSO4 Sigma Cat# M5921 NaCl Sigma Cat# S7653 NaGTP Sigma Cat# G8877 NaHCO3 Sigma Cat# S5761 NaH2PO4 Sigma Cat# S0751 Penicillin/streptomycin Thermo Fischer Cat# 15140122 PFA formaldehyde 32% Euromedex Cat# 15714-S Phosphocreatine disodium hydrate Sigma Cat# P7936 Poly L Lysine Sigma Cat# P6282 Potassium gluconate Sigma Cat# P1847 Strychnine hydrochoride Sigma Cat# S8753 (Continued on next page) e1 Cell Reports 40, 111261, August 30, 2022

    Article Title: Disuse plasticity limits spinal cord injury recovery
    Article Snippet: Compound Sakura Finetek Cat# 4583 Vectashield Mounting Medium with DAPI Vector Laboratories Cat# H-1200-10 Critical commercial assays Jo urn al Pr e-p roo f Phosphorylated Neurofilament H Human ELISA BioVendor Cat# RD191138300R Corticosterone EIA IDS Cat# AC-14F1 BCA Protein Assay Kit Pierce Cat# 23225 Deposited data Raw data This paper https://doi.org/10.3494 5/F52P4M Experimental models: Organisms/strains Sprague-Dawley Rat Charles River Laboratories RRID: MGI: 5651135 Software and algorithms Kinema Tracer System Kissei Comtec http://www.kinematrac er.com/ Odyssey Application Software Version 3.0 LI-COR Biosciences RRID: SCR_014579 NIS Elements Imaging Software Nikon Instruments RRID: SCR_014329; https://calm.ucsf.edu/h ardware-and-softwareimage-analysis ImageJ NIH RRID: SCR_003070 AutoQuant Media Cybernetics RRID: SCR_002465 MetaMorph Automation and Image Analysis Software Molecular Devices RRID: SCR_002368 Adobe Photoshop Adobe RRID: SCR_014199 SPSS Statistics version 26.0 IBM RRID: SCR_016479 Graphpad Prism Graphpad RRID: SCR_002798 Adobe Illustrator Adobe RRID: SCR_010279 Other Infinite Horizon Impactor Precision Systems and Instrumentation IH-0400; https://psiimpactors.co m/product/ih400/ Treadmill Muromachi Kikai MK-680; https://muromachi.com /en/archives/english/19 36/ Biological Amplifier Nihon Kohden NEC Biotop 6R12; https://doi.org/10.1371/ journal.pone.0171937 AD Converter Cambridge Electronic Design Limited Micro 1401; https://ced.co.uk/produ cts/microwaveformio Constant Current Stimulator Digitimer DS7A; https://www.digitimer.c om/product/humanneurophysiology/periph eral-stimulators/ds7ads7ah-hv-currentstimulator/ Jo urn al P e-p roo f Plate Reader Tecan GENios; https://www.tecan.com/ customer-news/geniosan-innovativedetection-device-thatdelivers-flexibility-tothe-molecular-biologylaboratory-2347 Infrared Imaging System LI-COR Biosciences Odyssey Infrared Imaging System; RRID: SCR_023765; https://doi.org/10.1038/ s41598-024-70096-0 Cryostat Leica Biosystems CM1950; RRID: SCR_018061; https://www.leicabiosys tems.com/us/histologyequipment/cryostats/lei ca-cm1950/ Inverted Microscope Nikon Instruments ECLIPSE Ti inverted microscope system; RRID: SCR_021242; https://calm.ucsf.edu/c su-22-spinning-diskconfocal Spinning Disk Confocal Microscope Yokogawa Electric Corporation CSU-22; RRID: SCR_020907; https://calm.ucsf.edu/c su-22-spinning-diskconfocal Jo urn al Pr e-p roo f

    Article Title: Disuse plasticity limits spinal cord injury recovery
    Article Snippet: Polyacrylamide gel electrophoresis was performed by loading 10 μg of protein per sample into an individual lane of a precast 10-20% Tris-HCl polyacrylamide gel with three independent replications according to a randomized counterbalancing fashion blindly., Protein was transferred to a nitrocellulose membrane, blocked, and probed with primary antibodies: rabbit polyclonal anti-GluA1 (1:200; Millipore, Billerica, MA; Cat# AB1504, RRID: AB_2113602 ), rabbit polyclonal anti-GluA2 (1:200; Millipore; AB1768-25UG, RRID: AB_2247874 ), rabbit monoclonal anti-pS831-GluA1 (1:200; Millipore; Cat# 04-823, RRID: AB_1977218 ), rabbit polyclonal anti-pS880-GluA2 (1:200; Millipore; Cat# 07-294, RRID: AB_568822 ), and mouse monoclonal anti-β-Actin as a loading control (1:1500; BD Biosciences; Cat# 612657, RRID: AB_399901 ) in blocking buffer.

    Article Title: Absence of chordin-like 1 aids motor recovery in a mouse model of stroke
    Article Snippet: Sections were then incubated with the corresponding primary antibodies: rabbit polyclonal anti-GluA2 (dilution 1:1000, Millipore AB1768-I, RRID: AB_2922404), rabbit polyclonal anti-GluA1 (dilution 1:400, Millipore AB1504, RRID:AB_2113602) or rabbit polyclonal anti-PSD95 (dilution 1:400, Invitrogen 51-6900) in combination with guinea pig polyclonal anti-VGlut1 (dilution 1:2000, Millipore AB5905, RRID:AB_2301751) in 5% goat serum, 100 mM lysine in PBS and left overnight at 4 °C in a humidified chamber.

    Article Title: Early developmental deletion of forebrain Ank2 causes seizure-related phenotypes by reshaping the synaptic proteome.
    Article Snippet: REAGENT or RESOURCE SOURCE IDENTIFIER Antibodies Mouse monoclonal anti-AnkB NeuroMab Cat#75–144; RRID: AB_10673094 Rabbit polyclonal anti-Kalirin MilliPORE SiGMA Cat#07–122; RRID: AB 310380 Rabbit polyclonal anti-RPS4X Proteintech Cat# 14799-1-AP; RRID: AB 2238567 Mouse monoclonal anti-Sodium Potassium ATPase Alpha 1 NOVUS BIOLOGICALS Cat# NB300-146; RRID: AB 2060981 Rabbit monoclonal anti-NF-L Abcam Cat# ab223343; RRID: AB 2891198 Rabbit monoclonal anti-GAPDH Cell Signaling Cat# 5174; RRID: AB 10622025 Rabbit polyclonal anti-Shank3 Synaptic Systems Cat#162 302; RRID: AB_2619862 Rabbit polyclonal anti-GluA1 MilliPORE SiGMA Cat#AB1504; RRID: AB_2113602 Rabbit polyclonal anti-GluA2 MilliPORE SiGMA Cat#AB10529; RRID: AB_10807819 Mouse monoclonal anti-AnkG NeuroMab Cat#75–146; RRID: AB_10673030 Goat anti-mouse 647 Thermo Fisher Scientific Cat#A-21134; RRID: AB_2535773 Bacterial and virus strains E. coli HST08 TaKaRa Cat#636766 Chemicals, peptides, and recombinant proteins Perampanel Toronto Research Chemicals Cat#P285520 Valproic acid sodium salt Millipore SiGMA Cat#P4543 Tetrodotoxin TOCRIS Cat#1078 Critical commercial assays Micro BCATM Protein Assay Kit Thermo Fisher Scientific Cat#23235 TMT10plexTM Isobaric Label Reagents and Kits Thermo Fisher Scientific Cat#90113 FD Rapid GlogiStain Kit FD NeuroTechnologies, Inc. Cat#PK401 Deposited data Raw Mass Spectrometry Data Files This paper MSV000091894 Experimental models: Organisms/strains Mouse/B6.129(Cg)-Ank2tm1.1Pmoh/MnrJ The Jackson Laboratory #031428 Mouse/B6.Cg-Tg(Camk2a-cre)T29-1Stl/J The Jackson Laboratory #005359 Mouse/B6.129S2-Emx1tm1(cre)Krj/J The Jackson Laboratory #005628 Mouse/B6.129(Cg)-Tg(NEX-cre) Goebbels et al., 2006 N/A Oligonucleotides AnkB F: GC AGTC TCA ACA CAA CTA AGC CAT CCT TTT Dr. Peter Mohler N/A AnkB R: GCT GAG GAG GTA GAC AAG AAC CTT TTT GTG Dr. Peter Mohler N/A Camk2a F: GTT CTC CGT TTG CAC TCA GG The Jackson Laboratory N/A Camk2a R: CAG GTT CTT GCG AAC CTC AT The Jackson Laboratory N/A Emx1 F: CAA CGG GGA GGA CAT TGA The Jackson Laboratory N/A Emx1 R: TCG ATA AGC CAG GGG TTC The Jackson Laboratory N/A NEX F: GAG TCC TGG AAT CAG TCT TTT TC Goebbels et al., 2006 N/A NEX R: CCG CAT AAC CAG TGA AAC AG Goebbels et al., 2006 N/A Recombinant DNA pEGFP-N2 Clontech #6801-1 Software and algorithms FIJI (ImageJ) NIH https://fiji.sc/ (Continued on next page) 12 Cell Reports 42, 112784, July 25, 2023

    Article Title: Disuse plasticity limits spinal cord injury recovery
    Article Snippet: Rabbit Polyclonal Anti-GluA1 , Millipore , Cat# AB1504; RRID: AB_2113602.

    Mass Spectrometry:

    Article Title: miR-329– and miR-495–mediated Prr7 down-regulation is required for homeostatic synaptic depression in rat hippocampal neurons
    Article Snippet: Secondary antibodies in Triton/NGS/PBS were applied for 1 h. The following primary antibodies were used: rabbit polyclonal anti-Prr7 (200 ng/ml, PA5-61266; Invitrogen), chicken monoclonal anti-Map2 (1:5,000 dilution, PA1-16751; Thermo Fisher Scientific), rabbit polyclonal anti-SPAR (1:1,500 dilution, kind gift of DT Pak), rabbit polyclonal anti-GluA1 (PC246 Calbiochem EMD Biosciences, or ABN241 Sigma-Aldrich at final concentrations 1 μg/ml for whole-cell staining, 2 μg/ml for surface staining), rabbit anti-Synapsin1 (AB1543, 1:1,000; Merck Millipore), and mouse anti-PSD-95 (810401, 1:200; BioLegend).

    Article Title: Huntingtin coordinates dendritic spine morphology and function through cofilin-mediated control of the actin cytoskeleton.
    Article Snippet: REAGENT or RESOURCE SOURCE IDENTIFIER Antibodies Mouse monoclonal anti-actin Sigma Cat# A5441; RRID: AB_476744 Mouse monoclonal anti-mCherry Abcam Cat# AB125096; RRID: AB_11133266 Mouse monoclonal anti-PSD95 Millipore Cat# MAB1598; RRID: AB_94278 Mouse monoclonal anti-RAC1 Millipore Cat# 05-389; RRID: AB_309712 Rabbit polyclonal anti-RAC1 Thermo Fischer Cat# PA1-091; RRID: AB_2539856 Mouse monoclonal anti-synaptophysin Sigma Cat# S5768; RRID: AB_477523 Rabbit monoclonal anti-cofilin Cell Signaling Cat# 5175; RRID: AB_10622000 Rabbit monoclonal anti-phospho-cofilin Cell Signaling Cat# 3313; RRID: AB_2080597 Rabbit polyclonal anti-GFP Institut Curie N/A Rabbit polyclonal anti-GLUA1 Millipore Cat# AB1504; RRID: AB_2113602 Rabbit monoclonal anti-HTT (D7F7) Cell Signaling Cat# 5656; RRID: AB_10827977 Mouse anti-HTT (4C8) MilliporeSi Cat# MAB2166; RRID: AB_2123255 Rabbit polyclonal anti-LIMK Cell Signaling Cat# 3842; RRID: AB_2281332 Rabbit polyclonal anti-phospho-LIMK Cell Signaling Cat# 3841; RRID: AB_2136943 Rabbit polyclonal anti-TRIO Centre de Recherche en Biologie cellulaire de Montpellier, CRBM Generated as in DeGeer et al., 2013 N/A Rabbit polyclonal anti-SRGAP2 Proteintech Cat# 22519-1-AP; RRID: AB_2879114 Chemicals B27 supplement Thermo Fisher Cat# 17504044 Bicuculline methiodide Sigma Cat# 14343 CaCl2 Sigma Cat# C5080 Calcium chloride solution Sigma Cat# 21115 EGTA Sigma Cat# 4378 Dako Fluorescent mounting medium Agilent Cat# S302380-2 D-(+)-Glucose Sigma Cat# G7528 Glutamax Thermo Fischer Cat# 35050038 Glycine hydrochloride Sigma Cat# G2879 HEPES Euromedex Cat#10-110-C KCl Sigma Cat# P9333 Lipofectamine 3000 Thermo Fischer Cat# L3000001 Magnesium sulfate solution Sigma Cat# M3409 MgATP Sigma Cat# A9187 MgSO4 Sigma Cat# M5921 NaCl Sigma Cat# S7653 NaGTP Sigma Cat# G8877 NaHCO3 Sigma Cat# S5761 NaH2PO4 Sigma Cat# S0751 Penicillin/streptomycin Thermo Fischer Cat# 15140122 PFA formaldehyde 32% Euromedex Cat# 15714-S Phosphocreatine disodium hydrate Sigma Cat# P7936 Poly L Lysine Sigma Cat# P6282 Potassium gluconate Sigma Cat# P1847 Strychnine hydrochoride Sigma Cat# S8753 (Continued on next page) e1 Cell Reports 40, 111261, August 30, 2022

    Article Title: Disuse plasticity limits spinal cord injury recovery
    Article Snippet: Compound Sakura Finetek Cat# 4583 Vectashield Mounting Medium with DAPI Vector Laboratories Cat# H-1200-10 Critical commercial assays Jo urn al Pr e-p roo f Phosphorylated Neurofilament H Human ELISA BioVendor Cat# RD191138300R Corticosterone EIA IDS Cat# AC-14F1 BCA Protein Assay Kit Pierce Cat# 23225 Deposited data Raw data This paper https://doi.org/10.3494 5/F52P4M Experimental models: Organisms/strains Sprague-Dawley Rat Charles River Laboratories RRID: MGI: 5651135 Software and algorithms Kinema Tracer System Kissei Comtec http://www.kinematrac er.com/ Odyssey Application Software Version 3.0 LI-COR Biosciences RRID: SCR_014579 NIS Elements Imaging Software Nikon Instruments RRID: SCR_014329; https://calm.ucsf.edu/h ardware-and-softwareimage-analysis ImageJ NIH RRID: SCR_003070 AutoQuant Media Cybernetics RRID: SCR_002465 MetaMorph Automation and Image Analysis Software Molecular Devices RRID: SCR_002368 Adobe Photoshop Adobe RRID: SCR_014199 SPSS Statistics version 26.0 IBM RRID: SCR_016479 Graphpad Prism Graphpad RRID: SCR_002798 Adobe Illustrator Adobe RRID: SCR_010279 Other Infinite Horizon Impactor Precision Systems and Instrumentation IH-0400; https://psiimpactors.co m/product/ih400/ Treadmill Muromachi Kikai MK-680; https://muromachi.com /en/archives/english/19 36/ Biological Amplifier Nihon Kohden NEC Biotop 6R12; https://doi.org/10.1371/ journal.pone.0171937 AD Converter Cambridge Electronic Design Limited Micro 1401; https://ced.co.uk/produ cts/microwaveformio Constant Current Stimulator Digitimer DS7A; https://www.digitimer.c om/product/humanneurophysiology/periph eral-stimulators/ds7ads7ah-hv-currentstimulator/ Jo urn al P e-p roo f Plate Reader Tecan GENios; https://www.tecan.com/ customer-news/geniosan-innovativedetection-device-thatdelivers-flexibility-tothe-molecular-biologylaboratory-2347 Infrared Imaging System LI-COR Biosciences Odyssey Infrared Imaging System; RRID: SCR_023765; https://doi.org/10.1038/ s41598-024-70096-0 Cryostat Leica Biosystems CM1950; RRID: SCR_018061; https://www.leicabiosys tems.com/us/histologyequipment/cryostats/lei ca-cm1950/ Inverted Microscope Nikon Instruments ECLIPSE Ti inverted microscope system; RRID: SCR_021242; https://calm.ucsf.edu/c su-22-spinning-diskconfocal Spinning Disk Confocal Microscope Yokogawa Electric Corporation CSU-22; RRID: SCR_020907; https://calm.ucsf.edu/c su-22-spinning-diskconfocal Jo urn al Pr e-p roo f

    Article Title: Disuse plasticity limits spinal cord injury recovery
    Article Snippet: Polyacrylamide gel electrophoresis was performed by loading 10 μg of protein per sample into an individual lane of a precast 10-20% Tris-HCl polyacrylamide gel with three independent replications according to a randomized counterbalancing fashion blindly., Protein was transferred to a nitrocellulose membrane, blocked, and probed with primary antibodies: rabbit polyclonal anti-GluA1 (1:200; Millipore, Billerica, MA; Cat# AB1504, RRID: AB_2113602 ), rabbit polyclonal anti-GluA2 (1:200; Millipore; AB1768-25UG, RRID: AB_2247874 ), rabbit monoclonal anti-pS831-GluA1 (1:200; Millipore; Cat# 04-823, RRID: AB_1977218 ), rabbit polyclonal anti-pS880-GluA2 (1:200; Millipore; Cat# 07-294, RRID: AB_568822 ), and mouse monoclonal anti-β-Actin as a loading control (1:1500; BD Biosciences; Cat# 612657, RRID: AB_399901 ) in blocking buffer.

    Article Title: Absence of chordin-like 1 aids motor recovery in a mouse model of stroke
    Article Snippet: Sections were then incubated with the corresponding primary antibodies: rabbit polyclonal anti-GluA2 (dilution 1:1000, Millipore AB1768-I, RRID: AB_2922404), rabbit polyclonal anti-GluA1 (dilution 1:400, Millipore AB1504, RRID:AB_2113602) or rabbit polyclonal anti-PSD95 (dilution 1:400, Invitrogen 51-6900) in combination with guinea pig polyclonal anti-VGlut1 (dilution 1:2000, Millipore AB5905, RRID:AB_2301751) in 5% goat serum, 100 mM lysine in PBS and left overnight at 4 °C in a humidified chamber.

    Article Title: Early developmental deletion of forebrain Ank2 causes seizure-related phenotypes by reshaping the synaptic proteome.
    Article Snippet: REAGENT or RESOURCE SOURCE IDENTIFIER Antibodies Mouse monoclonal anti-AnkB NeuroMab Cat#75–144; RRID: AB_10673094 Rabbit polyclonal anti-Kalirin MilliPORE SiGMA Cat#07–122; RRID: AB 310380 Rabbit polyclonal anti-RPS4X Proteintech Cat# 14799-1-AP; RRID: AB 2238567 Mouse monoclonal anti-Sodium Potassium ATPase Alpha 1 NOVUS BIOLOGICALS Cat# NB300-146; RRID: AB 2060981 Rabbit monoclonal anti-NF-L Abcam Cat# ab223343; RRID: AB 2891198 Rabbit monoclonal anti-GAPDH Cell Signaling Cat# 5174; RRID: AB 10622025 Rabbit polyclonal anti-Shank3 Synaptic Systems Cat#162 302; RRID: AB_2619862 Rabbit polyclonal anti-GluA1 MilliPORE SiGMA Cat#AB1504; RRID: AB_2113602 Rabbit polyclonal anti-GluA2 MilliPORE SiGMA Cat#AB10529; RRID: AB_10807819 Mouse monoclonal anti-AnkG NeuroMab Cat#75–146; RRID: AB_10673030 Goat anti-mouse 647 Thermo Fisher Scientific Cat#A-21134; RRID: AB_2535773 Bacterial and virus strains E. coli HST08 TaKaRa Cat#636766 Chemicals, peptides, and recombinant proteins Perampanel Toronto Research Chemicals Cat#P285520 Valproic acid sodium salt Millipore SiGMA Cat#P4543 Tetrodotoxin TOCRIS Cat#1078 Critical commercial assays Micro BCATM Protein Assay Kit Thermo Fisher Scientific Cat#23235 TMT10plexTM Isobaric Label Reagents and Kits Thermo Fisher Scientific Cat#90113 FD Rapid GlogiStain Kit FD NeuroTechnologies, Inc. Cat#PK401 Deposited data Raw Mass Spectrometry Data Files This paper MSV000091894 Experimental models: Organisms/strains Mouse/B6.129(Cg)-Ank2tm1.1Pmoh/MnrJ The Jackson Laboratory #031428 Mouse/B6.Cg-Tg(Camk2a-cre)T29-1Stl/J The Jackson Laboratory #005359 Mouse/B6.129S2-Emx1tm1(cre)Krj/J The Jackson Laboratory #005628 Mouse/B6.129(Cg)-Tg(NEX-cre) Goebbels et al., 2006 N/A Oligonucleotides AnkB F: GC AGTC TCA ACA CAA CTA AGC CAT CCT TTT Dr. Peter Mohler N/A AnkB R: GCT GAG GAG GTA GAC AAG AAC CTT TTT GTG Dr. Peter Mohler N/A Camk2a F: GTT CTC CGT TTG CAC TCA GG The Jackson Laboratory N/A Camk2a R: CAG GTT CTT GCG AAC CTC AT The Jackson Laboratory N/A Emx1 F: CAA CGG GGA GGA CAT TGA The Jackson Laboratory N/A Emx1 R: TCG ATA AGC CAG GGG TTC The Jackson Laboratory N/A NEX F: GAG TCC TGG AAT CAG TCT TTT TC Goebbels et al., 2006 N/A NEX R: CCG CAT AAC CAG TGA AAC AG Goebbels et al., 2006 N/A Recombinant DNA pEGFP-N2 Clontech #6801-1 Software and algorithms FIJI (ImageJ) NIH https://fiji.sc/ (Continued on next page) 12 Cell Reports 42, 112784, July 25, 2023

    Article Title: Disuse plasticity limits spinal cord injury recovery
    Article Snippet: Rabbit Polyclonal Anti-GluA1 , Millipore , Cat# AB1504; RRID: AB_2113602.



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    (A–D) GLUA2 protein level is decreased at intracortical synapses in Gpc5 cKO mice at P28. (A) Immunostaining of intracortical presynaptic VGLUT1 and postsynaptic GLUA2 in L2/3. (B–D) Numbers of VGLUT1 (B), GLUA2 (C), and colocalized (D) puncta. N = 5 mice/condition. (E–H) GLUA1 protein level is unchanged at intracortical synapses in Gpc5 cKO mice at P28. (E) Immunostaining of presynaptic VGLUT1 and postsynaptic GLUA1 in L2/3. (F–H) Numbers of VGLUT1 (F), GLUA1 (G), and colocalized (H) puncta. N = 6 mice/condition. (I–P) Thalamocortical synapses have unaltered AMPAR levels in Gpc5 cKO mice at P28. (I) Immunostaining of thalamocortical presynaptic VGLUT2 and postsynaptic GLUA2 in L4. (J–L) Numbers of VGLUT2 (J), GLUA2 (K), and colocalized (L) puncta. N = 5 mice/condition. (M) Immunostaining of thalamocortical presynaptic VGLUT2 and postsynaptic GLUA1 in L4. (N–P) Numbers of VGLUT2 (N), GLUA1 (O), and colocalized (P) puncta. N = 5 mice/condition. (Q–S) VGLUT2 puncta volume is decreased in P28 Gpc5 cKO mice. (Q) Immunostaining of VGLUT2 puncta in L1 VC. (R and S) VGLUT2 puncta volume in L1 and L4. N = 6 mice/condition L1, N = 5 mice/condition L4. (T) Summary of synaptic changes in Gpc5 cKO mice at P28. Scale bars: 5 μm (A, E, I, M, and Q, main) and 1 μm (A, E, I, and M, magnified). Graphs: mean ± SEM. Individual data points represent mice. Statistics: t test. See also .

    Journal: Cell reports

    Article Title: Astrocyte glypican 5 regulates synapse maturation and stabilization

    doi: 10.1016/j.celrep.2025.115374

    Figure Lengend Snippet: (A–D) GLUA2 protein level is decreased at intracortical synapses in Gpc5 cKO mice at P28. (A) Immunostaining of intracortical presynaptic VGLUT1 and postsynaptic GLUA2 in L2/3. (B–D) Numbers of VGLUT1 (B), GLUA2 (C), and colocalized (D) puncta. N = 5 mice/condition. (E–H) GLUA1 protein level is unchanged at intracortical synapses in Gpc5 cKO mice at P28. (E) Immunostaining of presynaptic VGLUT1 and postsynaptic GLUA1 in L2/3. (F–H) Numbers of VGLUT1 (F), GLUA1 (G), and colocalized (H) puncta. N = 6 mice/condition. (I–P) Thalamocortical synapses have unaltered AMPAR levels in Gpc5 cKO mice at P28. (I) Immunostaining of thalamocortical presynaptic VGLUT2 and postsynaptic GLUA2 in L4. (J–L) Numbers of VGLUT2 (J), GLUA2 (K), and colocalized (L) puncta. N = 5 mice/condition. (M) Immunostaining of thalamocortical presynaptic VGLUT2 and postsynaptic GLUA1 in L4. (N–P) Numbers of VGLUT2 (N), GLUA1 (O), and colocalized (P) puncta. N = 5 mice/condition. (Q–S) VGLUT2 puncta volume is decreased in P28 Gpc5 cKO mice. (Q) Immunostaining of VGLUT2 puncta in L1 VC. (R and S) VGLUT2 puncta volume in L1 and L4. N = 6 mice/condition L1, N = 5 mice/condition L4. (T) Summary of synaptic changes in Gpc5 cKO mice at P28. Scale bars: 5 μm (A, E, I, M, and Q, main) and 1 μm (A, E, I, and M, magnified). Graphs: mean ± SEM. Individual data points represent mice. Statistics: t test. See also .

    Article Snippet: Rabbit polyclonal anti GluA1 , Millipore , CAT# AB1504; RRID:AB_2113602.

    Techniques: Immunostaining

    KEY RESOURCES TABLE

    Journal: Cell reports

    Article Title: Astrocyte glypican 5 regulates synapse maturation and stabilization

    doi: 10.1016/j.celrep.2025.115374

    Figure Lengend Snippet: KEY RESOURCES TABLE

    Article Snippet: Rabbit polyclonal anti GluA1 , Millipore , CAT# AB1504; RRID:AB_2113602.

    Techniques: Recombinant, Modification, Saline, RNAscope, Multiplex Assay, Electron Microscopy, Negative Control, Software, Cell Culture, Fluorescence, Microscopy, Hybridization

    Journal: iScience

    Article Title: Disuse plasticity limits spinal cord injury recovery

    doi: 10.1016/j.isci.2025.112180

    Figure Lengend Snippet:

    Article Snippet: Polyacrylamide gel electrophoresis was performed by loading 10 μg of protein per sample into an individual lane of a precast 10-20% Tris-HCl polyacrylamide gel with three independent replications according to a randomized counterbalancing fashion blindly., Protein was transferred to a nitrocellulose membrane, blocked, and probed with primary antibodies: rabbit polyclonal anti-GluA1 (1:200; Millipore, Billerica, MA; Cat# AB1504, RRID: AB_2113602 ), rabbit polyclonal anti-GluA2 (1:200; Millipore; AB1768-25UG, RRID: AB_2247874 ), rabbit monoclonal anti-pS831-GluA1 (1:200; Millipore; Cat# 04-823, RRID: AB_1977218 ), rabbit polyclonal anti-pS880-GluA2 (1:200; Millipore; Cat# 07-294, RRID: AB_568822 ), and mouse monoclonal anti-β-Actin as a loading control (1:1500; BD Biosciences; Cat# 612657, RRID: AB_399901 ) in blocking buffer.

    Techniques: Recombinant, Protease Inhibitor, Blocking Assay, Plasmid Preparation, Enzyme-linked Immunosorbent Assay, Bicinchoninic Acid Protein Assay, Software, Imaging, Inverted Microscopy, Microscopy