Virus:Article Title: A circuit from the locus coeruleus to the anterior cingulate cortex modulates offspring interactions in mice.
Article Snippet: .. REAGENT or RESOURCE SOURCE IDENTIFIER Antibodies Chicken anti-TH Abcam Cat #76442; RRID: AB_1524535 Rabbit anti-GFP Invitrogen Cat# A6455; RRID: AB_221570 Goat anti-chicken Alexa Fluor 594 Invitrogen Cat# A11042; RRID: AB_2534099 Goat anti-chicken Alexa Fluor 488 Invitrogen Cat# A11039; RRID: AB_2534096 Goat anti-rabbit Alexa Fluor 488 Invitrogen Cat# A11008; RRID: AB_143165 Bacterial and virus strains pGP-AAV-syn-FLEX-jGCaMP7s-WPRE (AAV9) (Dana et al.)61 Addgene_104491 pAAV-CaMKIIa-EGFP (AAV8) Bryan Roth Addgene_50469 pAAV-CaMKIIa-hM4D(Gi)-mCherry (AAV8) Bryan Roth Addgene_50477 AAV.CamKII.GCaMP6s.WPRE.SV40 (AAV9) James M. Wilson Addgene_107790 pAAV-CAG-tdTomato Edward Boyden Addgene_59462 pENN.AAV.hSyn.Cre.WPRE.hGH James M. Wilson Addgene_105553 pAAV.synP.DIO.EGFP.WPRE.hGH (AAV9) Ian Wickersham Addgene_100043 pAAV-hSyn-DIO-hM4D(Gi)-mCherry (AAV5) (Krashes et al.)62 Addgene_44362 AAV9-hSyn-NE2h (Feng at al)55 Vigene Biosciences_YL10074-AAV9 Chemicals, peptides, and recombinant proteins DirectPCR Viagen Cat# 402-E RRID: N/A Proteinase K Invitrogen Cat# AM2548 RRID: N/A Euthasol Virbac Cat# 200-071 RRID: N/A 4% paraformaldehyde FD Neurotechnologies Cat# PF101 RRID: N/A OCT compound Sakura Cat# 4583 RRID: N/A Normal goat serum Vector Laboratories Cat# S-1000-20 RRID: N/A Triton X-100 Sigma Cat# T8787 RRID: N/A Meloxicam Metacam Cat# NDC 0010-6013-01 RRID: N/A Ketamine Ketaset Cat# NDC 54771-2013 RRID: N/A Xylazine AnaSed Cat# NDC 59399-110-20 RRID: N/A Vectashield Vector Laboratories Cat# H-1200-10 RRID: N/A Vetbond Amazon Cat# B079QJXK46 RRID: N/A Isofluorine Covetrus Cat# 029405 RRID: N/A Clozapine dihydrochloride (water soluble) Hello Bio Cat # HB6129 RRID: N/A (Continued on next page) 16 Cell Reports 42, 112771, July 25, 2023 ..
Article Title: Prefrontal pyramidal neurons are critical for all phases of working memory.
Article Snippet: .. REAGENT or RESOURCE SOURCE IDENTIFIER Antibodies Anti-GFP (rabbit) Thermo Fisher Scientific Cat# A-11122; RRID: AB_221569 Anti-rabbit-Alexa Fluor 488 (goat) Thermo Fisher Scientific Cat# A-11008; RRID: AB_143165 Bacterial and virus strains rAAV5/CaMKII-ArchT-GFP UNC Vector Core Lot #AV4606b rAAV5/CaMKII-eGFP UNC Vector Core Lot #AV4587b rAAV1/CaMKII-GCaMP6f UPENN Vector core Penn ID AV-1-PV3435; Addgene ID 100834-AAV1 Chemicals, peptides, and recombinant proteins DAPI Thermo Fisher Scientific Cat# D1306; RRID: AB_2629482 Experimental models: Organisms/strains Mouse: C57BL/6N Charles River Laboratories N/A Software and algorithms MATLAB MathWorks https://de.mathworks.com/ CNMF-E Zhou et al. (2018) https://github.com/zhoupc/CNMF_E NoRMCorre Pnevmatikakis and Giovannucci (2017) https://github.com/flatironinstitute/NoRMCorre MiniscopeAnalysis Guillaume Etter (Sylvain Williams Lab, McGill University) https://github.com/etterguillaume/ MiniscopeAnalysis Cheetah acquisition software Neuralynx https://neuralynx.com/software/cheetah SpikeSort 3D Neuralynx https://neuralynx.com/software/spikesort-3d Miniscope Imaging Software miniscope.org MINISCOPE USB_Control v 1 2.3 Original code This publication https://doi.org/10.5281/zenodo.6091062 Other Miniscope v.3.2 Cai et al. (2016) miniscope.org Automated T-maze this paper N/A Optic fiber Thorlabs #CFML22L10 Dual fiber-optic cannula Doric Lenses #DFC_200/240-0.22_10mm_DF0.7_FLT GRIN lens GoFoton #CLHS050W002055NN; 0.5 mm diameter, 4 mm long GRIN lens Inscopix #002181; 0.5 mm diameter, 4 mm long ..
Article Title: Innate frequency-discrimination hyperacuity in Williams-Beuren syndrome mice.
Article Snippet: .. REAGENT or RESOURCE SOURCE IDENTIFIER Antibodies Anti-VIPR1 ThermoFisher Cat#: PA3-113; RRID: AB_2273050 Anti–b-actin Sigma Aldrich Cat#: A5316; RRID: AB_476743 Anti-rabbit (western) Santa Cruz Biotechnology Cat#:SC-2054; RRID: AB_631748 Anti-mouse Santa Cruz Biotechnology Cat#: SC-2005; RRID: AB_631736 Anti-parvalbumin Swant Cat#: PV235; RRID: AB_10000343 Anti-GFP Abcam Cat#: ab13970; RRID: AB_300798 Anti-GABA Sigma Aldrich Cat#: A2052; RRID: AB_477652 Alexa fluor 568 goat anti-mouse ThermoFisher Cat#: A11004; RRID: AB_2534072 Alexa fluor 488 goat anti-chicken ThermoFisher Cat#: A11039; RRID: AB_2534096 Alexa fluor 488 goat anti-rabbit ThermoFisher Cat#: A11008; RRID: AB_143165 Bacterial and virus strains pAAV-hDLX-Vipr1-T2A-eGFP This paper NA pAAV-hDLX-Vipr1-T2A-tdTomato This paper NA rAAV-hSyn-DIO-hM4Di-IRES-mCitrine Addgene Plasmid#: 50455; RRID: Addgene_50455 AAV-CAG-Flex-Vipr1-GFP This paper NA AAV-CAG-Flex-GFP This paper NA Biological samples Human superior temporal lobe samples NIH NeuroBioBank NA Chemicals, peptides, and recombinant proteins PG-97-269 Bachem Cat#: 4048647 Critical commercial assays mirVana RNA isolation kit ThermoFisher Cat#: AM1561 TruSeq Stranded Total RNA Library Prep Illumina Cat#: 20020599 Aurum Total RNA Mini kit Bio-Rad Cat#: 7326820 Deposited data RNA-seq (mouse cortical interneurons) NCBI GEO Accession #: GSE195491 RNA-seq (hIPSC organoids) NCBI GEO Accession #: GSE195505 Experimental models: Cell lines NSUN5–GTF2IRD2+/– hIPSC This paper NA Experimental models: Organisms/strains Gtf2ird1 mice Young et al. (2008) NA CD+/– mice Segura-Puimedon et al. (2014) NA PD+/– mice Jackson Laboratory Strain#: 023885; RRID:IMSR_JAX:023885 DD+/– mice Jackson Laboratory Strain#: 023888; RRID:IMSR_JAX:023888 Gtf2i mice MMRC Stock#: 034666-UCD; RRID: MMRRC_034666-UCD Vipr1 cKO mice This paper NA Vipr1-OE mice This paper NA Gad2Cre Jackson Laboratory Strain#: 019022; RRID: IMSR_JAX: 019022 PVCre Jackson Laboratory Strain#: 017320; RRID: IMSR_JAX: 017320 Ai14 Jackson Laboratory Strain#: 007914; RRID: IMSR_JAX: 007914 Ai93 Jackson Laboratory Strain#: 024107; RRID: IMSR_JAX: 024107 (Continued on next page) e1 Cell 185, 3877–3895.e1–e11, October 13, 2022 .. REAGENT or RESOURCE SOURCE IDENTIFIER CaMKIIattA Jackson Laboratory Strain#: 24108; RRID: IMSR_JAX: 24108 Scnn1aCre Jackson Laboratory Strain#: 009613; RRID: IMSR_JAX:009613 Oligonucleotides See tables in methods.
Article Title: Single-cut gene therapy in a one-step generated rhesus monkey model of Duchenne muscular dystrophy
Article Snippet: .. REAGENT or RESOURCE SOURCE IDENTIFIER Antibodies Anti-Dystrophin antibody Abcam Cat#ab15277;RRID:AB_301813 Anti-Laminin antibody Abcam Cat#ab11575; RRID:AB_298179 Vinculin (E1E9V) XP Rabbit mAb Cell Signaling Technology Cat#13901; RRID: AB_2728768 Anti-rabbit IgG HRP-linked Antibody Cell Signaling Technology Cat#7074S; RRID: AB_2099233 Goat anti-Rabbit IgG (H + L) Cross-Adsorbed Secondary Antibody, Alexa FluorTM 488 Invitrogen Cat# A-11008; RRID: AB_143165 Bacterial and virus strains Trelief 5a Chemically Competent Cell Tsingke Biotechnology Cat#TSC-C01 Recombinant adeno-associated virus PackGene N/A Chemicals, peptides, and recombinant proteins pX601-AAV-CMV-saCas9-U6-sgRNA vector Addgene Cat#61591; RRID:Addgene_61591 pX458-spCas9(BB)-2A-EGFP Addgene Cat#48138; RRID:Addgene_48138 pT7-Cas9 vector Biomics Biotech N/A Cas12iMax See Methods N/A NEBuffer 2 New England Biolabs Cat#B7002S BbsI New England Biolabs Cat#R0539S Xba1 New England Biolabs Cat#R0145S AgeI-HF New England Biolabs Cat#R3552S BamHI-HF New England Biolabs Cat#R3136S T7E1 New England Biolabs Cat#M0302L Fetal Bovine Serum Gibco Cat#10270-106 DMEM Gibco Cat#C11995500BT Pen-Strep Solution Gibco Cat#15140-122 RNaseZAP cleaning agent for removing Sigma Cat#R2020 Blue Plus IV Protein Marker (10–180 kDa) TransGen Biotech Cat#DM131-02 SpectraTM Multicolor High Range Protein Ladder Thermo ScientificTM Cat#26625 Protease inhibitor Cocktail GLPBIO Cat#GK1004 TRIzol Reagent Life technologies Cat#15596018 PrimeSTAR GXL DNA Polymerase Takara Cat#R0505B RIPA Lysis Buffer Beyotime Cat#P0013B Tween 20 Beyotime Cat#ST1726 Gum tragacanth Solarbio Cat#G9390 Isopentane Aladdin Cat#M108171-500mL Triton X-100 Sigma Cat#T9284-500mL Mounting Medium with DAPI Abcam Cat#Ab104139 Recombinant human follicle-stimulating hormone (rhFSH) Merck Serono SA KM03000347S Recombinant human chorionic gonadotropin (rhCG) Merck Serono SA 21081632460 Sodium chloride Sigma Cat#S5886 Potassium chloride Sigma Cat#P5405 Calcium chloride dehydrate Sigma Cat#C7902 Magnesium chloride Sigma Cat#M4880 Sodium phosphate monobasic Sigma Cat#S5011 (Continued on next page) Cell Reports Medicine 6, 102037, April 15, 2025 e1 .. REAGENT or RESOURCE SOURCE IDENTIFIER Sodium bicarbonate Sigma Cat#S4019 D-(+)-Glucose Sigma Cat#C7021 Phenol Red Sigma Cat#P3532 Sodium DL-lactate solution suitable for mouse embryo cell culture, 60% Sigma Cat#L7900 HEPES sodium salt Sigma Cat#H3784 HEPES acid Sigma Cat#H3375 Penicillin-Streptomycin BI Cat#03-031-1B Albumin, from bovine serum Sigma Cat#A8022 Sodium pyruvate Sigma Cat#P4562 L-GLUTAMINE Sigma Cat#G8540 Polyvinyl alcohol Sigma Cat#P8136 Distilled Water Gibco Cat#15230-204 CMRL Medium 1066(1X) [-]L-Glutamine Gibco Cat#11530-037 L-Asparagine Sigma Cat#A4159 L-Aspartic Acid Sigma Cat#A9256 L-Cysteine hydrochloride monohydrate Sigma Cat#C6852 Glycine Sigma Cat#G8790 L-Glutamic acid monosodium salt hydrate Sigma Cat#G5889 Glutamine Sigma Cat#G8540 L-Histidine monohydrochloride monohydrate Sigma Cat#H5659 L-Lysine monohydrochloride Sigma Cat#L8668 L-Serine Sigma Cat#S4311 L-Proline Sigma Cat#P5607 Taurine Sigma Cat#T8691 D-Pantothenic acid hemicalcium salt Sigma Cat#P5155 Critical commercial assays mMESSAGE mMACHINE T7 Ultra Kit Invitrogen Cat#AM1345 GeneArtTM Precision gRNA Synthesis Kit Invitrogen Cat#A29377 LipofectamineTM 3000 Transfection Reagent Invitrogen Cat#L3000008 Guide-it sgRNA Screening Kit Takara Cat#632639 PrimeScriptTM RT reagent Kit with gDNA Eraser Synthesis Kit Takara Cat#RR047Q TOPO TA/Blunt-Zero Vector Vazyme Cat#R050B Discover-sc single cell Kit Vazyme Cat#N601 ClonExpress II One Step Cloning Kit Vazyme Cat#C112-01 TGX Stain-Free FastCast Acrylamide Kit,10% BIO-RAD Cat#161-0183 Easy II Protein Quantitative Kit (BCA) TransGen Biotech Cat#DQ111-01 Wizard Genomic DNA Purification Kit Promega Cat#A1126 Endo-free Plasmid Mini Kit Omega Cat#D6950-02 EasyPure Quick Gel Extraction Kit TransGen Biotech Cat#EG101-02 EasyPure PCR Purification Kit TransGen Biotech Cat#EP101-01 Modified Sirius Red Stain Kit Solarbio Cat#G1472 Deposited data Whole Genome Sequencing and amplicon sequencing NCBI sequence read archive PRJNA1025912 Experimental models: Cell lines African Green Monkey Kidney Cell (COS-7) ATCC Cat#CRL-1651 HEK293T ATCC Cat#CRL-3519 Hela ATCC Cat#CRM-CCL-2 (Continued on next page) e2 Cell Reports Medicine 6, 102037, April 15, 2025 Article ll OPEN ACCESS
Article Title: Astrocyte Kir4.1 expression level territorially controls excitatory transmission in the brain.
Article Snippet: .. REAGENT or RESOURCE SOURCE IDENTIFIER Antibodies Rabbit anti-Kir4.1 Proteintech Cat#12503-1-AP; RRID:AB_2234144 Goat anti-Rabbit IgG (H + L) CrossAdsorbed Secondary Antibody, Alexa FluorTM 488 Thermofisher Cat# A-11008; RRID: AB_143165 Bacterial and virus strains AAV9.pZac2.1-gfaABC1Dpromoter> tdTomato:rKcnj10 Vector Builder Cat# VB171121-1235ysj AAV9.pZac2.1-gfaABC1Dpromoter> tdTomato Vector Builder Cat#VB210711-1154wtd AAV9.hSynap.iGluSnFR.WPRE.SV40 Penn Vector Core Cat#Addgene 98929-AAV9 Biological samples C57BL/6 Mice Charles River Laboratories RRID: MGI:2159769 Chemicals, peptides, and recombinant proteins K+ sensor GINKO2 Prof. RE Cambell https://doi.org/10.1371/ journal.pbio.3001772 pBAD-GINKO2, Addgene Cat#177116 Critical commercial assays Oregon GreenTM 488 BAPTA-1, Hexapotassium Salt ThermoFisher Cat#O6806 Cal-590TM, potassium salt Stratech Cat#20518 Oregon GreenTM 488 BAPTA-1, AM ThermoFisher Cat#O6807 Deposited data K+ dynamics simulation model In-house, GitHub depository https://github.com/RusakovLab/ CellReport Experimental models: Organisms/strains C57BL/6 Mice Charles River Laboratories RRID: MGI:2159769 Software and algorithms MES v4.x-v.6.3 Femontics Ltd. RRID:SCR_018309 MESc 3.5.7 Femontics Ltd. https://femtonics.eu/femtosmart-software/ Axon PClamp Molecular Devices RRID:SCR_011323 Fluorescent Imaging Analysis Software (FIMAS) https://github.com/zhengkaiyu/FIMAS RRID:SCR_018311 Spike2 Cambridge Electronic Design RRID:SCR_000903 OriginPro OriginLab Inc. RRID:SCR_014212 ImageJ ImageJ RRID:SCR_003070 Simulation platform BRAINCELL In-house www.neuroalgebra.net Simulation platform ASTRO In-house https://modeldb.science/243508. .. Other Multiclamp 700B Molecular Devices RRID:SCR_018455 Digidata 1550 Molecular Devices Digidata 1550 Femto2D Multiphoton scanning microscope Femontics Ltd. Femto2D Femtosmart microscope Femontics Ltd. Femto2D Leica VT1200S vibrating microtome Leica BioSystems RRID:SCR_020243 Mobile HomeCage Neurotar Cat#NRT000251-06 Cell Reports 44, 115299, February 25, 2025 17
Bioprocessing:Article Title: A circuit from the locus coeruleus to the anterior cingulate cortex modulates offspring interactions in mice.
Article Snippet: .. REAGENT or RESOURCE SOURCE IDENTIFIER Antibodies Chicken anti-TH Abcam Cat #76442; RRID: AB_1524535 Rabbit anti-GFP Invitrogen Cat# A6455; RRID: AB_221570 Goat anti-chicken Alexa Fluor 594 Invitrogen Cat# A11042; RRID: AB_2534099 Goat anti-chicken Alexa Fluor 488 Invitrogen Cat# A11039; RRID: AB_2534096 Goat anti-rabbit Alexa Fluor 488 Invitrogen Cat# A11008; RRID: AB_143165 Bacterial and virus strains pGP-AAV-syn-FLEX-jGCaMP7s-WPRE (AAV9) (Dana et al.)61 Addgene_104491 pAAV-CaMKIIa-EGFP (AAV8) Bryan Roth Addgene_50469 pAAV-CaMKIIa-hM4D(Gi)-mCherry (AAV8) Bryan Roth Addgene_50477 AAV.CamKII.GCaMP6s.WPRE.SV40 (AAV9) James M. Wilson Addgene_107790 pAAV-CAG-tdTomato Edward Boyden Addgene_59462 pENN.AAV.hSyn.Cre.WPRE.hGH James M. Wilson Addgene_105553 pAAV.synP.DIO.EGFP.WPRE.hGH (AAV9) Ian Wickersham Addgene_100043 pAAV-hSyn-DIO-hM4D(Gi)-mCherry (AAV5) (Krashes et al.)62 Addgene_44362 AAV9-hSyn-NE2h (Feng at al)55 Vigene Biosciences_YL10074-AAV9 Chemicals, peptides, and recombinant proteins DirectPCR Viagen Cat# 402-E RRID: N/A Proteinase K Invitrogen Cat# AM2548 RRID: N/A Euthasol Virbac Cat# 200-071 RRID: N/A 4% paraformaldehyde FD Neurotechnologies Cat# PF101 RRID: N/A OCT compound Sakura Cat# 4583 RRID: N/A Normal goat serum Vector Laboratories Cat# S-1000-20 RRID: N/A Triton X-100 Sigma Cat# T8787 RRID: N/A Meloxicam Metacam Cat# NDC 0010-6013-01 RRID: N/A Ketamine Ketaset Cat# NDC 54771-2013 RRID: N/A Xylazine AnaSed Cat# NDC 59399-110-20 RRID: N/A Vectashield Vector Laboratories Cat# H-1200-10 RRID: N/A Vetbond Amazon Cat# B079QJXK46 RRID: N/A Isofluorine Covetrus Cat# 029405 RRID: N/A Clozapine dihydrochloride (water soluble) Hello Bio Cat # HB6129 RRID: N/A (Continued on next page) 16 Cell Reports 42, 112771, July 25, 2023 ..
Article Title: Innate frequency-discrimination hyperacuity in Williams-Beuren syndrome mice.
Article Snippet: .. REAGENT or RESOURCE SOURCE IDENTIFIER Antibodies Anti-VIPR1 ThermoFisher Cat#: PA3-113; RRID: AB_2273050 Anti–b-actin Sigma Aldrich Cat#: A5316; RRID: AB_476743 Anti-rabbit (western) Santa Cruz Biotechnology Cat#:SC-2054; RRID: AB_631748 Anti-mouse Santa Cruz Biotechnology Cat#: SC-2005; RRID: AB_631736 Anti-parvalbumin Swant Cat#: PV235; RRID: AB_10000343 Anti-GFP Abcam Cat#: ab13970; RRID: AB_300798 Anti-GABA Sigma Aldrich Cat#: A2052; RRID: AB_477652 Alexa fluor 568 goat anti-mouse ThermoFisher Cat#: A11004; RRID: AB_2534072 Alexa fluor 488 goat anti-chicken ThermoFisher Cat#: A11039; RRID: AB_2534096 Alexa fluor 488 goat anti-rabbit ThermoFisher Cat#: A11008; RRID: AB_143165 Bacterial and virus strains pAAV-hDLX-Vipr1-T2A-eGFP This paper NA pAAV-hDLX-Vipr1-T2A-tdTomato This paper NA rAAV-hSyn-DIO-hM4Di-IRES-mCitrine Addgene Plasmid#: 50455; RRID: Addgene_50455 AAV-CAG-Flex-Vipr1-GFP This paper NA AAV-CAG-Flex-GFP This paper NA Biological samples Human superior temporal lobe samples NIH NeuroBioBank NA Chemicals, peptides, and recombinant proteins PG-97-269 Bachem Cat#: 4048647 Critical commercial assays mirVana RNA isolation kit ThermoFisher Cat#: AM1561 TruSeq Stranded Total RNA Library Prep Illumina Cat#: 20020599 Aurum Total RNA Mini kit Bio-Rad Cat#: 7326820 Deposited data RNA-seq (mouse cortical interneurons) NCBI GEO Accession #: GSE195491 RNA-seq (hIPSC organoids) NCBI GEO Accession #: GSE195505 Experimental models: Cell lines NSUN5–GTF2IRD2+/– hIPSC This paper NA Experimental models: Organisms/strains Gtf2ird1 mice Young et al. (2008) NA CD+/– mice Segura-Puimedon et al. (2014) NA PD+/– mice Jackson Laboratory Strain#: 023885; RRID:IMSR_JAX:023885 DD+/– mice Jackson Laboratory Strain#: 023888; RRID:IMSR_JAX:023888 Gtf2i mice MMRC Stock#: 034666-UCD; RRID: MMRRC_034666-UCD Vipr1 cKO mice This paper NA Vipr1-OE mice This paper NA Gad2Cre Jackson Laboratory Strain#: 019022; RRID: IMSR_JAX: 019022 PVCre Jackson Laboratory Strain#: 017320; RRID: IMSR_JAX: 017320 Ai14 Jackson Laboratory Strain#: 007914; RRID: IMSR_JAX: 007914 Ai93 Jackson Laboratory Strain#: 024107; RRID: IMSR_JAX: 024107 (Continued on next page) e1 Cell 185, 3877–3895.e1–e11, October 13, 2022 .. REAGENT or RESOURCE SOURCE IDENTIFIER CaMKIIattA Jackson Laboratory Strain#: 24108; RRID: IMSR_JAX: 24108 Scnn1aCre Jackson Laboratory Strain#: 009613; RRID: IMSR_JAX:009613 Oligonucleotides See tables in methods.
Recombinant:Article Title: A circuit from the locus coeruleus to the anterior cingulate cortex modulates offspring interactions in mice.
Article Snippet: .. REAGENT or RESOURCE SOURCE IDENTIFIER Antibodies Chicken anti-TH Abcam Cat #76442; RRID: AB_1524535 Rabbit anti-GFP Invitrogen Cat# A6455; RRID: AB_221570 Goat anti-chicken Alexa Fluor 594 Invitrogen Cat# A11042; RRID: AB_2534099 Goat anti-chicken Alexa Fluor 488 Invitrogen Cat# A11039; RRID: AB_2534096 Goat anti-rabbit Alexa Fluor 488 Invitrogen Cat# A11008; RRID: AB_143165 Bacterial and virus strains pGP-AAV-syn-FLEX-jGCaMP7s-WPRE (AAV9) (Dana et al.)61 Addgene_104491 pAAV-CaMKIIa-EGFP (AAV8) Bryan Roth Addgene_50469 pAAV-CaMKIIa-hM4D(Gi)-mCherry (AAV8) Bryan Roth Addgene_50477 AAV.CamKII.GCaMP6s.WPRE.SV40 (AAV9) James M. Wilson Addgene_107790 pAAV-CAG-tdTomato Edward Boyden Addgene_59462 pENN.AAV.hSyn.Cre.WPRE.hGH James M. Wilson Addgene_105553 pAAV.synP.DIO.EGFP.WPRE.hGH (AAV9) Ian Wickersham Addgene_100043 pAAV-hSyn-DIO-hM4D(Gi)-mCherry (AAV5) (Krashes et al.)62 Addgene_44362 AAV9-hSyn-NE2h (Feng at al)55 Vigene Biosciences_YL10074-AAV9 Chemicals, peptides, and recombinant proteins DirectPCR Viagen Cat# 402-E RRID: N/A Proteinase K Invitrogen Cat# AM2548 RRID: N/A Euthasol Virbac Cat# 200-071 RRID: N/A 4% paraformaldehyde FD Neurotechnologies Cat# PF101 RRID: N/A OCT compound Sakura Cat# 4583 RRID: N/A Normal goat serum Vector Laboratories Cat# S-1000-20 RRID: N/A Triton X-100 Sigma Cat# T8787 RRID: N/A Meloxicam Metacam Cat# NDC 0010-6013-01 RRID: N/A Ketamine Ketaset Cat# NDC 54771-2013 RRID: N/A Xylazine AnaSed Cat# NDC 59399-110-20 RRID: N/A Vectashield Vector Laboratories Cat# H-1200-10 RRID: N/A Vetbond Amazon Cat# B079QJXK46 RRID: N/A Isofluorine Covetrus Cat# 029405 RRID: N/A Clozapine dihydrochloride (water soluble) Hello Bio Cat # HB6129 RRID: N/A (Continued on next page) 16 Cell Reports 42, 112771, July 25, 2023 ..
Article Title: Prefrontal pyramidal neurons are critical for all phases of working memory.
Article Snippet: .. REAGENT or RESOURCE SOURCE IDENTIFIER Antibodies Anti-GFP (rabbit) Thermo Fisher Scientific Cat# A-11122; RRID: AB_221569 Anti-rabbit-Alexa Fluor 488 (goat) Thermo Fisher Scientific Cat# A-11008; RRID: AB_143165 Bacterial and virus strains rAAV5/CaMKII-ArchT-GFP UNC Vector Core Lot #AV4606b rAAV5/CaMKII-eGFP UNC Vector Core Lot #AV4587b rAAV1/CaMKII-GCaMP6f UPENN Vector core Penn ID AV-1-PV3435; Addgene ID 100834-AAV1 Chemicals, peptides, and recombinant proteins DAPI Thermo Fisher Scientific Cat# D1306; RRID: AB_2629482 Experimental models: Organisms/strains Mouse: C57BL/6N Charles River Laboratories N/A Software and algorithms MATLAB MathWorks https://de.mathworks.com/ CNMF-E Zhou et al. (2018) https://github.com/zhoupc/CNMF_E NoRMCorre Pnevmatikakis and Giovannucci (2017) https://github.com/flatironinstitute/NoRMCorre MiniscopeAnalysis Guillaume Etter (Sylvain Williams Lab, McGill University) https://github.com/etterguillaume/ MiniscopeAnalysis Cheetah acquisition software Neuralynx https://neuralynx.com/software/cheetah SpikeSort 3D Neuralynx https://neuralynx.com/software/spikesort-3d Miniscope Imaging Software miniscope.org MINISCOPE USB_Control v 1 2.3 Original code This publication https://doi.org/10.5281/zenodo.6091062 Other Miniscope v.3.2 Cai et al. (2016) miniscope.org Automated T-maze this paper N/A Optic fiber Thorlabs #CFML22L10 Dual fiber-optic cannula Doric Lenses #DFC_200/240-0.22_10mm_DF0.7_FLT GRIN lens GoFoton #CLHS050W002055NN; 0.5 mm diameter, 4 mm long GRIN lens Inscopix #002181; 0.5 mm diameter, 4 mm long ..
Article Title: Innate frequency-discrimination hyperacuity in Williams-Beuren syndrome mice.
Article Snippet: .. REAGENT or RESOURCE SOURCE IDENTIFIER Antibodies Anti-VIPR1 ThermoFisher Cat#: PA3-113; RRID: AB_2273050 Anti–b-actin Sigma Aldrich Cat#: A5316; RRID: AB_476743 Anti-rabbit (western) Santa Cruz Biotechnology Cat#:SC-2054; RRID: AB_631748 Anti-mouse Santa Cruz Biotechnology Cat#: SC-2005; RRID: AB_631736 Anti-parvalbumin Swant Cat#: PV235; RRID: AB_10000343 Anti-GFP Abcam Cat#: ab13970; RRID: AB_300798 Anti-GABA Sigma Aldrich Cat#: A2052; RRID: AB_477652 Alexa fluor 568 goat anti-mouse ThermoFisher Cat#: A11004; RRID: AB_2534072 Alexa fluor 488 goat anti-chicken ThermoFisher Cat#: A11039; RRID: AB_2534096 Alexa fluor 488 goat anti-rabbit ThermoFisher Cat#: A11008; RRID: AB_143165 Bacterial and virus strains pAAV-hDLX-Vipr1-T2A-eGFP This paper NA pAAV-hDLX-Vipr1-T2A-tdTomato This paper NA rAAV-hSyn-DIO-hM4Di-IRES-mCitrine Addgene Plasmid#: 50455; RRID: Addgene_50455 AAV-CAG-Flex-Vipr1-GFP This paper NA AAV-CAG-Flex-GFP This paper NA Biological samples Human superior temporal lobe samples NIH NeuroBioBank NA Chemicals, peptides, and recombinant proteins PG-97-269 Bachem Cat#: 4048647 Critical commercial assays mirVana RNA isolation kit ThermoFisher Cat#: AM1561 TruSeq Stranded Total RNA Library Prep Illumina Cat#: 20020599 Aurum Total RNA Mini kit Bio-Rad Cat#: 7326820 Deposited data RNA-seq (mouse cortical interneurons) NCBI GEO Accession #: GSE195491 RNA-seq (hIPSC organoids) NCBI GEO Accession #: GSE195505 Experimental models: Cell lines NSUN5–GTF2IRD2+/– hIPSC This paper NA Experimental models: Organisms/strains Gtf2ird1 mice Young et al. (2008) NA CD+/– mice Segura-Puimedon et al. (2014) NA PD+/– mice Jackson Laboratory Strain#: 023885; RRID:IMSR_JAX:023885 DD+/– mice Jackson Laboratory Strain#: 023888; RRID:IMSR_JAX:023888 Gtf2i mice MMRC Stock#: 034666-UCD; RRID: MMRRC_034666-UCD Vipr1 cKO mice This paper NA Vipr1-OE mice This paper NA Gad2Cre Jackson Laboratory Strain#: 019022; RRID: IMSR_JAX: 019022 PVCre Jackson Laboratory Strain#: 017320; RRID: IMSR_JAX: 017320 Ai14 Jackson Laboratory Strain#: 007914; RRID: IMSR_JAX: 007914 Ai93 Jackson Laboratory Strain#: 024107; RRID: IMSR_JAX: 024107 (Continued on next page) e1 Cell 185, 3877–3895.e1–e11, October 13, 2022 .. REAGENT or RESOURCE SOURCE IDENTIFIER CaMKIIattA Jackson Laboratory Strain#: 24108; RRID: IMSR_JAX: 24108 Scnn1aCre Jackson Laboratory Strain#: 009613; RRID: IMSR_JAX:009613 Oligonucleotides See tables in methods.
Article Title: Single-cut gene therapy in a one-step generated rhesus monkey model of Duchenne muscular dystrophy
Article Snippet: .. REAGENT or RESOURCE SOURCE IDENTIFIER Antibodies Anti-Dystrophin antibody Abcam Cat#ab15277;RRID:AB_301813 Anti-Laminin antibody Abcam Cat#ab11575; RRID:AB_298179 Vinculin (E1E9V) XP Rabbit mAb Cell Signaling Technology Cat#13901; RRID: AB_2728768 Anti-rabbit IgG HRP-linked Antibody Cell Signaling Technology Cat#7074S; RRID: AB_2099233 Goat anti-Rabbit IgG (H + L) Cross-Adsorbed Secondary Antibody, Alexa FluorTM 488 Invitrogen Cat# A-11008; RRID: AB_143165 Bacterial and virus strains Trelief 5a Chemically Competent Cell Tsingke Biotechnology Cat#TSC-C01 Recombinant adeno-associated virus PackGene N/A Chemicals, peptides, and recombinant proteins pX601-AAV-CMV-saCas9-U6-sgRNA vector Addgene Cat#61591; RRID:Addgene_61591 pX458-spCas9(BB)-2A-EGFP Addgene Cat#48138; RRID:Addgene_48138 pT7-Cas9 vector Biomics Biotech N/A Cas12iMax See Methods N/A NEBuffer 2 New England Biolabs Cat#B7002S BbsI New England Biolabs Cat#R0539S Xba1 New England Biolabs Cat#R0145S AgeI-HF New England Biolabs Cat#R3552S BamHI-HF New England Biolabs Cat#R3136S T7E1 New England Biolabs Cat#M0302L Fetal Bovine Serum Gibco Cat#10270-106 DMEM Gibco Cat#C11995500BT Pen-Strep Solution Gibco Cat#15140-122 RNaseZAP cleaning agent for removing Sigma Cat#R2020 Blue Plus IV Protein Marker (10–180 kDa) TransGen Biotech Cat#DM131-02 SpectraTM Multicolor High Range Protein Ladder Thermo ScientificTM Cat#26625 Protease inhibitor Cocktail GLPBIO Cat#GK1004 TRIzol Reagent Life technologies Cat#15596018 PrimeSTAR GXL DNA Polymerase Takara Cat#R0505B RIPA Lysis Buffer Beyotime Cat#P0013B Tween 20 Beyotime Cat#ST1726 Gum tragacanth Solarbio Cat#G9390 Isopentane Aladdin Cat#M108171-500mL Triton X-100 Sigma Cat#T9284-500mL Mounting Medium with DAPI Abcam Cat#Ab104139 Recombinant human follicle-stimulating hormone (rhFSH) Merck Serono SA KM03000347S Recombinant human chorionic gonadotropin (rhCG) Merck Serono SA 21081632460 Sodium chloride Sigma Cat#S5886 Potassium chloride Sigma Cat#P5405 Calcium chloride dehydrate Sigma Cat#C7902 Magnesium chloride Sigma Cat#M4880 Sodium phosphate monobasic Sigma Cat#S5011 (Continued on next page) Cell Reports Medicine 6, 102037, April 15, 2025 e1 .. REAGENT or RESOURCE SOURCE IDENTIFIER Sodium bicarbonate Sigma Cat#S4019 D-(+)-Glucose Sigma Cat#C7021 Phenol Red Sigma Cat#P3532 Sodium DL-lactate solution suitable for mouse embryo cell culture, 60% Sigma Cat#L7900 HEPES sodium salt Sigma Cat#H3784 HEPES acid Sigma Cat#H3375 Penicillin-Streptomycin BI Cat#03-031-1B Albumin, from bovine serum Sigma Cat#A8022 Sodium pyruvate Sigma Cat#P4562 L-GLUTAMINE Sigma Cat#G8540 Polyvinyl alcohol Sigma Cat#P8136 Distilled Water Gibco Cat#15230-204 CMRL Medium 1066(1X) [-]L-Glutamine Gibco Cat#11530-037 L-Asparagine Sigma Cat#A4159 L-Aspartic Acid Sigma Cat#A9256 L-Cysteine hydrochloride monohydrate Sigma Cat#C6852 Glycine Sigma Cat#G8790 L-Glutamic acid monosodium salt hydrate Sigma Cat#G5889 Glutamine Sigma Cat#G8540 L-Histidine monohydrochloride monohydrate Sigma Cat#H5659 L-Lysine monohydrochloride Sigma Cat#L8668 L-Serine Sigma Cat#S4311 L-Proline Sigma Cat#P5607 Taurine Sigma Cat#T8691 D-Pantothenic acid hemicalcium salt Sigma Cat#P5155 Critical commercial assays mMESSAGE mMACHINE T7 Ultra Kit Invitrogen Cat#AM1345 GeneArtTM Precision gRNA Synthesis Kit Invitrogen Cat#A29377 LipofectamineTM 3000 Transfection Reagent Invitrogen Cat#L3000008 Guide-it sgRNA Screening Kit Takara Cat#632639 PrimeScriptTM RT reagent Kit with gDNA Eraser Synthesis Kit Takara Cat#RR047Q TOPO TA/Blunt-Zero Vector Vazyme Cat#R050B Discover-sc single cell Kit Vazyme Cat#N601 ClonExpress II One Step Cloning Kit Vazyme Cat#C112-01 TGX Stain-Free FastCast Acrylamide Kit,10% BIO-RAD Cat#161-0183 Easy II Protein Quantitative Kit (BCA) TransGen Biotech Cat#DQ111-01 Wizard Genomic DNA Purification Kit Promega Cat#A1126 Endo-free Plasmid Mini Kit Omega Cat#D6950-02 EasyPure Quick Gel Extraction Kit TransGen Biotech Cat#EG101-02 EasyPure PCR Purification Kit TransGen Biotech Cat#EP101-01 Modified Sirius Red Stain Kit Solarbio Cat#G1472 Deposited data Whole Genome Sequencing and amplicon sequencing NCBI sequence read archive PRJNA1025912 Experimental models: Cell lines African Green Monkey Kidney Cell (COS-7) ATCC Cat#CRL-1651 HEK293T ATCC Cat#CRL-3519 Hela ATCC Cat#CRM-CCL-2 (Continued on next page) e2 Cell Reports Medicine 6, 102037, April 15, 2025 Article ll OPEN ACCESS
Article Title: Astrocyte Kir4.1 expression level territorially controls excitatory transmission in the brain.
Article Snippet: .. REAGENT or RESOURCE SOURCE IDENTIFIER Antibodies Rabbit anti-Kir4.1 Proteintech Cat#12503-1-AP; RRID:AB_2234144 Goat anti-Rabbit IgG (H + L) CrossAdsorbed Secondary Antibody, Alexa FluorTM 488 Thermofisher Cat# A-11008; RRID: AB_143165 Bacterial and virus strains AAV9.pZac2.1-gfaABC1Dpromoter> tdTomato:rKcnj10 Vector Builder Cat# VB171121-1235ysj AAV9.pZac2.1-gfaABC1Dpromoter> tdTomato Vector Builder Cat#VB210711-1154wtd AAV9.hSynap.iGluSnFR.WPRE.SV40 Penn Vector Core Cat#Addgene 98929-AAV9 Biological samples C57BL/6 Mice Charles River Laboratories RRID: MGI:2159769 Chemicals, peptides, and recombinant proteins K+ sensor GINKO2 Prof. RE Cambell https://doi.org/10.1371/ journal.pbio.3001772 pBAD-GINKO2, Addgene Cat#177116 Critical commercial assays Oregon GreenTM 488 BAPTA-1, Hexapotassium Salt ThermoFisher Cat#O6806 Cal-590TM, potassium salt Stratech Cat#20518 Oregon GreenTM 488 BAPTA-1, AM ThermoFisher Cat#O6807 Deposited data K+ dynamics simulation model In-house, GitHub depository https://github.com/RusakovLab/ CellReport Experimental models: Organisms/strains C57BL/6 Mice Charles River Laboratories RRID: MGI:2159769 Software and algorithms MES v4.x-v.6.3 Femontics Ltd. RRID:SCR_018309 MESc 3.5.7 Femontics Ltd. https://femtonics.eu/femtosmart-software/ Axon PClamp Molecular Devices RRID:SCR_011323 Fluorescent Imaging Analysis Software (FIMAS) https://github.com/zhengkaiyu/FIMAS RRID:SCR_018311 Spike2 Cambridge Electronic Design RRID:SCR_000903 OriginPro OriginLab Inc. RRID:SCR_014212 ImageJ ImageJ RRID:SCR_003070 Simulation platform BRAINCELL In-house www.neuroalgebra.net Simulation platform ASTRO In-house https://modeldb.science/243508. .. Other Multiclamp 700B Molecular Devices RRID:SCR_018455 Digidata 1550 Molecular Devices Digidata 1550 Femto2D Multiphoton scanning microscope Femontics Ltd. Femto2D Femtosmart microscope Femontics Ltd. Femto2D Leica VT1200S vibrating microtome Leica BioSystems RRID:SCR_020243 Mobile HomeCage Neurotar Cat#NRT000251-06 Cell Reports 44, 115299, February 25, 2025 17
Software:Article Title: Prefrontal pyramidal neurons are critical for all phases of working memory.
Article Snippet: .. REAGENT or RESOURCE SOURCE IDENTIFIER Antibodies Anti-GFP (rabbit) Thermo Fisher Scientific Cat# A-11122; RRID: AB_221569 Anti-rabbit-Alexa Fluor 488 (goat) Thermo Fisher Scientific Cat# A-11008; RRID: AB_143165 Bacterial and virus strains rAAV5/CaMKII-ArchT-GFP UNC Vector Core Lot #AV4606b rAAV5/CaMKII-eGFP UNC Vector Core Lot #AV4587b rAAV1/CaMKII-GCaMP6f UPENN Vector core Penn ID AV-1-PV3435; Addgene ID 100834-AAV1 Chemicals, peptides, and recombinant proteins DAPI Thermo Fisher Scientific Cat# D1306; RRID: AB_2629482 Experimental models: Organisms/strains Mouse: C57BL/6N Charles River Laboratories N/A Software and algorithms MATLAB MathWorks https://de.mathworks.com/ CNMF-E Zhou et al. (2018) https://github.com/zhoupc/CNMF_E NoRMCorre Pnevmatikakis and Giovannucci (2017) https://github.com/flatironinstitute/NoRMCorre MiniscopeAnalysis Guillaume Etter (Sylvain Williams Lab, McGill University) https://github.com/etterguillaume/ MiniscopeAnalysis Cheetah acquisition software Neuralynx https://neuralynx.com/software/cheetah SpikeSort 3D Neuralynx https://neuralynx.com/software/spikesort-3d Miniscope Imaging Software miniscope.org MINISCOPE USB_Control v 1 2.3 Original code This publication https://doi.org/10.5281/zenodo.6091062 Other Miniscope v.3.2 Cai et al. (2016) miniscope.org Automated T-maze this paper N/A Optic fiber Thorlabs #CFML22L10 Dual fiber-optic cannula Doric Lenses #DFC_200/240-0.22_10mm_DF0.7_FLT GRIN lens GoFoton #CLHS050W002055NN; 0.5 mm diameter, 4 mm long GRIN lens Inscopix #002181; 0.5 mm diameter, 4 mm long ..
Article Title: Astrocyte Kir4.1 expression level territorially controls excitatory transmission in the brain.
Article Snippet: .. REAGENT or RESOURCE SOURCE IDENTIFIER Antibodies Rabbit anti-Kir4.1 Proteintech Cat#12503-1-AP; RRID:AB_2234144 Goat anti-Rabbit IgG (H + L) CrossAdsorbed Secondary Antibody, Alexa FluorTM 488 Thermofisher Cat# A-11008; RRID: AB_143165 Bacterial and virus strains AAV9.pZac2.1-gfaABC1Dpromoter> tdTomato:rKcnj10 Vector Builder Cat# VB171121-1235ysj AAV9.pZac2.1-gfaABC1Dpromoter> tdTomato Vector Builder Cat#VB210711-1154wtd AAV9.hSynap.iGluSnFR.WPRE.SV40 Penn Vector Core Cat#Addgene 98929-AAV9 Biological samples C57BL/6 Mice Charles River Laboratories RRID: MGI:2159769 Chemicals, peptides, and recombinant proteins K+ sensor GINKO2 Prof. RE Cambell https://doi.org/10.1371/ journal.pbio.3001772 pBAD-GINKO2, Addgene Cat#177116 Critical commercial assays Oregon GreenTM 488 BAPTA-1, Hexapotassium Salt ThermoFisher Cat#O6806 Cal-590TM, potassium salt Stratech Cat#20518 Oregon GreenTM 488 BAPTA-1, AM ThermoFisher Cat#O6807 Deposited data K+ dynamics simulation model In-house, GitHub depository https://github.com/RusakovLab/ CellReport Experimental models: Organisms/strains C57BL/6 Mice Charles River Laboratories RRID: MGI:2159769 Software and algorithms MES v4.x-v.6.3 Femontics Ltd. RRID:SCR_018309 MESc 3.5.7 Femontics Ltd. https://femtonics.eu/femtosmart-software/ Axon PClamp Molecular Devices RRID:SCR_011323 Fluorescent Imaging Analysis Software (FIMAS) https://github.com/zhengkaiyu/FIMAS RRID:SCR_018311 Spike2 Cambridge Electronic Design RRID:SCR_000903 OriginPro OriginLab Inc. RRID:SCR_014212 ImageJ ImageJ RRID:SCR_003070 Simulation platform BRAINCELL In-house www.neuroalgebra.net Simulation platform ASTRO In-house https://modeldb.science/243508. .. Other Multiclamp 700B Molecular Devices RRID:SCR_018455 Digidata 1550 Molecular Devices Digidata 1550 Femto2D Multiphoton scanning microscope Femontics Ltd. Femto2D Femtosmart microscope Femontics Ltd. Femto2D Leica VT1200S vibrating microtome Leica BioSystems RRID:SCR_020243 Mobile HomeCage Neurotar Cat#NRT000251-06 Cell Reports 44, 115299, February 25, 2025 17
Imaging:Article Title: Prefrontal pyramidal neurons are critical for all phases of working memory.
Article Snippet: .. REAGENT or RESOURCE SOURCE IDENTIFIER Antibodies Anti-GFP (rabbit) Thermo Fisher Scientific Cat# A-11122; RRID: AB_221569 Anti-rabbit-Alexa Fluor 488 (goat) Thermo Fisher Scientific Cat# A-11008; RRID: AB_143165 Bacterial and virus strains rAAV5/CaMKII-ArchT-GFP UNC Vector Core Lot #AV4606b rAAV5/CaMKII-eGFP UNC Vector Core Lot #AV4587b rAAV1/CaMKII-GCaMP6f UPENN Vector core Penn ID AV-1-PV3435; Addgene ID 100834-AAV1 Chemicals, peptides, and recombinant proteins DAPI Thermo Fisher Scientific Cat# D1306; RRID: AB_2629482 Experimental models: Organisms/strains Mouse: C57BL/6N Charles River Laboratories N/A Software and algorithms MATLAB MathWorks https://de.mathworks.com/ CNMF-E Zhou et al. (2018) https://github.com/zhoupc/CNMF_E NoRMCorre Pnevmatikakis and Giovannucci (2017) https://github.com/flatironinstitute/NoRMCorre MiniscopeAnalysis Guillaume Etter (Sylvain Williams Lab, McGill University) https://github.com/etterguillaume/ MiniscopeAnalysis Cheetah acquisition software Neuralynx https://neuralynx.com/software/cheetah SpikeSort 3D Neuralynx https://neuralynx.com/software/spikesort-3d Miniscope Imaging Software miniscope.org MINISCOPE USB_Control v 1 2.3 Original code This publication https://doi.org/10.5281/zenodo.6091062 Other Miniscope v.3.2 Cai et al. (2016) miniscope.org Automated T-maze this paper N/A Optic fiber Thorlabs #CFML22L10 Dual fiber-optic cannula Doric Lenses #DFC_200/240-0.22_10mm_DF0.7_FLT GRIN lens GoFoton #CLHS050W002055NN; 0.5 mm diameter, 4 mm long GRIN lens Inscopix #002181; 0.5 mm diameter, 4 mm long ..
Article Title: Astrocyte Kir4.1 expression level territorially controls excitatory transmission in the brain.
Article Snippet: .. REAGENT or RESOURCE SOURCE IDENTIFIER Antibodies Rabbit anti-Kir4.1 Proteintech Cat#12503-1-AP; RRID:AB_2234144 Goat anti-Rabbit IgG (H + L) CrossAdsorbed Secondary Antibody, Alexa FluorTM 488 Thermofisher Cat# A-11008; RRID: AB_143165 Bacterial and virus strains AAV9.pZac2.1-gfaABC1Dpromoter> tdTomato:rKcnj10 Vector Builder Cat# VB171121-1235ysj AAV9.pZac2.1-gfaABC1Dpromoter> tdTomato Vector Builder Cat#VB210711-1154wtd AAV9.hSynap.iGluSnFR.WPRE.SV40 Penn Vector Core Cat#Addgene 98929-AAV9 Biological samples C57BL/6 Mice Charles River Laboratories RRID: MGI:2159769 Chemicals, peptides, and recombinant proteins K+ sensor GINKO2 Prof. RE Cambell https://doi.org/10.1371/ journal.pbio.3001772 pBAD-GINKO2, Addgene Cat#177116 Critical commercial assays Oregon GreenTM 488 BAPTA-1, Hexapotassium Salt ThermoFisher Cat#O6806 Cal-590TM, potassium salt Stratech Cat#20518 Oregon GreenTM 488 BAPTA-1, AM ThermoFisher Cat#O6807 Deposited data K+ dynamics simulation model In-house, GitHub depository https://github.com/RusakovLab/ CellReport Experimental models: Organisms/strains C57BL/6 Mice Charles River Laboratories RRID: MGI:2159769 Software and algorithms MES v4.x-v.6.3 Femontics Ltd. RRID:SCR_018309 MESc 3.5.7 Femontics Ltd. https://femtonics.eu/femtosmart-software/ Axon PClamp Molecular Devices RRID:SCR_011323 Fluorescent Imaging Analysis Software (FIMAS) https://github.com/zhengkaiyu/FIMAS RRID:SCR_018311 Spike2 Cambridge Electronic Design RRID:SCR_000903 OriginPro OriginLab Inc. RRID:SCR_014212 ImageJ ImageJ RRID:SCR_003070 Simulation platform BRAINCELL In-house www.neuroalgebra.net Simulation platform ASTRO In-house https://modeldb.science/243508. .. Other Multiclamp 700B Molecular Devices RRID:SCR_018455 Digidata 1550 Molecular Devices Digidata 1550 Femto2D Multiphoton scanning microscope Femontics Ltd. Femto2D Femtosmart microscope Femontics Ltd. Femto2D Leica VT1200S vibrating microtome Leica BioSystems RRID:SCR_020243 Mobile HomeCage Neurotar Cat#NRT000251-06 Cell Reports 44, 115299, February 25, 2025 17
Western Blot:Article Title: Innate frequency-discrimination hyperacuity in Williams-Beuren syndrome mice.
Article Snippet: .. REAGENT or RESOURCE SOURCE IDENTIFIER Antibodies Anti-VIPR1 ThermoFisher Cat#: PA3-113; RRID: AB_2273050 Anti–b-actin Sigma Aldrich Cat#: A5316; RRID: AB_476743 Anti-rabbit (western) Santa Cruz Biotechnology Cat#:SC-2054; RRID: AB_631748 Anti-mouse Santa Cruz Biotechnology Cat#: SC-2005; RRID: AB_631736 Anti-parvalbumin Swant Cat#: PV235; RRID: AB_10000343 Anti-GFP Abcam Cat#: ab13970; RRID: AB_300798 Anti-GABA Sigma Aldrich Cat#: A2052; RRID: AB_477652 Alexa fluor 568 goat anti-mouse ThermoFisher Cat#: A11004; RRID: AB_2534072 Alexa fluor 488 goat anti-chicken ThermoFisher Cat#: A11039; RRID: AB_2534096 Alexa fluor 488 goat anti-rabbit ThermoFisher Cat#: A11008; RRID: AB_143165 Bacterial and virus strains pAAV-hDLX-Vipr1-T2A-eGFP This paper NA pAAV-hDLX-Vipr1-T2A-tdTomato This paper NA rAAV-hSyn-DIO-hM4Di-IRES-mCitrine Addgene Plasmid#: 50455; RRID: Addgene_50455 AAV-CAG-Flex-Vipr1-GFP This paper NA AAV-CAG-Flex-GFP This paper NA Biological samples Human superior temporal lobe samples NIH NeuroBioBank NA Chemicals, peptides, and recombinant proteins PG-97-269 Bachem Cat#: 4048647 Critical commercial assays mirVana RNA isolation kit ThermoFisher Cat#: AM1561 TruSeq Stranded Total RNA Library Prep Illumina Cat#: 20020599 Aurum Total RNA Mini kit Bio-Rad Cat#: 7326820 Deposited data RNA-seq (mouse cortical interneurons) NCBI GEO Accession #: GSE195491 RNA-seq (hIPSC organoids) NCBI GEO Accession #: GSE195505 Experimental models: Cell lines NSUN5–GTF2IRD2+/– hIPSC This paper NA Experimental models: Organisms/strains Gtf2ird1 mice Young et al. (2008) NA CD+/– mice Segura-Puimedon et al. (2014) NA PD+/– mice Jackson Laboratory Strain#: 023885; RRID:IMSR_JAX:023885 DD+/– mice Jackson Laboratory Strain#: 023888; RRID:IMSR_JAX:023888 Gtf2i mice MMRC Stock#: 034666-UCD; RRID: MMRRC_034666-UCD Vipr1 cKO mice This paper NA Vipr1-OE mice This paper NA Gad2Cre Jackson Laboratory Strain#: 019022; RRID: IMSR_JAX: 019022 PVCre Jackson Laboratory Strain#: 017320; RRID: IMSR_JAX: 017320 Ai14 Jackson Laboratory Strain#: 007914; RRID: IMSR_JAX: 007914 Ai93 Jackson Laboratory Strain#: 024107; RRID: IMSR_JAX: 024107 (Continued on next page) e1 Cell 185, 3877–3895.e1–e11, October 13, 2022 .. REAGENT or RESOURCE SOURCE IDENTIFIER CaMKIIattA Jackson Laboratory Strain#: 24108; RRID: IMSR_JAX: 24108 Scnn1aCre Jackson Laboratory Strain#: 009613; RRID: IMSR_JAX:009613 Oligonucleotides See tables in methods.
Plasmid Preparation:Article Title: Innate frequency-discrimination hyperacuity in Williams-Beuren syndrome mice.
Article Snippet: .. REAGENT or RESOURCE SOURCE IDENTIFIER Antibodies Anti-VIPR1 ThermoFisher Cat#: PA3-113; RRID: AB_2273050 Anti–b-actin Sigma Aldrich Cat#: A5316; RRID: AB_476743 Anti-rabbit (western) Santa Cruz Biotechnology Cat#:SC-2054; RRID: AB_631748 Anti-mouse Santa Cruz Biotechnology Cat#: SC-2005; RRID: AB_631736 Anti-parvalbumin Swant Cat#: PV235; RRID: AB_10000343 Anti-GFP Abcam Cat#: ab13970; RRID: AB_300798 Anti-GABA Sigma Aldrich Cat#: A2052; RRID: AB_477652 Alexa fluor 568 goat anti-mouse ThermoFisher Cat#: A11004; RRID: AB_2534072 Alexa fluor 488 goat anti-chicken ThermoFisher Cat#: A11039; RRID: AB_2534096 Alexa fluor 488 goat anti-rabbit ThermoFisher Cat#: A11008; RRID: AB_143165 Bacterial and virus strains pAAV-hDLX-Vipr1-T2A-eGFP This paper NA pAAV-hDLX-Vipr1-T2A-tdTomato This paper NA rAAV-hSyn-DIO-hM4Di-IRES-mCitrine Addgene Plasmid#: 50455; RRID: Addgene_50455 AAV-CAG-Flex-Vipr1-GFP This paper NA AAV-CAG-Flex-GFP This paper NA Biological samples Human superior temporal lobe samples NIH NeuroBioBank NA Chemicals, peptides, and recombinant proteins PG-97-269 Bachem Cat#: 4048647 Critical commercial assays mirVana RNA isolation kit ThermoFisher Cat#: AM1561 TruSeq Stranded Total RNA Library Prep Illumina Cat#: 20020599 Aurum Total RNA Mini kit Bio-Rad Cat#: 7326820 Deposited data RNA-seq (mouse cortical interneurons) NCBI GEO Accession #: GSE195491 RNA-seq (hIPSC organoids) NCBI GEO Accession #: GSE195505 Experimental models: Cell lines NSUN5–GTF2IRD2+/– hIPSC This paper NA Experimental models: Organisms/strains Gtf2ird1 mice Young et al. (2008) NA CD+/– mice Segura-Puimedon et al. (2014) NA PD+/– mice Jackson Laboratory Strain#: 023885; RRID:IMSR_JAX:023885 DD+/– mice Jackson Laboratory Strain#: 023888; RRID:IMSR_JAX:023888 Gtf2i mice MMRC Stock#: 034666-UCD; RRID: MMRRC_034666-UCD Vipr1 cKO mice This paper NA Vipr1-OE mice This paper NA Gad2Cre Jackson Laboratory Strain#: 019022; RRID: IMSR_JAX: 019022 PVCre Jackson Laboratory Strain#: 017320; RRID: IMSR_JAX: 017320 Ai14 Jackson Laboratory Strain#: 007914; RRID: IMSR_JAX: 007914 Ai93 Jackson Laboratory Strain#: 024107; RRID: IMSR_JAX: 024107 (Continued on next page) e1 Cell 185, 3877–3895.e1–e11, October 13, 2022 .. REAGENT or RESOURCE SOURCE IDENTIFIER CaMKIIattA Jackson Laboratory Strain#: 24108; RRID: IMSR_JAX: 24108 Scnn1aCre Jackson Laboratory Strain#: 009613; RRID: IMSR_JAX:009613 Oligonucleotides See tables in methods.
Isolation:Article Title: Innate frequency-discrimination hyperacuity in Williams-Beuren syndrome mice.
Article Snippet: .. REAGENT or RESOURCE SOURCE IDENTIFIER Antibodies Anti-VIPR1 ThermoFisher Cat#: PA3-113; RRID: AB_2273050 Anti–b-actin Sigma Aldrich Cat#: A5316; RRID: AB_476743 Anti-rabbit (western) Santa Cruz Biotechnology Cat#:SC-2054; RRID: AB_631748 Anti-mouse Santa Cruz Biotechnology Cat#: SC-2005; RRID: AB_631736 Anti-parvalbumin Swant Cat#: PV235; RRID: AB_10000343 Anti-GFP Abcam Cat#: ab13970; RRID: AB_300798 Anti-GABA Sigma Aldrich Cat#: A2052; RRID: AB_477652 Alexa fluor 568 goat anti-mouse ThermoFisher Cat#: A11004; RRID: AB_2534072 Alexa fluor 488 goat anti-chicken ThermoFisher Cat#: A11039; RRID: AB_2534096 Alexa fluor 488 goat anti-rabbit ThermoFisher Cat#: A11008; RRID: AB_143165 Bacterial and virus strains pAAV-hDLX-Vipr1-T2A-eGFP This paper NA pAAV-hDLX-Vipr1-T2A-tdTomato This paper NA rAAV-hSyn-DIO-hM4Di-IRES-mCitrine Addgene Plasmid#: 50455; RRID: Addgene_50455 AAV-CAG-Flex-Vipr1-GFP This paper NA AAV-CAG-Flex-GFP This paper NA Biological samples Human superior temporal lobe samples NIH NeuroBioBank NA Chemicals, peptides, and recombinant proteins PG-97-269 Bachem Cat#: 4048647 Critical commercial assays mirVana RNA isolation kit ThermoFisher Cat#: AM1561 TruSeq Stranded Total RNA Library Prep Illumina Cat#: 20020599 Aurum Total RNA Mini kit Bio-Rad Cat#: 7326820 Deposited data RNA-seq (mouse cortical interneurons) NCBI GEO Accession #: GSE195491 RNA-seq (hIPSC organoids) NCBI GEO Accession #: GSE195505 Experimental models: Cell lines NSUN5–GTF2IRD2+/– hIPSC This paper NA Experimental models: Organisms/strains Gtf2ird1 mice Young et al. (2008) NA CD+/– mice Segura-Puimedon et al. (2014) NA PD+/– mice Jackson Laboratory Strain#: 023885; RRID:IMSR_JAX:023885 DD+/– mice Jackson Laboratory Strain#: 023888; RRID:IMSR_JAX:023888 Gtf2i mice MMRC Stock#: 034666-UCD; RRID: MMRRC_034666-UCD Vipr1 cKO mice This paper NA Vipr1-OE mice This paper NA Gad2Cre Jackson Laboratory Strain#: 019022; RRID: IMSR_JAX: 019022 PVCre Jackson Laboratory Strain#: 017320; RRID: IMSR_JAX: 017320 Ai14 Jackson Laboratory Strain#: 007914; RRID: IMSR_JAX: 007914 Ai93 Jackson Laboratory Strain#: 024107; RRID: IMSR_JAX: 024107 (Continued on next page) e1 Cell 185, 3877–3895.e1–e11, October 13, 2022 .. REAGENT or RESOURCE SOURCE IDENTIFIER CaMKIIattA Jackson Laboratory Strain#: 24108; RRID: IMSR_JAX: 24108 Scnn1aCre Jackson Laboratory Strain#: 009613; RRID: IMSR_JAX:009613 Oligonucleotides See tables in methods.
RNA Sequencing:Article Title: Innate frequency-discrimination hyperacuity in Williams-Beuren syndrome mice.
Article Snippet: .. REAGENT or RESOURCE SOURCE IDENTIFIER Antibodies Anti-VIPR1 ThermoFisher Cat#: PA3-113; RRID: AB_2273050 Anti–b-actin Sigma Aldrich Cat#: A5316; RRID: AB_476743 Anti-rabbit (western) Santa Cruz Biotechnology Cat#:SC-2054; RRID: AB_631748 Anti-mouse Santa Cruz Biotechnology Cat#: SC-2005; RRID: AB_631736 Anti-parvalbumin Swant Cat#: PV235; RRID: AB_10000343 Anti-GFP Abcam Cat#: ab13970; RRID: AB_300798 Anti-GABA Sigma Aldrich Cat#: A2052; RRID: AB_477652 Alexa fluor 568 goat anti-mouse ThermoFisher Cat#: A11004; RRID: AB_2534072 Alexa fluor 488 goat anti-chicken ThermoFisher Cat#: A11039; RRID: AB_2534096 Alexa fluor 488 goat anti-rabbit ThermoFisher Cat#: A11008; RRID: AB_143165 Bacterial and virus strains pAAV-hDLX-Vipr1-T2A-eGFP This paper NA pAAV-hDLX-Vipr1-T2A-tdTomato This paper NA rAAV-hSyn-DIO-hM4Di-IRES-mCitrine Addgene Plasmid#: 50455; RRID: Addgene_50455 AAV-CAG-Flex-Vipr1-GFP This paper NA AAV-CAG-Flex-GFP This paper NA Biological samples Human superior temporal lobe samples NIH NeuroBioBank NA Chemicals, peptides, and recombinant proteins PG-97-269 Bachem Cat#: 4048647 Critical commercial assays mirVana RNA isolation kit ThermoFisher Cat#: AM1561 TruSeq Stranded Total RNA Library Prep Illumina Cat#: 20020599 Aurum Total RNA Mini kit Bio-Rad Cat#: 7326820 Deposited data RNA-seq (mouse cortical interneurons) NCBI GEO Accession #: GSE195491 RNA-seq (hIPSC organoids) NCBI GEO Accession #: GSE195505 Experimental models: Cell lines NSUN5–GTF2IRD2+/– hIPSC This paper NA Experimental models: Organisms/strains Gtf2ird1 mice Young et al. (2008) NA CD+/– mice Segura-Puimedon et al. (2014) NA PD+/– mice Jackson Laboratory Strain#: 023885; RRID:IMSR_JAX:023885 DD+/– mice Jackson Laboratory Strain#: 023888; RRID:IMSR_JAX:023888 Gtf2i mice MMRC Stock#: 034666-UCD; RRID: MMRRC_034666-UCD Vipr1 cKO mice This paper NA Vipr1-OE mice This paper NA Gad2Cre Jackson Laboratory Strain#: 019022; RRID: IMSR_JAX: 019022 PVCre Jackson Laboratory Strain#: 017320; RRID: IMSR_JAX: 017320 Ai14 Jackson Laboratory Strain#: 007914; RRID: IMSR_JAX: 007914 Ai93 Jackson Laboratory Strain#: 024107; RRID: IMSR_JAX: 024107 (Continued on next page) e1 Cell 185, 3877–3895.e1–e11, October 13, 2022 .. REAGENT or RESOURCE SOURCE IDENTIFIER CaMKIIattA Jackson Laboratory Strain#: 24108; RRID: IMSR_JAX: 24108 Scnn1aCre Jackson Laboratory Strain#: 009613; RRID: IMSR_JAX:009613 Oligonucleotides See tables in methods.
Marker:Article Title: Single-cut gene therapy in a one-step generated rhesus monkey model of Duchenne muscular dystrophy
Article Snippet: .. REAGENT or RESOURCE SOURCE IDENTIFIER Antibodies Anti-Dystrophin antibody Abcam Cat#ab15277;RRID:AB_301813 Anti-Laminin antibody Abcam Cat#ab11575; RRID:AB_298179 Vinculin (E1E9V) XP Rabbit mAb Cell Signaling Technology Cat#13901; RRID: AB_2728768 Anti-rabbit IgG HRP-linked Antibody Cell Signaling Technology Cat#7074S; RRID: AB_2099233 Goat anti-Rabbit IgG (H + L) Cross-Adsorbed Secondary Antibody, Alexa FluorTM 488 Invitrogen Cat# A-11008; RRID: AB_143165 Bacterial and virus strains Trelief 5a Chemically Competent Cell Tsingke Biotechnology Cat#TSC-C01 Recombinant adeno-associated virus PackGene N/A Chemicals, peptides, and recombinant proteins pX601-AAV-CMV-saCas9-U6-sgRNA vector Addgene Cat#61591; RRID:Addgene_61591 pX458-spCas9(BB)-2A-EGFP Addgene Cat#48138; RRID:Addgene_48138 pT7-Cas9 vector Biomics Biotech N/A Cas12iMax See Methods N/A NEBuffer 2 New England Biolabs Cat#B7002S BbsI New England Biolabs Cat#R0539S Xba1 New England Biolabs Cat#R0145S AgeI-HF New England Biolabs Cat#R3552S BamHI-HF New England Biolabs Cat#R3136S T7E1 New England Biolabs Cat#M0302L Fetal Bovine Serum Gibco Cat#10270-106 DMEM Gibco Cat#C11995500BT Pen-Strep Solution Gibco Cat#15140-122 RNaseZAP cleaning agent for removing Sigma Cat#R2020 Blue Plus IV Protein Marker (10–180 kDa) TransGen Biotech Cat#DM131-02 SpectraTM Multicolor High Range Protein Ladder Thermo ScientificTM Cat#26625 Protease inhibitor Cocktail GLPBIO Cat#GK1004 TRIzol Reagent Life technologies Cat#15596018 PrimeSTAR GXL DNA Polymerase Takara Cat#R0505B RIPA Lysis Buffer Beyotime Cat#P0013B Tween 20 Beyotime Cat#ST1726 Gum tragacanth Solarbio Cat#G9390 Isopentane Aladdin Cat#M108171-500mL Triton X-100 Sigma Cat#T9284-500mL Mounting Medium with DAPI Abcam Cat#Ab104139 Recombinant human follicle-stimulating hormone (rhFSH) Merck Serono SA KM03000347S Recombinant human chorionic gonadotropin (rhCG) Merck Serono SA 21081632460 Sodium chloride Sigma Cat#S5886 Potassium chloride Sigma Cat#P5405 Calcium chloride dehydrate Sigma Cat#C7902 Magnesium chloride Sigma Cat#M4880 Sodium phosphate monobasic Sigma Cat#S5011 (Continued on next page) Cell Reports Medicine 6, 102037, April 15, 2025 e1 .. REAGENT or RESOURCE SOURCE IDENTIFIER Sodium bicarbonate Sigma Cat#S4019 D-(+)-Glucose Sigma Cat#C7021 Phenol Red Sigma Cat#P3532 Sodium DL-lactate solution suitable for mouse embryo cell culture, 60% Sigma Cat#L7900 HEPES sodium salt Sigma Cat#H3784 HEPES acid Sigma Cat#H3375 Penicillin-Streptomycin BI Cat#03-031-1B Albumin, from bovine serum Sigma Cat#A8022 Sodium pyruvate Sigma Cat#P4562 L-GLUTAMINE Sigma Cat#G8540 Polyvinyl alcohol Sigma Cat#P8136 Distilled Water Gibco Cat#15230-204 CMRL Medium 1066(1X) [-]L-Glutamine Gibco Cat#11530-037 L-Asparagine Sigma Cat#A4159 L-Aspartic Acid Sigma Cat#A9256 L-Cysteine hydrochloride monohydrate Sigma Cat#C6852 Glycine Sigma Cat#G8790 L-Glutamic acid monosodium salt hydrate Sigma Cat#G5889 Glutamine Sigma Cat#G8540 L-Histidine monohydrochloride monohydrate Sigma Cat#H5659 L-Lysine monohydrochloride Sigma Cat#L8668 L-Serine Sigma Cat#S4311 L-Proline Sigma Cat#P5607 Taurine Sigma Cat#T8691 D-Pantothenic acid hemicalcium salt Sigma Cat#P5155 Critical commercial assays mMESSAGE mMACHINE T7 Ultra Kit Invitrogen Cat#AM1345 GeneArtTM Precision gRNA Synthesis Kit Invitrogen Cat#A29377 LipofectamineTM 3000 Transfection Reagent Invitrogen Cat#L3000008 Guide-it sgRNA Screening Kit Takara Cat#632639 PrimeScriptTM RT reagent Kit with gDNA Eraser Synthesis Kit Takara Cat#RR047Q TOPO TA/Blunt-Zero Vector Vazyme Cat#R050B Discover-sc single cell Kit Vazyme Cat#N601 ClonExpress II One Step Cloning Kit Vazyme Cat#C112-01 TGX Stain-Free FastCast Acrylamide Kit,10% BIO-RAD Cat#161-0183 Easy II Protein Quantitative Kit (BCA) TransGen Biotech Cat#DQ111-01 Wizard Genomic DNA Purification Kit Promega Cat#A1126 Endo-free Plasmid Mini Kit Omega Cat#D6950-02 EasyPure Quick Gel Extraction Kit TransGen Biotech Cat#EG101-02 EasyPure PCR Purification Kit TransGen Biotech Cat#EP101-01 Modified Sirius Red Stain Kit Solarbio Cat#G1472 Deposited data Whole Genome Sequencing and amplicon sequencing NCBI sequence read archive PRJNA1025912 Experimental models: Cell lines African Green Monkey Kidney Cell (COS-7) ATCC Cat#CRL-1651 HEK293T ATCC Cat#CRL-3519 Hela ATCC Cat#CRM-CCL-2 (Continued on next page) e2 Cell Reports Medicine 6, 102037, April 15, 2025 Article ll OPEN ACCESS
Protease Inhibitor:Article Title: Single-cut gene therapy in a one-step generated rhesus monkey model of Duchenne muscular dystrophy
Article Snippet: .. REAGENT or RESOURCE SOURCE IDENTIFIER Antibodies Anti-Dystrophin antibody Abcam Cat#ab15277;RRID:AB_301813 Anti-Laminin antibody Abcam Cat#ab11575; RRID:AB_298179 Vinculin (E1E9V) XP Rabbit mAb Cell Signaling Technology Cat#13901; RRID: AB_2728768 Anti-rabbit IgG HRP-linked Antibody Cell Signaling Technology Cat#7074S; RRID: AB_2099233 Goat anti-Rabbit IgG (H + L) Cross-Adsorbed Secondary Antibody, Alexa FluorTM 488 Invitrogen Cat# A-11008; RRID: AB_143165 Bacterial and virus strains Trelief 5a Chemically Competent Cell Tsingke Biotechnology Cat#TSC-C01 Recombinant adeno-associated virus PackGene N/A Chemicals, peptides, and recombinant proteins pX601-AAV-CMV-saCas9-U6-sgRNA vector Addgene Cat#61591; RRID:Addgene_61591 pX458-spCas9(BB)-2A-EGFP Addgene Cat#48138; RRID:Addgene_48138 pT7-Cas9 vector Biomics Biotech N/A Cas12iMax See Methods N/A NEBuffer 2 New England Biolabs Cat#B7002S BbsI New England Biolabs Cat#R0539S Xba1 New England Biolabs Cat#R0145S AgeI-HF New England Biolabs Cat#R3552S BamHI-HF New England Biolabs Cat#R3136S T7E1 New England Biolabs Cat#M0302L Fetal Bovine Serum Gibco Cat#10270-106 DMEM Gibco Cat#C11995500BT Pen-Strep Solution Gibco Cat#15140-122 RNaseZAP cleaning agent for removing Sigma Cat#R2020 Blue Plus IV Protein Marker (10–180 kDa) TransGen Biotech Cat#DM131-02 SpectraTM Multicolor High Range Protein Ladder Thermo ScientificTM Cat#26625 Protease inhibitor Cocktail GLPBIO Cat#GK1004 TRIzol Reagent Life technologies Cat#15596018 PrimeSTAR GXL DNA Polymerase Takara Cat#R0505B RIPA Lysis Buffer Beyotime Cat#P0013B Tween 20 Beyotime Cat#ST1726 Gum tragacanth Solarbio Cat#G9390 Isopentane Aladdin Cat#M108171-500mL Triton X-100 Sigma Cat#T9284-500mL Mounting Medium with DAPI Abcam Cat#Ab104139 Recombinant human follicle-stimulating hormone (rhFSH) Merck Serono SA KM03000347S Recombinant human chorionic gonadotropin (rhCG) Merck Serono SA 21081632460 Sodium chloride Sigma Cat#S5886 Potassium chloride Sigma Cat#P5405 Calcium chloride dehydrate Sigma Cat#C7902 Magnesium chloride Sigma Cat#M4880 Sodium phosphate monobasic Sigma Cat#S5011 (Continued on next page) Cell Reports Medicine 6, 102037, April 15, 2025 e1 .. REAGENT or RESOURCE SOURCE IDENTIFIER Sodium bicarbonate Sigma Cat#S4019 D-(+)-Glucose Sigma Cat#C7021 Phenol Red Sigma Cat#P3532 Sodium DL-lactate solution suitable for mouse embryo cell culture, 60% Sigma Cat#L7900 HEPES sodium salt Sigma Cat#H3784 HEPES acid Sigma Cat#H3375 Penicillin-Streptomycin BI Cat#03-031-1B Albumin, from bovine serum Sigma Cat#A8022 Sodium pyruvate Sigma Cat#P4562 L-GLUTAMINE Sigma Cat#G8540 Polyvinyl alcohol Sigma Cat#P8136 Distilled Water Gibco Cat#15230-204 CMRL Medium 1066(1X) [-]L-Glutamine Gibco Cat#11530-037 L-Asparagine Sigma Cat#A4159 L-Aspartic Acid Sigma Cat#A9256 L-Cysteine hydrochloride monohydrate Sigma Cat#C6852 Glycine Sigma Cat#G8790 L-Glutamic acid monosodium salt hydrate Sigma Cat#G5889 Glutamine Sigma Cat#G8540 L-Histidine monohydrochloride monohydrate Sigma Cat#H5659 L-Lysine monohydrochloride Sigma Cat#L8668 L-Serine Sigma Cat#S4311 L-Proline Sigma Cat#P5607 Taurine Sigma Cat#T8691 D-Pantothenic acid hemicalcium salt Sigma Cat#P5155 Critical commercial assays mMESSAGE mMACHINE T7 Ultra Kit Invitrogen Cat#AM1345 GeneArtTM Precision gRNA Synthesis Kit Invitrogen Cat#A29377 LipofectamineTM 3000 Transfection Reagent Invitrogen Cat#L3000008 Guide-it sgRNA Screening Kit Takara Cat#632639 PrimeScriptTM RT reagent Kit with gDNA Eraser Synthesis Kit Takara Cat#RR047Q TOPO TA/Blunt-Zero Vector Vazyme Cat#R050B Discover-sc single cell Kit Vazyme Cat#N601 ClonExpress II One Step Cloning Kit Vazyme Cat#C112-01 TGX Stain-Free FastCast Acrylamide Kit,10% BIO-RAD Cat#161-0183 Easy II Protein Quantitative Kit (BCA) TransGen Biotech Cat#DQ111-01 Wizard Genomic DNA Purification Kit Promega Cat#A1126 Endo-free Plasmid Mini Kit Omega Cat#D6950-02 EasyPure Quick Gel Extraction Kit TransGen Biotech Cat#EG101-02 EasyPure PCR Purification Kit TransGen Biotech Cat#EP101-01 Modified Sirius Red Stain Kit Solarbio Cat#G1472 Deposited data Whole Genome Sequencing and amplicon sequencing NCBI sequence read archive PRJNA1025912 Experimental models: Cell lines African Green Monkey Kidney Cell (COS-7) ATCC Cat#CRL-1651 HEK293T ATCC Cat#CRL-3519 Hela ATCC Cat#CRM-CCL-2 (Continued on next page) e2 Cell Reports Medicine 6, 102037, April 15, 2025 Article ll OPEN ACCESS
Lysis:Article Title: Single-cut gene therapy in a one-step generated rhesus monkey model of Duchenne muscular dystrophy
Article Snippet: .. REAGENT or RESOURCE SOURCE IDENTIFIER Antibodies Anti-Dystrophin antibody Abcam Cat#ab15277;RRID:AB_301813 Anti-Laminin antibody Abcam Cat#ab11575; RRID:AB_298179 Vinculin (E1E9V) XP Rabbit mAb Cell Signaling Technology Cat#13901; RRID: AB_2728768 Anti-rabbit IgG HRP-linked Antibody Cell Signaling Technology Cat#7074S; RRID: AB_2099233 Goat anti-Rabbit IgG (H + L) Cross-Adsorbed Secondary Antibody, Alexa FluorTM 488 Invitrogen Cat# A-11008; RRID: AB_143165 Bacterial and virus strains Trelief 5a Chemically Competent Cell Tsingke Biotechnology Cat#TSC-C01 Recombinant adeno-associated virus PackGene N/A Chemicals, peptides, and recombinant proteins pX601-AAV-CMV-saCas9-U6-sgRNA vector Addgene Cat#61591; RRID:Addgene_61591 pX458-spCas9(BB)-2A-EGFP Addgene Cat#48138; RRID:Addgene_48138 pT7-Cas9 vector Biomics Biotech N/A Cas12iMax See Methods N/A NEBuffer 2 New England Biolabs Cat#B7002S BbsI New England Biolabs Cat#R0539S Xba1 New England Biolabs Cat#R0145S AgeI-HF New England Biolabs Cat#R3552S BamHI-HF New England Biolabs Cat#R3136S T7E1 New England Biolabs Cat#M0302L Fetal Bovine Serum Gibco Cat#10270-106 DMEM Gibco Cat#C11995500BT Pen-Strep Solution Gibco Cat#15140-122 RNaseZAP cleaning agent for removing Sigma Cat#R2020 Blue Plus IV Protein Marker (10–180 kDa) TransGen Biotech Cat#DM131-02 SpectraTM Multicolor High Range Protein Ladder Thermo ScientificTM Cat#26625 Protease inhibitor Cocktail GLPBIO Cat#GK1004 TRIzol Reagent Life technologies Cat#15596018 PrimeSTAR GXL DNA Polymerase Takara Cat#R0505B RIPA Lysis Buffer Beyotime Cat#P0013B Tween 20 Beyotime Cat#ST1726 Gum tragacanth Solarbio Cat#G9390 Isopentane Aladdin Cat#M108171-500mL Triton X-100 Sigma Cat#T9284-500mL Mounting Medium with DAPI Abcam Cat#Ab104139 Recombinant human follicle-stimulating hormone (rhFSH) Merck Serono SA KM03000347S Recombinant human chorionic gonadotropin (rhCG) Merck Serono SA 21081632460 Sodium chloride Sigma Cat#S5886 Potassium chloride Sigma Cat#P5405 Calcium chloride dehydrate Sigma Cat#C7902 Magnesium chloride Sigma Cat#M4880 Sodium phosphate monobasic Sigma Cat#S5011 (Continued on next page) Cell Reports Medicine 6, 102037, April 15, 2025 e1 .. REAGENT or RESOURCE SOURCE IDENTIFIER Sodium bicarbonate Sigma Cat#S4019 D-(+)-Glucose Sigma Cat#C7021 Phenol Red Sigma Cat#P3532 Sodium DL-lactate solution suitable for mouse embryo cell culture, 60% Sigma Cat#L7900 HEPES sodium salt Sigma Cat#H3784 HEPES acid Sigma Cat#H3375 Penicillin-Streptomycin BI Cat#03-031-1B Albumin, from bovine serum Sigma Cat#A8022 Sodium pyruvate Sigma Cat#P4562 L-GLUTAMINE Sigma Cat#G8540 Polyvinyl alcohol Sigma Cat#P8136 Distilled Water Gibco Cat#15230-204 CMRL Medium 1066(1X) [-]L-Glutamine Gibco Cat#11530-037 L-Asparagine Sigma Cat#A4159 L-Aspartic Acid Sigma Cat#A9256 L-Cysteine hydrochloride monohydrate Sigma Cat#C6852 Glycine Sigma Cat#G8790 L-Glutamic acid monosodium salt hydrate Sigma Cat#G5889 Glutamine Sigma Cat#G8540 L-Histidine monohydrochloride monohydrate Sigma Cat#H5659 L-Lysine monohydrochloride Sigma Cat#L8668 L-Serine Sigma Cat#S4311 L-Proline Sigma Cat#P5607 Taurine Sigma Cat#T8691 D-Pantothenic acid hemicalcium salt Sigma Cat#P5155 Critical commercial assays mMESSAGE mMACHINE T7 Ultra Kit Invitrogen Cat#AM1345 GeneArtTM Precision gRNA Synthesis Kit Invitrogen Cat#A29377 LipofectamineTM 3000 Transfection Reagent Invitrogen Cat#L3000008 Guide-it sgRNA Screening Kit Takara Cat#632639 PrimeScriptTM RT reagent Kit with gDNA Eraser Synthesis Kit Takara Cat#RR047Q TOPO TA/Blunt-Zero Vector Vazyme Cat#R050B Discover-sc single cell Kit Vazyme Cat#N601 ClonExpress II One Step Cloning Kit Vazyme Cat#C112-01 TGX Stain-Free FastCast Acrylamide Kit,10% BIO-RAD Cat#161-0183 Easy II Protein Quantitative Kit (BCA) TransGen Biotech Cat#DQ111-01 Wizard Genomic DNA Purification Kit Promega Cat#A1126 Endo-free Plasmid Mini Kit Omega Cat#D6950-02 EasyPure Quick Gel Extraction Kit TransGen Biotech Cat#EG101-02 EasyPure PCR Purification Kit TransGen Biotech Cat#EP101-01 Modified Sirius Red Stain Kit Solarbio Cat#G1472 Deposited data Whole Genome Sequencing and amplicon sequencing NCBI sequence read archive PRJNA1025912 Experimental models: Cell lines African Green Monkey Kidney Cell (COS-7) ATCC Cat#CRL-1651 HEK293T ATCC Cat#CRL-3519 Hela ATCC Cat#CRM-CCL-2 (Continued on next page) e2 Cell Reports Medicine 6, 102037, April 15, 2025 Article ll OPEN ACCESS
Mouse Assay:Article Title: Astrocyte Kir4.1 expression level territorially controls excitatory transmission in the brain.
Article Snippet: .. REAGENT or RESOURCE SOURCE IDENTIFIER Antibodies Rabbit anti-Kir4.1 Proteintech Cat#12503-1-AP; RRID:AB_2234144 Goat anti-Rabbit IgG (H + L) CrossAdsorbed Secondary Antibody, Alexa FluorTM 488 Thermofisher Cat# A-11008; RRID: AB_143165 Bacterial and virus strains AAV9.pZac2.1-gfaABC1Dpromoter> tdTomato:rKcnj10 Vector Builder Cat# VB171121-1235ysj AAV9.pZac2.1-gfaABC1Dpromoter> tdTomato Vector Builder Cat#VB210711-1154wtd AAV9.hSynap.iGluSnFR.WPRE.SV40 Penn Vector Core Cat#Addgene 98929-AAV9 Biological samples C57BL/6 Mice Charles River Laboratories RRID: MGI:2159769 Chemicals, peptides, and recombinant proteins K+ sensor GINKO2 Prof. RE Cambell https://doi.org/10.1371/ journal.pbio.3001772 pBAD-GINKO2, Addgene Cat#177116 Critical commercial assays Oregon GreenTM 488 BAPTA-1, Hexapotassium Salt ThermoFisher Cat#O6806 Cal-590TM, potassium salt Stratech Cat#20518 Oregon GreenTM 488 BAPTA-1, AM ThermoFisher Cat#O6807 Deposited data K+ dynamics simulation model In-house, GitHub depository https://github.com/RusakovLab/ CellReport Experimental models: Organisms/strains C57BL/6 Mice Charles River Laboratories RRID: MGI:2159769 Software and algorithms MES v4.x-v.6.3 Femontics Ltd. RRID:SCR_018309 MESc 3.5.7 Femontics Ltd. https://femtonics.eu/femtosmart-software/ Axon PClamp Molecular Devices RRID:SCR_011323 Fluorescent Imaging Analysis Software (FIMAS) https://github.com/zhengkaiyu/FIMAS RRID:SCR_018311 Spike2 Cambridge Electronic Design RRID:SCR_000903 OriginPro OriginLab Inc. RRID:SCR_014212 ImageJ ImageJ RRID:SCR_003070 Simulation platform BRAINCELL In-house www.neuroalgebra.net Simulation platform ASTRO In-house https://modeldb.science/243508. .. Other Multiclamp 700B Molecular Devices RRID:SCR_018455 Digidata 1550 Molecular Devices Digidata 1550 Femto2D Multiphoton scanning microscope Femontics Ltd. Femto2D Femtosmart microscope Femontics Ltd. Femto2D Leica VT1200S vibrating microtome Leica BioSystems RRID:SCR_020243 Mobile HomeCage Neurotar Cat#NRT000251-06 Cell Reports 44, 115299, February 25, 2025 17
|
Addgene inc is a verified supplier 