Virus:Article Title: Cell-type-specific silence in thalamocortical circuits precedes hippocampal sharp-wave ripples.
Article Snippet: .. REAGENT or RESOURCE SOURCE IDENTIFIER Bacterial and virus strains AAV1-CAG-flex-GCaMP6s.WPRE.SV40 (Chen et al., 2013) Addgene #100842-AAV1 AAV1-CaMKII-GCaMP6f Penn Vector Core plasmids (unpublished) Addgene # 100834-AAV1 AAV2-retro-Syn-EBFP-Cre (Madisen et al., 2015; Tervo et al., 2016) Addgene #51507-AAVrg AAV1-Syn-flex-GCaMP6s (Chen et al., 2013) Addgene #100845-AAV1 AAV1-Syn-GCaMP6s-WPRE-SV40 (Chen et al., 2013) Addgene #100843-AAV1 AA1-Syn-ChrimsonR-tdTomato (Klapoetke et al., 2014) Addgene #59171-AAV1 AAV5-Syn-GFP-Jaws (Chuong et al., 2014) Addgene #65014-AAV5 AAV2-retro-GFP Edward Boyden (unpublished) Addgene #37825-AAVrg Chemicals, peptides, and recombinant proteins NMDG Sigma-Aldrich M2004 KCl VWR 26764.298 NaH2PO4 VWR 28013.264 NaHCO3 VWR 27778.293 HEPES Sigma-Aldrich H3375 D-glucose VWR 101175P CaCl2 VWR 22317.297 MgSO4 VWR 470301 Na-pyruvate Sigma-Aldrich P2256 thiourea Sigma-Aldrich T8656 Na-ascorbate Sigma-Aldrich A7631 K gluconate Sigma-Aldrich P1847 EGTA Sigma-Aldrich E4378 Tetrodotoxin Alomone labs T-550 4-AP Tocirs 0940 Agarose Sigma-Aldrich A6877 NaCl VWR 27810.364 Experimental models: Organisms/strains Mouse: C57Bl/6J Janvier Labs C57BL/6JRj Mouse: Thy1-GCaMP6s GP4.3 The Jackson Laboratory; (Dana et al., 2014) 024275 Mouse: Gad2-IRES-Cre The Jackson Laboratory; (Taniguchi et al., 2011) 010802 Mouse: VIP-IRES-Cre The Jackson Laboratory; (Taniguchi et al., 2011) 010908 Mouse: SOM-IRES-Cre The Jackson Laboratory; (Taniguchi et al., 2011) 018973 Software and algorithms MATLAB Mathworks www.mathworks.com LabView National Instruments www.ni.com ImageJ https://imagej.nih.gov/ij/ V1.51j8 SciScan Scientifica www.scientifica.uk.com/products/ scientifica-sciscan (Continued on next page) Cell Reports 40, 111132, July 26, 2022 e1 ..
Article Title: Encoding the glucose identity by discrete hypothalamic neurons via the gut-brain axis.
Article Snippet: .. REAGENT or RESOURCE SOURCE IDENTIFIER Antibodies Goat polyclonal anti-Fos Santa Cruz Cat# sc-52-g; RRID: AB_2629503 Rabbit anti-CRF Forver Vale Lab, Salk Institute Cat# CRF; RRID: AB_2314231 Rabbit anti-alpha-CGRP Bachem Cat# T-4032; RRID: AB_518147 Donkey anti-Goat IgG (H+L) Cross-Adsorbed Secondary Antibody, Alexa Fluor 647 Thermo Fisher Scientific Cat# A-21447; RRID: AB_2535864 Donkey anti-Rabbit IgG (H+L) Highly Cross-Adsorbed Secondary Antibody, Alexa Fluor 594 Thermo Fisher Scientific Cat# A-21207; RRID: AB_141637 Donkey anti-rabbit IgG (H+L) highly cross-adsorbed secondary antibody, Alexa Fluor 647 Thermo Fisher Scientific Cat# A-31573; RRID: AB_2536183 Anti-NeuN-antibody Millipore Cat# ABN91; RRID: AB_11205760 HA-Tag (C29F4) Rabbit mAb Cell Signaling Technology Cat# 3724; RRID: AB_1549585 Goat anti-Chicken IgY (H+L) Cross-Adsorbed Secondary Antibody, Alexa Fluor 488 Thermo Fisher Scientific Cat# A32931; RRID: AB_2762843 Bacterial and virus strains AAV1-CAG-Flex-GCaMP6s-WPRE-SV40 Gift from Dr. Douglas Kim & GENIE Project Cat# 100835-AAV1; RRID: Addgene_100835 AAV1-CMV-eGFP-Cre-WPRE-SV40 Gift from Dr. James M. Wilson Cat# 105545-AAV1; RRID: Addgene_105545 AAV5-hSyn-hM4D(Gi)-mCherry Gift from Dr. Bryan Roth Cat# 50475-AAV5; RRID: Addgene_50475 AAV1 hSyn FLEx mGFP-2ASynaptophysin-mRuby Gift from Dr. Liqun Luo Cat# 71760-AAV1; RRID: Addgene_71760 AAV2-Ef1a-DIO-ChR2-eYFP Gift from Dr. Karl Deisseroth Cat# 35507-AAV1; RRID: Addgene_35507 AAV5-Ef1a-DIO-eYFP UNC vector core Cat# AAV5-Ef1a-DIO-eYFP AAV2-EF1α-DIO-hM4D(Gi)-mCherry UNC Vector Core Cat# AAV2-EF1α-DIO-hM4D(Gi)-mCherry AAV2-hSyn-DIO-mCherry UNC Vector Core Cat# AAV2-hSyn-DIO-mCherry AAV2-Ef1a-DIO-eArch3.0-eYFP UNC vector core Cat# AAV2-Ef1a-DIO-eArch3.0-eYFP AAV1-DIO-RG Gift from Dr. SeungHee Lee N/A AAV1-DIO-TVA-EGFP Gift from Dr. SeungHee Lee N/A pRV-EnvA-ΔG-tdTomato Gift from Dr. SeungHee Lee N/A AAV2/1-hS-FLEX-TVA-HA-N2cG Kavli Institute for Systems Neuroscience Cat# AAV2/1-hS-FLEX-TVA-HA-N2cG EnvA pseudotyped SADB19 Rb mCherry Kavli Institute for Systems Neuroscience Cat# EnvA pseudotyped SADB19 Rb mCherry EnvA pseudotyped N2cG Rb mCherry Kavli Institute for Systems Neuroscience Cat# EnvA pseudotyped N2cG Rb mCherry Chemicals, peptides, and recombinant proteins D-glucose Sigma Cat# G8270 L-glucose Carbosynth Cat# MG05247 D-fructose Sigma Cat# F0127 Sucrose Sigma Cat# S7903 Sucralose Sigma Cat# 69293 Intralipid Sigma Cat# I141 (Continued on next page) e1 Neuron 113, 1–19.e1–e9, August 20, 2025 .. REAGENT or RESOURCE SOURCE IDENTIFIER Protein Proteinex-18 Proteinex-18 Ensure® Abbott Ensure® original powder D-galactose Sigma Cat# G0750 D-Mannitol Sigma Cat# M4125 Acesulfame K Supelco Cat# 04054 Methyl α-D-glucopyranoside Sigma Cat# 9376 Cholecystokinin octapeptide (sulfated) Bachem Cat#4033010 Peptide Y.Y. (3-36) Tocris Cat# 1618 Liraglutide Tocris Cat# 6517 Amylin Tocris Cat# 3418 Lithium chloride solution Sigma Cat# L7026 Ghrelin(rat) Tocris Cat# 1465 4OH-tamoxifen Sigma Cat# H6278 Clozapine N-oxide (CNO) Sigma Cat# C0832 Dexamethasone sodium phosphate Sigma Cat# PHR1768 TritonTM-X100 Sigma Cat# T8787 DAPI Sigma Cat# D9542 Nissl stain Invitrogen Cat# N21479 Tween® 80 Sigma Cat# P1754 polyglycerol 3-polyglycidyl ether Huntsman Corporation Cat# GE-38 PBS Nalgene Cat# AM9625 sodium carbonate Sigma-Aldrich Cat# S7795 sodium bicarbonate Sigma-Aldrich Cat# S5761 sodium azide Sigma-Aldrich Cat# S2002 PBSN Sigma-Aldrich Cat# P4417 boric acid Sigma-Aldrich Cat# B6768 sodium sulfite Sigma-Aldrich Cat# S0505 sodium dodecyl sulfate Sigma-Aldrich Cat# 75746 sodium hydroxide Sigma-Aldrich Cat# S5881 PES vacuum filter VWR Cat# 10040-440 Triton-X Sigma-Aldrich Cat# T9284 2,2 ′ -Thiodiethanol Sigma-Aldrich Cat# 88561 dimethyl sulfoxide Alfa-Aesar Cat# 36480 Normal donkey serum Abcam Cat# ab7475; RRID: AB_2885042 Fluorescence Mounting Medium Agilent Cat# S3023 Fluoro-Gold Fluorochrome, LLC N/A Silicone Elastomer Sealant Word Precision Instruments Kwik-Cast Ketoprofen Zoetis KETOFEN Enrofloxacin Baytril® N/A Experimental models: Organisms/strains Mouse: Crf-IRES-: B6(Cg)-Crh tm1(cre)Zjh/J The Jackson Laboratory RRID: IMSR_JAX: 012704 Mouse: Crf flox: B Cre 6.129S4(Cg)-Crh tm2.1Maj /J The Jackson Laboratory RRID: IMSR_JAX: 030110 Mouse: ROSA26iDTR: BL/6-Gt (ROSA)26Sor tm1(HBEGF)Awai /J The Jackson Laboratory RRID: IMSR_JAX: 007900 Mouse: Ai14: B6.Cg-Gt(ROSA) 26Sor tm14(CAG-tdTomato)Hze /J The Jackson Laboratory RRID: IMSR_JAX: 007914 (Continued on next page) Neuron 113, 1–19.e1–e9, August 20, 2025 e2
Article Title: Distributional coding of associative learning in discrete populations of midbrain dopamine neurons.
Article Snippet: .. REAGENT or RESOURCE SOURCE IDENTIFIER Antibodies Mouse anti-Tyrosine Hydroxylase Sigma-Aldrich Cat# T2928; RRID:AB_477569 Chicken anti-Tyrosine Hydroxylase Abcam Cat# ab76442; RRID:AB_1524535 Guinea pig anti-Sox6 Michael Wegner; University of Erlangen- Nuremberg; Germany Cat# Wegner_Sox6 gp; RRID:AB_2891329 Rabbit anti-Sox6 Abcam Cat# ab30455; RRID:AB_1143033 Rabbit anti-Aldh1a1 Sigma-Aldrich Cat# HPA002123; RRID:AB_1844722 Goat anti-calbindin D28K (C-20) Santa Cruz Biotechnology Cat# sc-7691; RRID:AB_634520 Mouse anti-calbindin Swant Cat# 300; RRID:AB_10000347 Rabbit anti GFAP Proteintech Cat# 16825-1-AP; RRID:AB_2109646 Bacterial and virus strains AAV1-CAG-flex-GCaMP6f Addgene Addgene #100835; RRID:Addgene_100835 AAV1-CAG-flex-tdTomato Addgene Addgene # 28306-AAV1; RRID:Addgene_28306 Experimental models: Organisms/strains Mouse: DATIREScre(Slc6a3tm1.1(cre)Bkmn) The Jackson Laboratory JAX006660; RRID: IMSR_JAX:006660 Mouse: C57BL/6 Charles River Strain code: 632 Software and algorithms MATLAB 2022b MathWorks https://www.mathworks.com/; RRID:SCR_001622 Spike2 (version 7 and 10) Cambridge Electronic Design https://ced.co.uk/; RRID:SCR_000903 PyPhotometry https://pyphotometry.readthedocs.io/en/ latest/ RRID:SCR_022940 ImageJ, Fiji http://fiji.sc/ RRID:SCR_002285 Stereo Investigator MBF Bioscience http://www.mbfbioscience.com/stereo- investigator; RRID:SCR_002526 ..
Article Title: Adeno-associated viruses for efficient gene expression in the axolotl nervous system
Article Snippet: .. REAGENT or RESOURCE SOURCE IDENTIFIER Antibodies Rabbit anti-RFP Rockland Cat# 600-401-379; RRID: AB_2333092 Rabbit anti-GFP Rockland Cat# 600-401-215; RRID:AB_828167 Mouse anti-GFP Thermo Fisher Scientific Cat# A-11120, RRID:AB_221568 Mouse anti-GFAP-Cy3 Conjugated, Clone G-A-5 Sigma-Aldrich Cat# C9205; RRID: AB_476889 Rabbit anti-Iba1 FUJIFILM Wako Shibayagi Cat# 019-19741, RRID:AB_839504 Goat anti-ChAT Millipore Cat# AB144P, RRID:AB_2079751 Mouse anti-Pax6 Homemade published in62 Donkey anti-mouse Alexa 488 Thermo Fisher Scientific Cat# A-21202; RRID: AB_141607 Donkey anti-mouse Alexa 568 Thermo Fisher Scientific Cat# A-10037; RRID: AB_2534013 Donkey anti-rabbit Alexa 568 Thermo Fisher Scientific Cat# A-10042; RRID: AB_2534017 Donkey anti-mouse Alexa 647 Thermo Fisher Scientific Cat# A-5 31571; RRID: AB_162542 Donkey anti-rabbit Alexa 647 Thermo Fisher Scientific Cat# A-31573; RRID: AB_2536183 Bacterial and virus strains AAV1-CAG:GFP Addgene Cat# 37825-AAV1 AAV2-CAG:GFP Addgene Cat# 37825-AAV2 AAV5-CAG:GFP Addgene Cat# 37825-AAV5 AAV8-CAG:GFP Addgene Cat# 37825-AAV8 AAV9-CAG:GFP Addgene Cat# 37825-AAV9 AAVRG-CAG:GFP Addgene Cat# 37825-AAVrg AAVPHP.eB-CAG:GFP Addgene Cat# 37825-AAVPHP.eB AAV9-CAG:tdTomato Addgene Cat# 59462-AAV9 AAVRG-CAG:tdTomato Addgene Cat# 59462-AAVrg AAV8-hSyn:GFP Addgene Cat# 50465-AAV8 AAV8-CamKIIa:GFP Addgene Cat# 50469-AAV8 Chemicals, peptides, and recombinant proteins .. DAPI Sigma-Aldrich Cat# D9542 DMSO Sigma-Aldrich Cat# D2650 Benzocaine Sigma-Aldrich Cat# E150 H2O2 Sigma-Aldrich Cat# H1009 KOH Sigma-Aldrich Cat# 105033 N,N,N’,N’-tetrakis Sigma-Aldrich Cat# 122262 Triton X-100 Sigma-Aldrich Cat# X100 N-butyldiethanolamine Sigma-Aldrich Cat# 471240 Urea Sigma-Aldrich Cat# U5128 Antipyrine Sigma-Aldrich Cat# A5882 Nicotinamide Sigma-Aldrich Cat# N3376 FastGreen FCF Merck Cat# F7258 OCT compound Science Services Cat# 62550-12 Critical commercial assays HCR Hybridization Buffer Molecular Instruments N/A HCR Amplification Buffer Molecular Instruments N/A HCR Amplifiers Molecular Instruments N/A Experimental models: Organisms/strains Ambystoma mexicanum: d/d IMP N/A Oligonucleotides oligo pool HCR probe for Gad2 IDT published in3 oligo pool HCR probe for Slc17a7 IDT published in3 oligo pool HCR probe for AAV IDT Probe sequence in Table S2.
Article Title: Neural dynamics in the limbic system during male social behaviors.
Article Snippet: .. REAGENT or RESOURCE SOURCE IDENTIFIER Bacterial and virus strains AAV1-CAG-Flex-GCaMP6f-WPRE.SV40 Chen et al.91 Addgene #100835-AAV1 AAV2-CAG-FLEX-GCaMP6f-WPRE.SV40 Chen et al.91 Vigene Biosciences, Custom Experimental models: Organisms/strains Esr1-Cre mice Lee et al.6 Jackson lab, Strain No. 017911; RRID:IMSR_JAX:017911 Deposited data Multi-fiber recording dataset This study https://doi.org/10.5281/zenodo.8128564 Software and algorithms MATLAB R2021a MathWorks https://www.mathworks.com/products/ matlab.html; RRID:SCR_001622 Prism 9 GraphPad Software https://www.graphpad.com/scientific-software/ prism/; RRID:SCR_002798 StreamPix 5 NorPix https://www.norpix.com/products/streampix/ streampix.php; RRID:SCR_015773 Body tracking code Lin et al.8 https://github.com/pdollar/toolbox DeepLabCut Mathis et al.92 https://github.com/DeepLabCut/DeepLabCut RRID:SCR_021391 MFP analysis code This study https://doi.org/10.5281/zenodo.8128564 ..
Recombinant:Article Title: Cell-type-specific silence in thalamocortical circuits precedes hippocampal sharp-wave ripples.
Article Snippet: .. REAGENT or RESOURCE SOURCE IDENTIFIER Bacterial and virus strains AAV1-CAG-flex-GCaMP6s.WPRE.SV40 (Chen et al., 2013) Addgene #100842-AAV1 AAV1-CaMKII-GCaMP6f Penn Vector Core plasmids (unpublished) Addgene # 100834-AAV1 AAV2-retro-Syn-EBFP-Cre (Madisen et al., 2015; Tervo et al., 2016) Addgene #51507-AAVrg AAV1-Syn-flex-GCaMP6s (Chen et al., 2013) Addgene #100845-AAV1 AAV1-Syn-GCaMP6s-WPRE-SV40 (Chen et al., 2013) Addgene #100843-AAV1 AA1-Syn-ChrimsonR-tdTomato (Klapoetke et al., 2014) Addgene #59171-AAV1 AAV5-Syn-GFP-Jaws (Chuong et al., 2014) Addgene #65014-AAV5 AAV2-retro-GFP Edward Boyden (unpublished) Addgene #37825-AAVrg Chemicals, peptides, and recombinant proteins NMDG Sigma-Aldrich M2004 KCl VWR 26764.298 NaH2PO4 VWR 28013.264 NaHCO3 VWR 27778.293 HEPES Sigma-Aldrich H3375 D-glucose VWR 101175P CaCl2 VWR 22317.297 MgSO4 VWR 470301 Na-pyruvate Sigma-Aldrich P2256 thiourea Sigma-Aldrich T8656 Na-ascorbate Sigma-Aldrich A7631 K gluconate Sigma-Aldrich P1847 EGTA Sigma-Aldrich E4378 Tetrodotoxin Alomone labs T-550 4-AP Tocirs 0940 Agarose Sigma-Aldrich A6877 NaCl VWR 27810.364 Experimental models: Organisms/strains Mouse: C57Bl/6J Janvier Labs C57BL/6JRj Mouse: Thy1-GCaMP6s GP4.3 The Jackson Laboratory; (Dana et al., 2014) 024275 Mouse: Gad2-IRES-Cre The Jackson Laboratory; (Taniguchi et al., 2011) 010802 Mouse: VIP-IRES-Cre The Jackson Laboratory; (Taniguchi et al., 2011) 010908 Mouse: SOM-IRES-Cre The Jackson Laboratory; (Taniguchi et al., 2011) 018973 Software and algorithms MATLAB Mathworks www.mathworks.com LabView National Instruments www.ni.com ImageJ https://imagej.nih.gov/ij/ V1.51j8 SciScan Scientifica www.scientifica.uk.com/products/ scientifica-sciscan (Continued on next page) Cell Reports 40, 111132, July 26, 2022 e1 ..
Article Title: Encoding the glucose identity by discrete hypothalamic neurons via the gut-brain axis.
Article Snippet: .. REAGENT or RESOURCE SOURCE IDENTIFIER Antibodies Goat polyclonal anti-Fos Santa Cruz Cat# sc-52-g; RRID: AB_2629503 Rabbit anti-CRF Forver Vale Lab, Salk Institute Cat# CRF; RRID: AB_2314231 Rabbit anti-alpha-CGRP Bachem Cat# T-4032; RRID: AB_518147 Donkey anti-Goat IgG (H+L) Cross-Adsorbed Secondary Antibody, Alexa Fluor 647 Thermo Fisher Scientific Cat# A-21447; RRID: AB_2535864 Donkey anti-Rabbit IgG (H+L) Highly Cross-Adsorbed Secondary Antibody, Alexa Fluor 594 Thermo Fisher Scientific Cat# A-21207; RRID: AB_141637 Donkey anti-rabbit IgG (H+L) highly cross-adsorbed secondary antibody, Alexa Fluor 647 Thermo Fisher Scientific Cat# A-31573; RRID: AB_2536183 Anti-NeuN-antibody Millipore Cat# ABN91; RRID: AB_11205760 HA-Tag (C29F4) Rabbit mAb Cell Signaling Technology Cat# 3724; RRID: AB_1549585 Goat anti-Chicken IgY (H+L) Cross-Adsorbed Secondary Antibody, Alexa Fluor 488 Thermo Fisher Scientific Cat# A32931; RRID: AB_2762843 Bacterial and virus strains AAV1-CAG-Flex-GCaMP6s-WPRE-SV40 Gift from Dr. Douglas Kim & GENIE Project Cat# 100835-AAV1; RRID: Addgene_100835 AAV1-CMV-eGFP-Cre-WPRE-SV40 Gift from Dr. James M. Wilson Cat# 105545-AAV1; RRID: Addgene_105545 AAV5-hSyn-hM4D(Gi)-mCherry Gift from Dr. Bryan Roth Cat# 50475-AAV5; RRID: Addgene_50475 AAV1 hSyn FLEx mGFP-2ASynaptophysin-mRuby Gift from Dr. Liqun Luo Cat# 71760-AAV1; RRID: Addgene_71760 AAV2-Ef1a-DIO-ChR2-eYFP Gift from Dr. Karl Deisseroth Cat# 35507-AAV1; RRID: Addgene_35507 AAV5-Ef1a-DIO-eYFP UNC vector core Cat# AAV5-Ef1a-DIO-eYFP AAV2-EF1α-DIO-hM4D(Gi)-mCherry UNC Vector Core Cat# AAV2-EF1α-DIO-hM4D(Gi)-mCherry AAV2-hSyn-DIO-mCherry UNC Vector Core Cat# AAV2-hSyn-DIO-mCherry AAV2-Ef1a-DIO-eArch3.0-eYFP UNC vector core Cat# AAV2-Ef1a-DIO-eArch3.0-eYFP AAV1-DIO-RG Gift from Dr. SeungHee Lee N/A AAV1-DIO-TVA-EGFP Gift from Dr. SeungHee Lee N/A pRV-EnvA-ΔG-tdTomato Gift from Dr. SeungHee Lee N/A AAV2/1-hS-FLEX-TVA-HA-N2cG Kavli Institute for Systems Neuroscience Cat# AAV2/1-hS-FLEX-TVA-HA-N2cG EnvA pseudotyped SADB19 Rb mCherry Kavli Institute for Systems Neuroscience Cat# EnvA pseudotyped SADB19 Rb mCherry EnvA pseudotyped N2cG Rb mCherry Kavli Institute for Systems Neuroscience Cat# EnvA pseudotyped N2cG Rb mCherry Chemicals, peptides, and recombinant proteins D-glucose Sigma Cat# G8270 L-glucose Carbosynth Cat# MG05247 D-fructose Sigma Cat# F0127 Sucrose Sigma Cat# S7903 Sucralose Sigma Cat# 69293 Intralipid Sigma Cat# I141 (Continued on next page) e1 Neuron 113, 1–19.e1–e9, August 20, 2025 .. REAGENT or RESOURCE SOURCE IDENTIFIER Protein Proteinex-18 Proteinex-18 Ensure® Abbott Ensure® original powder D-galactose Sigma Cat# G0750 D-Mannitol Sigma Cat# M4125 Acesulfame K Supelco Cat# 04054 Methyl α-D-glucopyranoside Sigma Cat# 9376 Cholecystokinin octapeptide (sulfated) Bachem Cat#4033010 Peptide Y.Y. (3-36) Tocris Cat# 1618 Liraglutide Tocris Cat# 6517 Amylin Tocris Cat# 3418 Lithium chloride solution Sigma Cat# L7026 Ghrelin(rat) Tocris Cat# 1465 4OH-tamoxifen Sigma Cat# H6278 Clozapine N-oxide (CNO) Sigma Cat# C0832 Dexamethasone sodium phosphate Sigma Cat# PHR1768 TritonTM-X100 Sigma Cat# T8787 DAPI Sigma Cat# D9542 Nissl stain Invitrogen Cat# N21479 Tween® 80 Sigma Cat# P1754 polyglycerol 3-polyglycidyl ether Huntsman Corporation Cat# GE-38 PBS Nalgene Cat# AM9625 sodium carbonate Sigma-Aldrich Cat# S7795 sodium bicarbonate Sigma-Aldrich Cat# S5761 sodium azide Sigma-Aldrich Cat# S2002 PBSN Sigma-Aldrich Cat# P4417 boric acid Sigma-Aldrich Cat# B6768 sodium sulfite Sigma-Aldrich Cat# S0505 sodium dodecyl sulfate Sigma-Aldrich Cat# 75746 sodium hydroxide Sigma-Aldrich Cat# S5881 PES vacuum filter VWR Cat# 10040-440 Triton-X Sigma-Aldrich Cat# T9284 2,2 ′ -Thiodiethanol Sigma-Aldrich Cat# 88561 dimethyl sulfoxide Alfa-Aesar Cat# 36480 Normal donkey serum Abcam Cat# ab7475; RRID: AB_2885042 Fluorescence Mounting Medium Agilent Cat# S3023 Fluoro-Gold Fluorochrome, LLC N/A Silicone Elastomer Sealant Word Precision Instruments Kwik-Cast Ketoprofen Zoetis KETOFEN Enrofloxacin Baytril® N/A Experimental models: Organisms/strains Mouse: Crf-IRES-: B6(Cg)-Crh tm1(cre)Zjh/J The Jackson Laboratory RRID: IMSR_JAX: 012704 Mouse: Crf flox: B Cre 6.129S4(Cg)-Crh tm2.1Maj /J The Jackson Laboratory RRID: IMSR_JAX: 030110 Mouse: ROSA26iDTR: BL/6-Gt (ROSA)26Sor tm1(HBEGF)Awai /J The Jackson Laboratory RRID: IMSR_JAX: 007900 Mouse: Ai14: B6.Cg-Gt(ROSA) 26Sor tm14(CAG-tdTomato)Hze /J The Jackson Laboratory RRID: IMSR_JAX: 007914 (Continued on next page) Neuron 113, 1–19.e1–e9, August 20, 2025 e2
Article Title: Adeno-associated viruses for efficient gene expression in the axolotl nervous system
Article Snippet: .. REAGENT or RESOURCE SOURCE IDENTIFIER Antibodies Rabbit anti-RFP Rockland Cat# 600-401-379; RRID: AB_2333092 Rabbit anti-GFP Rockland Cat# 600-401-215; RRID:AB_828167 Mouse anti-GFP Thermo Fisher Scientific Cat# A-11120, RRID:AB_221568 Mouse anti-GFAP-Cy3 Conjugated, Clone G-A-5 Sigma-Aldrich Cat# C9205; RRID: AB_476889 Rabbit anti-Iba1 FUJIFILM Wako Shibayagi Cat# 019-19741, RRID:AB_839504 Goat anti-ChAT Millipore Cat# AB144P, RRID:AB_2079751 Mouse anti-Pax6 Homemade published in62 Donkey anti-mouse Alexa 488 Thermo Fisher Scientific Cat# A-21202; RRID: AB_141607 Donkey anti-mouse Alexa 568 Thermo Fisher Scientific Cat# A-10037; RRID: AB_2534013 Donkey anti-rabbit Alexa 568 Thermo Fisher Scientific Cat# A-10042; RRID: AB_2534017 Donkey anti-mouse Alexa 647 Thermo Fisher Scientific Cat# A-5 31571; RRID: AB_162542 Donkey anti-rabbit Alexa 647 Thermo Fisher Scientific Cat# A-31573; RRID: AB_2536183 Bacterial and virus strains AAV1-CAG:GFP Addgene Cat# 37825-AAV1 AAV2-CAG:GFP Addgene Cat# 37825-AAV2 AAV5-CAG:GFP Addgene Cat# 37825-AAV5 AAV8-CAG:GFP Addgene Cat# 37825-AAV8 AAV9-CAG:GFP Addgene Cat# 37825-AAV9 AAVRG-CAG:GFP Addgene Cat# 37825-AAVrg AAVPHP.eB-CAG:GFP Addgene Cat# 37825-AAVPHP.eB AAV9-CAG:tdTomato Addgene Cat# 59462-AAV9 AAVRG-CAG:tdTomato Addgene Cat# 59462-AAVrg AAV8-hSyn:GFP Addgene Cat# 50465-AAV8 AAV8-CamKIIa:GFP Addgene Cat# 50469-AAV8 Chemicals, peptides, and recombinant proteins .. DAPI Sigma-Aldrich Cat# D9542 DMSO Sigma-Aldrich Cat# D2650 Benzocaine Sigma-Aldrich Cat# E150 H2O2 Sigma-Aldrich Cat# H1009 KOH Sigma-Aldrich Cat# 105033 N,N,N’,N’-tetrakis Sigma-Aldrich Cat# 122262 Triton X-100 Sigma-Aldrich Cat# X100 N-butyldiethanolamine Sigma-Aldrich Cat# 471240 Urea Sigma-Aldrich Cat# U5128 Antipyrine Sigma-Aldrich Cat# A5882 Nicotinamide Sigma-Aldrich Cat# N3376 FastGreen FCF Merck Cat# F7258 OCT compound Science Services Cat# 62550-12 Critical commercial assays HCR Hybridization Buffer Molecular Instruments N/A HCR Amplification Buffer Molecular Instruments N/A HCR Amplifiers Molecular Instruments N/A Experimental models: Organisms/strains Ambystoma mexicanum: d/d IMP N/A Oligonucleotides oligo pool HCR probe for Gad2 IDT published in3 oligo pool HCR probe for Slc17a7 IDT published in3 oligo pool HCR probe for AAV IDT Probe sequence in Table S2.
Software:Article Title: Cell-type-specific silence in thalamocortical circuits precedes hippocampal sharp-wave ripples.
Article Snippet: .. REAGENT or RESOURCE SOURCE IDENTIFIER Bacterial and virus strains AAV1-CAG-flex-GCaMP6s.WPRE.SV40 (Chen et al., 2013) Addgene #100842-AAV1 AAV1-CaMKII-GCaMP6f Penn Vector Core plasmids (unpublished) Addgene # 100834-AAV1 AAV2-retro-Syn-EBFP-Cre (Madisen et al., 2015; Tervo et al., 2016) Addgene #51507-AAVrg AAV1-Syn-flex-GCaMP6s (Chen et al., 2013) Addgene #100845-AAV1 AAV1-Syn-GCaMP6s-WPRE-SV40 (Chen et al., 2013) Addgene #100843-AAV1 AA1-Syn-ChrimsonR-tdTomato (Klapoetke et al., 2014) Addgene #59171-AAV1 AAV5-Syn-GFP-Jaws (Chuong et al., 2014) Addgene #65014-AAV5 AAV2-retro-GFP Edward Boyden (unpublished) Addgene #37825-AAVrg Chemicals, peptides, and recombinant proteins NMDG Sigma-Aldrich M2004 KCl VWR 26764.298 NaH2PO4 VWR 28013.264 NaHCO3 VWR 27778.293 HEPES Sigma-Aldrich H3375 D-glucose VWR 101175P CaCl2 VWR 22317.297 MgSO4 VWR 470301 Na-pyruvate Sigma-Aldrich P2256 thiourea Sigma-Aldrich T8656 Na-ascorbate Sigma-Aldrich A7631 K gluconate Sigma-Aldrich P1847 EGTA Sigma-Aldrich E4378 Tetrodotoxin Alomone labs T-550 4-AP Tocirs 0940 Agarose Sigma-Aldrich A6877 NaCl VWR 27810.364 Experimental models: Organisms/strains Mouse: C57Bl/6J Janvier Labs C57BL/6JRj Mouse: Thy1-GCaMP6s GP4.3 The Jackson Laboratory; (Dana et al., 2014) 024275 Mouse: Gad2-IRES-Cre The Jackson Laboratory; (Taniguchi et al., 2011) 010802 Mouse: VIP-IRES-Cre The Jackson Laboratory; (Taniguchi et al., 2011) 010908 Mouse: SOM-IRES-Cre The Jackson Laboratory; (Taniguchi et al., 2011) 018973 Software and algorithms MATLAB Mathworks www.mathworks.com LabView National Instruments www.ni.com ImageJ https://imagej.nih.gov/ij/ V1.51j8 SciScan Scientifica www.scientifica.uk.com/products/ scientifica-sciscan (Continued on next page) Cell Reports 40, 111132, July 26, 2022 e1 ..
Article Title: Distributional coding of associative learning in discrete populations of midbrain dopamine neurons.
Article Snippet: .. REAGENT or RESOURCE SOURCE IDENTIFIER Antibodies Mouse anti-Tyrosine Hydroxylase Sigma-Aldrich Cat# T2928; RRID:AB_477569 Chicken anti-Tyrosine Hydroxylase Abcam Cat# ab76442; RRID:AB_1524535 Guinea pig anti-Sox6 Michael Wegner; University of Erlangen- Nuremberg; Germany Cat# Wegner_Sox6 gp; RRID:AB_2891329 Rabbit anti-Sox6 Abcam Cat# ab30455; RRID:AB_1143033 Rabbit anti-Aldh1a1 Sigma-Aldrich Cat# HPA002123; RRID:AB_1844722 Goat anti-calbindin D28K (C-20) Santa Cruz Biotechnology Cat# sc-7691; RRID:AB_634520 Mouse anti-calbindin Swant Cat# 300; RRID:AB_10000347 Rabbit anti GFAP Proteintech Cat# 16825-1-AP; RRID:AB_2109646 Bacterial and virus strains AAV1-CAG-flex-GCaMP6f Addgene Addgene #100835; RRID:Addgene_100835 AAV1-CAG-flex-tdTomato Addgene Addgene # 28306-AAV1; RRID:Addgene_28306 Experimental models: Organisms/strains Mouse: DATIREScre(Slc6a3tm1.1(cre)Bkmn) The Jackson Laboratory JAX006660; RRID: IMSR_JAX:006660 Mouse: C57BL/6 Charles River Strain code: 632 Software and algorithms MATLAB 2022b MathWorks https://www.mathworks.com/; RRID:SCR_001622 Spike2 (version 7 and 10) Cambridge Electronic Design https://ced.co.uk/; RRID:SCR_000903 PyPhotometry https://pyphotometry.readthedocs.io/en/ latest/ RRID:SCR_022940 ImageJ, Fiji http://fiji.sc/ RRID:SCR_002285 Stereo Investigator MBF Bioscience http://www.mbfbioscience.com/stereo- investigator; RRID:SCR_002526 ..
Article Title: Neural dynamics in the limbic system during male social behaviors.
Article Snippet: .. REAGENT or RESOURCE SOURCE IDENTIFIER Bacterial and virus strains AAV1-CAG-Flex-GCaMP6f-WPRE.SV40 Chen et al.91 Addgene #100835-AAV1 AAV2-CAG-FLEX-GCaMP6f-WPRE.SV40 Chen et al.91 Vigene Biosciences, Custom Experimental models: Organisms/strains Esr1-Cre mice Lee et al.6 Jackson lab, Strain No. 017911; RRID:IMSR_JAX:017911 Deposited data Multi-fiber recording dataset This study https://doi.org/10.5281/zenodo.8128564 Software and algorithms MATLAB R2021a MathWorks https://www.mathworks.com/products/ matlab.html; RRID:SCR_001622 Prism 9 GraphPad Software https://www.graphpad.com/scientific-software/ prism/; RRID:SCR_002798 StreamPix 5 NorPix https://www.norpix.com/products/streampix/ streampix.php; RRID:SCR_015773 Body tracking code Lin et al.8 https://github.com/pdollar/toolbox DeepLabCut Mathis et al.92 https://github.com/DeepLabCut/DeepLabCut RRID:SCR_021391 MFP analysis code This study https://doi.org/10.5281/zenodo.8128564 ..
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