Journal: Neuron

Article Title: Somatosensory Cortex Plays an Essential Role in Forelimb Motor Adaptation in Mice

doi: 10.1016/j.neuron.2017.02.049

Figure Lengend Snippet: EXPERIMENTAL MODEL AND SUBJECT DETAILS

Article Snippet: A subset of mice (n = 2) in this study was first tested in a similar adaptation task (unpublished data) prior to participating in this study (but in no more than 8 sessions). table ft1 table-wrap mode="anchored" t5 REAGENT or RESOURCE SOURCE IDENTIFIER Experimental Models: Organisms/Strains Mouse: C57BL/6J The Jackson Laboratory Jax # 000664 Mouse: B6.Cg-Tg(Slc32a1COP4*H134R/EYFP)8Gfng/J The Jackson Laboratory Jax # 014548 Mouse: B6.SJL- Slc6a3 tm1.1(cre)Bkmn /J The Jackson Laboratory Jax # 006660 Mouse: B6.Cg-Tg(Thy1-YFP)HJrs/J The Jackson Laboratory Jax # 003782 Software and Algorithms MATLAB (versions used: 2012b 2014a) Mathworks http://www.mathworks.com Python Python https://www.python.org/ Prism 5 Graph Pad Software http://www.graphpad.com LabView 2013 National Instruments http://www.ni.com MClust software A. David Redish http://redishlab.neuroscience.umn.edu/MClust/MClust.html Other Isoflurane (for anesthesia) IsoSol Vedco N/A Ketoprofen (for analgesia) Patterson Veterinary Cat #07-803-7389 Buprenorphine Patterson Veterinary Cat #07-850-2280 Dexamethasone Patterson Veterinary Cat #07-808-8194 Joystick base Digi-Key Cat #679-2501-ND Solenoid magnet McMaster-Carr Cat #69905K25 FlexiForce System: ELF 2 System Tekscan Cat # {"type":"entrez-nucleotide","attrs":{"text":"A00675","term_id":"14589"}} A00675 Mouse platform grip: thin rubber McMaster-Carr Cat #8633K52 NI-DAQ card, PCI-e6251 National Instruments Cat # NI PCIe-6251 – 779512-01 Laser for optogenetics: Opto Engine 473 nm −100 mW Opto Engine Cat # MBL-III473/1~100 mW Fine tetrode wire (nichrome) Sandvik Kanthal Cat # PF000591 Digital Lynx 4SX Recording System Neuralynx N/A Open Ephys Acquisition Board and Intan headstage Open Ephys http://www.open-ephys.org/store/starter-kit NeuroNexus 8 shank probe (with tetrode configuration) NeuroNexus N/A Open in a separate window EXPERIMENTAL MODEL AND SUBJECT DETAILS

Techniques: Software, Optogenetics

Journal: The Cochrane Database of Systematic Reviews

Article Title: Laser‐assisted cataract surgery versus standard ultrasound phacoemulsification cataract surgery

doi: 10.1002/14651858.CD010735.pub2

Figure Lengend Snippet: Conrad‐Hengerer 2013

Article Snippet: No masking of participants is described Blinding of outcome assessment (detection bias) All outcomes High risk No masking of the outcome assessment is described Incomplete outcome data (attrition bias) All outcomes Low risk Based on the number of eyes reported in , there was no loss to follow‐up Selective reporting (reporting bias) Unclear risk No access to study protocol or trials registry entry (trial was not registered) Open in a separate window Mastropasqua 2014a table ft1 table-wrap mode="anchored" t5 caption a7 Methods Parallel‐group RCT Participants Number of participants randomised: 90 Number of eyes included: 90 Country: Italy Average age: 69 years Sex: not described Ethnic origin: not described Inclusion criteria: The inclusion criteria were age between 65 years and 75 years, nuclear cataract grade 3 to 4 (nuclear opalescence [NO] 3/4 on Lens Opacities Classification System III), and a corneal endothelial cell count greater than 1200 cells/mm 2 Exclusion criteria: poor pupil dilation, pathology that could alter the anterior segment (e.g. corneal opacities, keratoconus, chronic uveitis, zonular dialysis, pseudoexfoliation syndrome, glaucoma, diabetes), other ocular pathology that can impair visual function, previous anterior or posterior segment surgery, and intraoperative or postoperative complications Interventions Participants were randomised to one of 3 treatments with equal probability for each group: a) laser‐assisted cataract surgery using a Lensx femtosecond laser (Alcon Laboratories Inc); the capsulotomy, lens fragmentation and corneal incisions were performed using the femtosecond laser b) laser‐assisted cataract surgery using a Lensar femtosecond laser (Lensar Inc); the capsulotomy and lens fragmentation were performed using the femtosecond laser c) manual phacoemulsification Outcomes Difference in the distance between the intraocular lens centroid and the pupil centroid 180 days after surgery, visual parameters, refractive parameters, circularity, capsulorhexis area, intraocular lens centroid‐pupil centroid distance, and capsulorhexis centroid‐pupil centroid distance) Notes Funding source not reported Declaration of interest: " No author has a financial or proprietary interest in any material or method mentioned" Date study conducted: not reported Trial registration number: not reported Risk of bias Bias Authors' judgement Support for judgement Random sequence generation (selection bias) Low risk A computer‐generated, 6‐block, 15‐patient randomisation list was generated using an in‐house closed‐source software developed in Matlab 2009b.

Techniques: Sequencing, Selection

Journal: Neuron

Article Title: Corticostriatal flow of action selection bias

doi: 10.1016/j.neuron.2019.09.028

Figure Lengend Snippet: KEY RESOURCES TABLE

Article Snippet: ​ REAGENT or RESOURCE SOURCE IDENTIFIER Bacterial and Virus Strains AAV-DJ-EF1α-DIO-mRuby2-P2A-TVA Lim Lab N/A AAV-DJ-EF1α-DIO-RVG Lim Lab N/A EnvA-RVΔG-eGFP Lim Lab N/A RVΔG-GFP Lim Lab N/A RVΔG-tdTomato Lim Lab N/A CAV-Cre BioCampus N/A AAV1-CAG-tdTomato UPenn Vector Core Addgene: 105554-AAV1 AAV1-CAG-FLEX-tdTomato UPenn Vector Core Addgene: 51503-AAV1 AAV1-CAG-FLEX-eGFP UPenn Vector Core Addgene:51502-AAV1 AAV9-EF1α-DIO-eNpHR3.0-eYFP UPenn Vector Core Addgene: 26966-AAV9 Chemicals, Peptides, and Recombinant Proteins CTB-Alexa-Fluor 594 conjugate Thermo Fisher Cat# {"type":"entrez-nucleotide","attrs":{"text":"C22842","term_id":"2415898","term_text":"C22842"}} C22842 CTB-Alexa-Fluor 488 conjugate Thermo Fisher Cat# {"type":"entrez-nucleotide","attrs":{"text":"C22841","term_id":"2415897","term_text":"C22841"}} C22841 Experimental Models: Organisms/Strains Mouse: wild-type (C57BL/6) Charles River Laboratories Strain Code:027 Mouse: B6.Cg-Gt(ROSA)26Sor tm14(CAG-tdTomato)Hze /J; also known as Rosa26-CAG-LSL-tdTomato The Jackson Laboratory Cat#007914 Mouse: B6.CBA-Tg(Camk2a-tTA)1Mmay/J; also known as Camk2a-tTA The Jackson Laboratory Cat#003010 Mouse: B6.DBA-Tg(tetO-GCaMP6s)2Niell/J; also known as tetO-GCaMP6s The Jackson Laboratory Cat#024742 Software and Algorithms MATLAB v. 2014a & 2019a MathWorks RRID: SCR_001622 ImageJ FIJI Schneider et al., 2012 RRID: SCR_002285 Bootstrap test Stout et al., 1999 N/A Spike-triggered mixture model Theis et al., 2016 https://github.com/lucastheis/c2s Lateral motion correction of calcium images Mitani and Komiyama, 2018 N/A Open in a separate window KEY RESOURCES TABLE PPC neurons projecting to STR (PPC-STR) and pM2 (PPC-pM2) form parallel subsystems.

Techniques: Plasmid Preparation, Recombinant, Software

Journal: Neuron

Article Title: Corticostriatal flow of action selection bias

doi: 10.1016/j.neuron.2019.09.028

Figure Lengend Snippet: KEY RESOURCES TABLE

Article Snippet: ​ REAGENT or RESOURCE SOURCE IDENTIFIER Bacterial and Virus Strains AAV-DJ-EF1α-DIO-mRuby2-P2A-TVA Lim Lab N/A AAV-DJ-EF1α-DIO-RVG Lim Lab N/A EnvA-RVΔG-eGFP Lim Lab N/A RVΔG-GFP Lim Lab N/A RVΔG-tdTomato Lim Lab N/A CAV-Cre BioCampus N/A AAV1-CAG-tdTomato UPenn Vector Core Addgene: 105554-AAV1 AAV1-CAG-FLEX-tdTomato UPenn Vector Core Addgene: 51503-AAV1 AAV1-CAG-FLEX-eGFP UPenn Vector Core Addgene:51502-AAV1 AAV9-EF1α-DIO-eNpHR3.0-eYFP UPenn Vector Core Addgene: 26966-AAV9 Chemicals, Peptides, and Recombinant Proteins CTB-Alexa-Fluor 594 conjugate Thermo Fisher Cat# {"type":"entrez-nucleotide","attrs":{"text":"C22842","term_id":"2415898","term_text":"C22842"}} C22842 CTB-Alexa-Fluor 488 conjugate Thermo Fisher Cat# {"type":"entrez-nucleotide","attrs":{"text":"C22841","term_id":"2415897","term_text":"C22841"}} C22841 Experimental Models: Organisms/Strains Mouse: wild-type (C57BL/6) Charles River Laboratories Strain Code:027 Mouse: B6.Cg-Gt(ROSA)26Sor tm14(CAG-tdTomato)Hze /J; also known as Rosa26-CAG-LSL-tdTomato The Jackson Laboratory Cat#007914 Mouse: B6.CBA-Tg(Camk2a-tTA)1Mmay/J; also known as Camk2a-tTA The Jackson Laboratory Cat#003010 Mouse: B6.DBA-Tg(tetO-GCaMP6s)2Niell/J; also known as tetO-GCaMP6s The Jackson Laboratory Cat#024742 Software and Algorithms MATLAB v. 2014a & 2019a MathWorks RRID: SCR_001622 ImageJ FIJI Schneider et al., 2012 RRID: SCR_002285 Bootstrap test Stout et al., 1999 N/A Spike-triggered mixture model Theis et al., 2016 https://github.com/lucastheis/c2s Lateral motion correction of calcium images Mitani and Komiyama, 2018 N/A Open in a separate window KEY RESOURCES TABLE PPC neurons projecting to STR (PPC-STR) and pM2 (PPC-pM2) form parallel subsystems.

Techniques: Plasmid Preparation, Recombinant, Software

Journal: Neuron

Article Title: Corticostriatal flow of action selection bias

doi: 10.1016/j.neuron.2019.09.028

Figure Lengend Snippet: KEY RESOURCES TABLE

Article Snippet: ​ REAGENT or RESOURCE SOURCE IDENTIFIER Bacterial and Virus Strains AAV-DJ-EF1α-DIO-mRuby2-P2A-TVA Lim Lab N/A AAV-DJ-EF1α-DIO-RVG Lim Lab N/A EnvA-RVΔG-eGFP Lim Lab N/A RVΔG-GFP Lim Lab N/A RVΔG-tdTomato Lim Lab N/A CAV-Cre BioCampus N/A AAV1-CAG-tdTomato UPenn Vector Core Addgene: 105554-AAV1 AAV1-CAG-FLEX-tdTomato UPenn Vector Core Addgene: 51503-AAV1 AAV1-CAG-FLEX-eGFP UPenn Vector Core Addgene:51502-AAV1 AAV9-EF1α-DIO-eNpHR3.0-eYFP UPenn Vector Core Addgene: 26966-AAV9 Chemicals, Peptides, and Recombinant Proteins CTB-Alexa-Fluor 594 conjugate Thermo Fisher Cat# {"type":"entrez-nucleotide","attrs":{"text":"C22842","term_id":"2415898","term_text":"C22842"}} C22842 CTB-Alexa-Fluor 488 conjugate Thermo Fisher Cat# {"type":"entrez-nucleotide","attrs":{"text":"C22841","term_id":"2415897","term_text":"C22841"}} C22841 Experimental Models: Organisms/Strains Mouse: wild-type (C57BL/6) Charles River Laboratories Strain Code:027 Mouse: B6.Cg-Gt(ROSA)26Sor tm14(CAG-tdTomato)Hze /J; also known as Rosa26-CAG-LSL-tdTomato The Jackson Laboratory Cat#007914 Mouse: B6.CBA-Tg(Camk2a-tTA)1Mmay/J; also known as Camk2a-tTA The Jackson Laboratory Cat#003010 Mouse: B6.DBA-Tg(tetO-GCaMP6s)2Niell/J; also known as tetO-GCaMP6s The Jackson Laboratory Cat#024742 Software and Algorithms MATLAB v. 2014a & 2019a MathWorks RRID: SCR_001622 ImageJ FIJI Schneider et al., 2012 RRID: SCR_002285 Bootstrap test Stout et al., 1999 N/A Spike-triggered mixture model Theis et al., 2016 https://github.com/lucastheis/c2s Lateral motion correction of calcium images Mitani and Komiyama, 2018 N/A Open in a separate window KEY RESOURCES TABLE PPC neurons projecting to STR (PPC-STR) and pM2 (PPC-pM2) form parallel subsystems.

Techniques: Plasmid Preparation, Recombinant, Software