Addgene (tool)

RRID:SCR_002037

Non-profit plasmid repository dedicated to helping scientists around the world share high-quality plasmids. Facilitates archiving and distributing DNA-based research reagents and associated data to scientists worldwide. Repository contains over 65,000 plasmids, including special collections on CRISPR, fluorescent proteins, and ready-to-use viral preparations. There is no cost for scientists to deposit plasmids, which saves time and money associated with shipping plasmids themselves. All plasmids are fully sequenced for validation and sequencing data is openly available. We handle the appropriate Material Transfer Agreements (MTA) with institutions, facilitating open exchange and offering intellectual property and liability protection for depositing scientists. Furthermore, we curate free educational resources for the scientific community including a blog, eBooks, video protocols, and detailed molecular biology resources.

PRISM (tool)

RRID:SCR_005375

THIS RESOURCE IS NO LONGER IN SERVICE. Documented on May 5,2022.Tool that predicts interactions between transcription factors and their regulated genes from binding motifs. Understanding vertebrate development requires unraveling the cis-regulatory architecture of gene regulation. PRISM provides accurate genome-wide computational predictions of transcription factor binding sites for the human and mouse genomes, and integrates the predictions with GREAT to provide functional biological context. Together, accurate computational binding site prediction and GREAT produce for each transcription factor: 1. putative binding sites, 2. putative target genes, 3. putative biological roles of the transcription factor, and 4. putative cis-regulatory elements through which the factor regulates each target in each functional role.

pClamp (tool)

RRID:SCR_011323

Software suite for electrophysiology data acquisition and analysis by Molecular Devices. Used for the control and recording of voltage clamp, current clamp, and patch clamp experiments. The software suite consists of Clampex 11 Software for data acquisition, AxoScope 11 Software for background recording, Clampfit 11 Software for data analysis, and optional Clampfit Advanced Analysis Module for sophisticated and streamlined analysis.

pAAV-CaMKIIa-eArch 3.0-EYFP (plasmid)

RRID:Addgene_35516

pCS2-Tol1.zf1 (plasmid)

RRID:Addgene_61388

MATLAB (software resource)

RRID:SCR_001622

Multi paradigm numerical computing environment and fourth generation programming language developed by MathWorks. Allows matrix manipulations, plotting of functions and data, implementation of algorithms, creation of user interfaces, and interfacing with programs written in other languages, including C, C++, Java, Fortran and Python. Used to explore and visualize ideas and collaborate across disciplines including signal and image processing, communications, control systems, and computational finance.

pT1UciMP (plasmid)

RRID:Addgene_62215

Python Programming Language (software resource)

RRID:SCR_008394

Programming language for all operating systems that lets users work more quickly and integrate their systems more effectively. Often compared to Tcl, Perl, Ruby, Scheme or Java. Some of its key distinguishing features include very clear and readable syntax, strong introspection capabilities, intuitive object orientation, natural expression of procedural code, full modularity, exception-based error handling, high level dynamic data types, extensive standard libraries and third party modules for virtually every task, extensions and modules easily written in C, C (or Java for Python, or .NET languages for IronPython), and embeddable within applications as a scripting interface.

LabView (software development tool)

RRID:SCR_014325

A development environment for engineers and scientists to visualize, create, and code engineering systems. The system design software is integrated with all measurement hardware and contains signal processing IP. Other features include multithreaded execution, software deployment to hardware, and program integration into a single environment.

GraphPad Prism (software resource)

RRID:SCR_002798

Statistical analysis software that combines scientific graphing, comprehensive curve fitting (nonlinear regression), understandable statistics, and data organization. Designed for biological research applications in pharmacology, physiology, and other biological fields for data analysis, hypothesis testing, and modeling.

pCAG-ChrimsonR-tdT (plasmid)

RRID:Addgene_59169

pAAV-Syn-CoChR-GFP (plasmid)

RRID:Addgene_59070

pAAV-Syn-Chronos-tdTomato (plasmid)

RRID:Addgene_62726

pFUGW-hGtACR2-EYFP (plasmid)

RRID:Addgene_67877

pAAV-Ef1a-DIO eNpHR 3.0-EYFP (plasmid)

RRID:Addgene_26966

pFUGW-hGtACR1-EYFP (plasmid)

RRID:Addgene_67795

DRH313: FCK-CheRiff-eGFP (plasmid)

RRID:Addgene_51693

allele name: mn2Et (organism)

RRID:ZFIN_ZDB-ALT-080625-1

Danio rerio with name allele name: mn2Et from ZFIN.

allele name: icm11Tg (organism)

RRID:ZFIN_ZDB-ALT-150324-2

Danio rerio with name allele name: icm11Tg from ZFIN.

allele name: nkuasgfp1aTg (organism)

RRID:ZFIN_ZDB-ALT-080528-1

Danio rerio with name allele name: nkuasgfp1aTg from ZFIN.

allele name: nkuasgfp1aTg (organism)

RRID:ZFIN_ZDB-ALT-080528-1

Danio rerio with name allele name: nkuasgfp1aTg from ZFIN.

allele name: s1020tEt (organism)

RRID:ZFIN_ZDB-ALT-070420-21

Danio rerio with name allele name: s1020tEt from ZFIN.

allele name: icm23Tg (organism)

RRID:ZFIN_ZDB-ALT-160120-1

Danio rerio with name allele name: icm23Tg from ZFIN.

pAAV-Syn-ChR2(H134R)-GFP (plasmid)

RRID:Addgene_58880