Evidence map›Paper›PMID 33522514›Full record

ArticleJournal of visualized experiments : JoVE2021

Building a Simple and Versatile Illumination System for Optogenetic Experiments.

Phillip Kyriakakis, Lourdes Fernandez de Cossio, Patrick Wade Howard, Sivleng Kouv, Marianne Catanho, Vincent J Hu, Robert Kyriakakis, Molly E Allen, Yunhan Ma, Marcelo Aguilar-Rivera and 1 more

Abstract readVideo-Audio Media
In one paragraph

Article in Journal of visualized experiments : JoVE, 2021. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 2 papers.

0numbers the graph read from it
0cells of the map it votes in
2citing papers in PubMed
–field-weighted citation impact
1 · What the graph read from it

What it found

Each row is one number read from the abstract, on the scale the paper reported it, with its interval. Left of the dashed line favours the treatment, right favours the comparator. Under each row is the sentence it came from. New to these charts? A ten-minute tutorial.

The abstract states no effect estimate the extractor could read, or names no intervention and outcome on the map, so this paper lights no cell and moves no belief. It is still indexed, cited and linked below.

2 · The registry

The trial behind it

Trials whose registry record cites this paper, or whose number appears in the abstract. A trial that started after this paper was published is citing it as background, not reporting it.

Neither the registry nor the abstract names a trial number. If this is a trial report, that itself is worth knowing.

3 · Its place in the literature

Who cites it

2 citing papers in PubMed.

  1. Article
  2. Article
4 · The record

Corrections and comments

PubMed lists nothing against this paper. Absence here is not a guarantee, only a check that was made.

5 · Who and what money

Authors and funding

11 authors.

Phillip KyriakakisDepartment of Bioengineering, University of California, San Diego; pkyriaka@ucsd.edu.
Lourdes Fernandez de CossioUniversity of California, San Diego.
Patrick Wade HowardDepartment of Bioengineering, University of California, San Diego.
Sivleng KouvDepartment of Bioengineering, University of California, San Diego.
Marianne CatanhoDepartment of Bioengineering, University of California, San Diego.
Vincent J HuDepartment of Mathematical Computational, and Systems biology, University of California, Irvine.
Robert KyriakakisDepartment of Bioengineering, University of California, San Diego.
Molly E AllenDepartment of Bioengineering, University of California, San Diego.
Yunhan MaDepartment of Biomedical Engineering, Duke University.
Marcelo Aguilar-RiveraDepartment of Bioengineering, University of California, San Diego.
Todd P ColemanDepartment of Bioengineering, University of California, San Diego.

Funding

Ubiquitin-dependent Regulation of AMPA Receptor Trafficking and TurnoverR01NS060847 · NINDS · UNIVERSITY OF CALIFORNIA, SAN DIEGO · PI PATRICK, GENTRY N · 2010 to 2014
$1.8M
Behavioral, Physiological, and Quantitative Models of Pro-Social BehaviorR01MH110514 · NIMH · UNIVERSITY OF CALIFORNIA, SAN DIEGO · PI CHIBA, ANDREA ANGELIDES, COLEMAN, TODD P · 2016 to 2018
$1.4M
A Novel Model System for Restoring Hearing in vivoR21DC018237 · NIDCD · SALK INSTITUTE FOR BIOLOGICAL STUDIES · PI COLEMAN, TODD P, KYRIAKAKIS, PHILLIP · 2020 to 2021
$505k
NIDCD NIH HHS R21 DC018237NIMH NIH HHS R01 MH110514NINDS NIH HHS R01 NS060847
6 · The paper itself

Abstract

Controlling biological processes using light has increased the accuracy and speed with which researchers can manipulate many biological processes. Optical control allows for an unprecedented ability to dissect function and holds the potential for enabling novel genetic therapies. However, optogenetic experiments require adequate light sources with spatial, temporal, or intensity control, often a bottleneck for researchers. Here we detail how to build a low-cost and versatile LED illumination system that is easily customizable for different available optogenetic tools. This system is configurable for manual or computer control with adjustable LED intensity. We provide an illustrated step-by-step guide for building the circuit, making it computer-controlled, and constructing the LEDs. To facilitate the assembly of this device, we also discuss some basic soldering techniques and explain the circuitry used to control the LEDs. Using our open-source user interface, users can automate precise timing and pulsing of light on a personal computer (PC) or an inexpensive tablet. This automation makes the system useful for experiments that use LEDs to control genes, signaling pathways, and other cellular activities that span large time scales. For this protocol, no prior expertise in electronics is required to build all the parts needed or to use the illumination system to perform optogenetic experiments.

Indexed as

LightingElectricityElectronicsEnzyme AssaysGene Expression RegulationHEK293 CellsHumansLightLuciferasesOptogeneticsSoftwareLuciferases

Identifiers

PMID33522514
PMCPMC9119341

What OpenQuestion holds

Textmetadata
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Read underepoch 390

Registered trials

None linked

Read under generation 80e0d062 · epoch 390. Bibliography from PubMed, PubMed Central and OpenAlex; grants from NIH RePORTER; trial links from ClinicalTrials.gov; estimates, votes and beliefs from the OpenQuestion graph.