Source 1primary paper2018Biochemistry
Toolkit/open-source microplate reader
open-source microplate reader
Also known as: open-source plate reader
Taxonomy: Technique Branch / Method. Workflows sit above the mechanism and technique branches rather than replacing them.
Summary
The open-source microplate reader is a low-cost, open-source assay platform for automated plate-based measurements. It was designed, constructed, validated, and benchmarked to support full-spectrum absorbance detection, fluorescence emission detection, in situ optogenetic stimulation, and stand-alone touch screen programming of assay protocols.
Usefulness & Problems
Why this is useful
This platform is useful because it combines standard microplate readouts with in situ light delivery for optogenetic experiments in a single automated instrument. The source literature also demonstrates its use for steady-state reporter measurements in bacterial quorum sensing and for flavin photocycling kinetics of a LOV-domain photoreceptor used in optogenetic transcriptional activation.
Source:
Functional capabilities were demonstrated in context of synthetic biology, optogenetics, and photosensory biology: by steady-state measurements of ligand-induced reporter gene expression in a model of bacterial quorum sensing, and by flavin photocycling kinetic measurements of a LOV (light-oxygen-voltage) domain photoreceptor used for optogenetic transcriptional activation.
Source:
The system features full-spectrum absorbance and fluorescence emission detection, in situ optogenetic stimulation, and stand-alone touch screen programming of automated assay protocols.
Source:
we here report the design, construction, validation, and benchmarking of an open-source microplate reader
Problem solved
It addresses the need for a low-cost, open-source microplate reader that can perform automated absorbance and fluorescence assays while also delivering optogenetic stimulation. The reported demonstrations indicate that it supports both conventional reporter-gene measurements and photoreceptor kinetic measurements within plate-based workflows.
Source:
Functional capabilities were demonstrated in context of synthetic biology, optogenetics, and photosensory biology: by steady-state measurements of ligand-induced reporter gene expression in a model of bacterial quorum sensing, and by flavin photocycling kinetic measurements of a LOV (light-oxygen-voltage) domain photoreceptor used for optogenetic transcriptional activation.
Problem links
Need better screening or enrichment leverage
DerivedThe open-source microplate reader is a low-cost, open-source assay platform for automated plate-based measurements. It was designed, constructed, validated, and benchmarked to support full-spectrum absorbance detection, fluorescence emission detection, in situ optogenetic stimulation, and stand-alone touch screen programming of assay protocols.
Need conditional recombination or state switching
DerivedThe open-source microplate reader is a low-cost, open-source assay platform for automated plate-based measurements. It was designed, constructed, validated, and benchmarked to support full-spectrum absorbance detection, fluorescence emission detection, in situ optogenetic stimulation, and stand-alone touch screen programming of assay protocols.
Need precise spatiotemporal control with light input
DerivedThe open-source microplate reader is a low-cost, open-source assay platform for automated plate-based measurements. It was designed, constructed, validated, and benchmarked to support full-spectrum absorbance detection, fluorescence emission detection, in situ optogenetic stimulation, and stand-alone touch screen programming of assay protocols.
Need tighter control over gene expression timing or amplitude
DerivedThe open-source microplate reader is a low-cost, open-source assay platform for automated plate-based measurements. It was designed, constructed, validated, and benchmarked to support full-spectrum absorbance detection, fluorescence emission detection, in situ optogenetic stimulation, and stand-alone touch screen programming of assay protocols.
Taxonomy & Function
Primary hierarchy
Technique Branch
Method: A concrete measurement method used to characterize an engineered system.
Mechanisms
absorbance measurementflavin photocycling measurementfluorescence emission detectionoptogenetic light stimulationTarget processes
recombinationselectiontranscriptionInput: Light
Implementation Constraints
cofactor dependency: cofactor requirement unknownencoding mode: genetically encodedimplementation constraint: context specific validationimplementation constraint: spectral hardware requirementoperating role: sensor
The platform includes stand-alone touch screen programming for automated assay protocols and supports in situ optical stimulation during plate measurements. The evidence specifically mentions use in bacterial reporter assays and in kinetic measurements of a LOV-domain photoreceptor, but it does not provide further construct, hardware, or calibration details here.
The provided evidence does not report quantitative performance metrics such as sensitivity, dynamic range, throughput, or wavelength-specific limits. Independent replication is not described in the supplied evidence, and validation examples appear limited to the applications reported in the original study.
Validation
Cell-freeBacteriaMammalianMouseHumanTherapeuticIndep. Replication
Supporting Sources
Ranked Claims
The open-source microplate reader was functionally demonstrated by steady-state measurements of ligand-induced reporter gene expression in a model of bacterial quorum sensing and by flavin photocycling kinetic measurements of a LOV domain photoreceptor used for optogenetic transcriptional activation.
Functional capabilities were demonstrated in context of synthetic biology, optogenetics, and photosensory biology: by steady-state measurements of ligand-induced reporter gene expression in a model of bacterial quorum sensing, and by flavin photocycling kinetic measurements of a LOV (light-oxygen-voltage) domain photoreceptor used for optogenetic transcriptional activation.
The open-source microplate reader was functionally demonstrated by steady-state measurements of ligand-induced reporter gene expression in a model of bacterial quorum sensing and by flavin photocycling kinetic measurements of a LOV domain photoreceptor used for optogenetic transcriptional activation.
Functional capabilities were demonstrated in context of synthetic biology, optogenetics, and photosensory biology: by steady-state measurements of ligand-induced reporter gene expression in a model of bacterial quorum sensing, and by flavin photocycling kinetic measurements of a LOV (light-oxygen-voltage) domain photoreceptor used for optogenetic transcriptional activation.
The open-source microplate reader was functionally demonstrated by steady-state measurements of ligand-induced reporter gene expression in a model of bacterial quorum sensing and by flavin photocycling kinetic measurements of a LOV domain photoreceptor used for optogenetic transcriptional activation.
Functional capabilities were demonstrated in context of synthetic biology, optogenetics, and photosensory biology: by steady-state measurements of ligand-induced reporter gene expression in a model of bacterial quorum sensing, and by flavin photocycling kinetic measurements of a LOV (light-oxygen-voltage) domain photoreceptor used for optogenetic transcriptional activation.
The open-source microplate reader was functionally demonstrated by steady-state measurements of ligand-induced reporter gene expression in a model of bacterial quorum sensing and by flavin photocycling kinetic measurements of a LOV domain photoreceptor used for optogenetic transcriptional activation.
Functional capabilities were demonstrated in context of synthetic biology, optogenetics, and photosensory biology: by steady-state measurements of ligand-induced reporter gene expression in a model of bacterial quorum sensing, and by flavin photocycling kinetic measurements of a LOV (light-oxygen-voltage) domain photoreceptor used for optogenetic transcriptional activation.
The open-source microplate reader was functionally demonstrated by steady-state measurements of ligand-induced reporter gene expression in a model of bacterial quorum sensing and by flavin photocycling kinetic measurements of a LOV domain photoreceptor used for optogenetic transcriptional activation.
Functional capabilities were demonstrated in context of synthetic biology, optogenetics, and photosensory biology: by steady-state measurements of ligand-induced reporter gene expression in a model of bacterial quorum sensing, and by flavin photocycling kinetic measurements of a LOV (light-oxygen-voltage) domain photoreceptor used for optogenetic transcriptional activation.
The open-source microplate reader was functionally demonstrated by steady-state measurements of ligand-induced reporter gene expression in a model of bacterial quorum sensing and by flavin photocycling kinetic measurements of a LOV domain photoreceptor used for optogenetic transcriptional activation.
Functional capabilities were demonstrated in context of synthetic biology, optogenetics, and photosensory biology: by steady-state measurements of ligand-induced reporter gene expression in a model of bacterial quorum sensing, and by flavin photocycling kinetic measurements of a LOV (light-oxygen-voltage) domain photoreceptor used for optogenetic transcriptional activation.
The open-source microplate reader was functionally demonstrated by steady-state measurements of ligand-induced reporter gene expression in a model of bacterial quorum sensing and by flavin photocycling kinetic measurements of a LOV domain photoreceptor used for optogenetic transcriptional activation.
Functional capabilities were demonstrated in context of synthetic biology, optogenetics, and photosensory biology: by steady-state measurements of ligand-induced reporter gene expression in a model of bacterial quorum sensing, and by flavin photocycling kinetic measurements of a LOV (light-oxygen-voltage) domain photoreceptor used for optogenetic transcriptional activation.
The open-source microplate reader features full-spectrum absorbance detection, fluorescence emission detection, in situ optogenetic stimulation, and stand-alone touch screen programming of automated assay protocols.
The system features full-spectrum absorbance and fluorescence emission detection, in situ optogenetic stimulation, and stand-alone touch screen programming of automated assay protocols.
The open-source microplate reader features full-spectrum absorbance detection, fluorescence emission detection, in situ optogenetic stimulation, and stand-alone touch screen programming of automated assay protocols.
The system features full-spectrum absorbance and fluorescence emission detection, in situ optogenetic stimulation, and stand-alone touch screen programming of automated assay protocols.
The open-source microplate reader features full-spectrum absorbance detection, fluorescence emission detection, in situ optogenetic stimulation, and stand-alone touch screen programming of automated assay protocols.
The system features full-spectrum absorbance and fluorescence emission detection, in situ optogenetic stimulation, and stand-alone touch screen programming of automated assay protocols.
The open-source microplate reader features full-spectrum absorbance detection, fluorescence emission detection, in situ optogenetic stimulation, and stand-alone touch screen programming of automated assay protocols.
The system features full-spectrum absorbance and fluorescence emission detection, in situ optogenetic stimulation, and stand-alone touch screen programming of automated assay protocols.
The open-source microplate reader features full-spectrum absorbance detection, fluorescence emission detection, in situ optogenetic stimulation, and stand-alone touch screen programming of automated assay protocols.
The system features full-spectrum absorbance and fluorescence emission detection, in situ optogenetic stimulation, and stand-alone touch screen programming of automated assay protocols.
The open-source microplate reader features full-spectrum absorbance detection, fluorescence emission detection, in situ optogenetic stimulation, and stand-alone touch screen programming of automated assay protocols.
The system features full-spectrum absorbance and fluorescence emission detection, in situ optogenetic stimulation, and stand-alone touch screen programming of automated assay protocols.
The total system cost is less than $3500.
The total system costs <$3500, a fraction of the cost of commercial plate readers
system cost 3500 USD
The total system cost is less than $3500.
The total system costs less than $3500
system cost 3500 USD
The total system cost is less than $3500.
The total system costs <$3500, a fraction of the cost of commercial plate readers
system cost 3500 USD
The total system cost is less than $3500.
The total system costs <$3500, a fraction of the cost of commercial plate readers
system cost 3500 USD
The total system cost is less than $3500.
The total system costs less than $3500
system cost 3500 USD
The total system cost is less than $3500.
The total system costs <$3500, a fraction of the cost of commercial plate readers
system cost 3500 USD
The total system cost is less than $3500.
The total system costs <$3500, a fraction of the cost of commercial plate readers
system cost 3500 USD
The total system cost is less than $3500.
The total system costs less than $3500
system cost 3500 USD
The total system cost is less than $3500.
The total system costs <$3500, a fraction of the cost of commercial plate readers
system cost 3500 USD
The total system cost is less than $3500.
The total system costs less than $3500
system cost 3500 USD
The total system cost is less than $3500.
The total system costs <$3500, a fraction of the cost of commercial plate readers
system cost 3500 USD
The total system cost is less than $3500.
The total system costs less than $3500
system cost 3500 USD
The total system cost is less than $3500.
The total system costs less than $3500
system cost 3500 USD
The open-source microplate reader can detect fluorescence of common dyes at concentrations as low as approximately 10 nM.
can detect the fluorescence of common dyes at concentrations as low as ∼10 nM
fluorescence detection limit 10 nM
The open-source microplate reader can detect fluorescence of common dyes at concentrations as low as approximately 10 nM.
can detect the fluorescence of common dyes at concentrations as low as ∼10 nM
fluorescence detection limit 10 nM
The open-source microplate reader can detect fluorescence of common dyes at concentrations as low as approximately 10 nM.
can detect the fluorescence of common dyes at concentrations as low as ∼10 nM
fluorescence detection limit 10 nM
The open-source microplate reader can detect fluorescence of common dyes at concentrations as low as approximately 10 nM.
can detect the fluorescence of common dyes at concentrations as low as ∼10 nM
fluorescence detection limit 10 nM
The open-source microplate reader can detect fluorescence of common dyes at concentrations as low as approximately 10 nM.
can detect the fluorescence of common dyes at concentrations as low as ∼10 nM
fluorescence detection limit 10 nM
The open-source microplate reader can detect fluorescence of common dyes at concentrations as low as approximately 10 nM.
can detect the fluorescence of common dyes at concentrations as low as ∼10 nM
fluorescence detection limit 10 nM
The open-source microplate reader can detect fluorescence of common dyes down to approximately 10 nanomolar concentration.
can detect the fluorescence of common dyes down to ∼10 nanomolar concentration
fluorescence detection limit 10 nanomolar
The open-source microplate reader can detect fluorescence of common dyes down to approximately 10 nanomolar concentration.
can detect the fluorescence of common dyes down to ∼10 nanomolar concentration
fluorescence detection limit 10 nanomolar
The open-source microplate reader can detect fluorescence of common dyes down to approximately 10 nanomolar concentration.
can detect the fluorescence of common dyes down to ∼10 nanomolar concentration
fluorescence detection limit 10 nanomolar
The open-source microplate reader can detect fluorescence of common dyes down to approximately 10 nanomolar concentration.
can detect the fluorescence of common dyes down to ∼10 nanomolar concentration
fluorescence detection limit 10 nanomolar
The open-source microplate reader can detect fluorescence of common dyes down to approximately 10 nanomolar concentration.
can detect the fluorescence of common dyes down to ∼10 nanomolar concentration
fluorescence detection limit 10 nanomolar
The open-source microplate reader can detect fluorescence of common dyes down to approximately 10 nanomolar concentration.
can detect the fluorescence of common dyes down to ∼10 nanomolar concentration
fluorescence detection limit 10 nanomolar
The open-source microplate reader can detect fluorescence of common dyes down to approximately 10 nanomolar concentration.
can detect the fluorescence of common dyes down to ∼10 nanomolar concentration
fluorescence detection limit 10 nanomolar
The paper provides fully detailed guides for assembling the device and automating it using a custom Python-based API.
Fully detailed guides for assembling the device and automating it using the custom Python-based API (Application Program Interface) are provided.
The paper provides fully detailed guides for assembling the device and automating it using a custom Python-based API.
Fully detailed guides for assembling the device and automating it using the custom Python-based API (Application Program Interface) are provided.
The paper provides fully detailed guides for assembling the device and automating it using a custom Python-based API.
Fully detailed guides for assembling the device and automating it using the custom Python-based API (Application Program Interface) are provided.
The paper provides fully detailed guides for assembling the device and automating it using a custom Python-based API.
Fully detailed guides for assembling the device and automating it using the custom Python-based API (Application Program Interface) are provided.
The paper provides fully detailed guides for assembling the device and automating it using a custom Python-based API.
Fully detailed guides for assembling the device and automating it using the custom Python-based API (Application Program Interface) are provided.
The paper provides fully detailed guides for assembling the device and automating it using a custom Python-based API.
Fully detailed guides for assembling the device and automating it using the custom Python-based API (Application Program Interface) are provided.
The paper provides fully detailed guides for assembling the device and automating it using a custom Python-based API.
Fully detailed guides for assembling the device and automating it using the custom Python-based API (Application Program Interface) are provided.
Fully detailed guides are provided for assembling the device and automating it using a custom Python-based API.
Fully detailed guides for assembling the device and automating it using the custom Python-based API (Application Program Interface) are provided.
Fully detailed guides are provided for assembling the device and automating it using a custom Python-based API.
Fully detailed guides for assembling the device and automating it using the custom Python-based API (Application Program Interface) are provided.
Fully detailed guides are provided for assembling the device and automating it using a custom Python-based API.
Fully detailed guides for assembling the device and automating it using the custom Python-based API (Application Program Interface) are provided.
Fully detailed guides are provided for assembling the device and automating it using a custom Python-based API.
Fully detailed guides for assembling the device and automating it using the custom Python-based API (Application Program Interface) are provided.
Fully detailed guides are provided for assembling the device and automating it using a custom Python-based API.
Fully detailed guides for assembling the device and automating it using the custom Python-based API (Application Program Interface) are provided.
Fully detailed guides are provided for assembling the device and automating it using a custom Python-based API.
Fully detailed guides for assembling the device and automating it using the custom Python-based API (Application Program Interface) are provided.
Fully detailed guides are provided for assembling the device and automating it using a custom Python-based API.
Fully detailed guides for assembling the device and automating it using the custom Python-based API (Application Program Interface) are provided.
The open-source microplate reader features full-spectrum absorbance and fluorescence emission detection, in situ optogenetic stimulation, and stand-alone touch screen programming of automated assay protocols.
The system features full-spectrum absorbance and fluorescence emission detection, in situ optogenetic stimulation, and stand-alone touch screen programming of automated assay protocols.
The open-source microplate reader features full-spectrum absorbance and fluorescence emission detection, in situ optogenetic stimulation, and stand-alone touch screen programming of automated assay protocols.
The system features full-spectrum absorbance and fluorescence emission detection, in situ optogenetic stimulation, and stand-alone touch screen programming of automated assay protocols.
The open-source microplate reader features full-spectrum absorbance and fluorescence emission detection, in situ optogenetic stimulation, and stand-alone touch screen programming of automated assay protocols.
The system features full-spectrum absorbance and fluorescence emission detection, in situ optogenetic stimulation, and stand-alone touch screen programming of automated assay protocols.
The open-source microplate reader features full-spectrum absorbance and fluorescence emission detection, in situ optogenetic stimulation, and stand-alone touch screen programming of automated assay protocols.
The system features full-spectrum absorbance and fluorescence emission detection, in situ optogenetic stimulation, and stand-alone touch screen programming of automated assay protocols.
The open-source microplate reader features full-spectrum absorbance and fluorescence emission detection, in situ optogenetic stimulation, and stand-alone touch screen programming of automated assay protocols.
The system features full-spectrum absorbance and fluorescence emission detection, in situ optogenetic stimulation, and stand-alone touch screen programming of automated assay protocols.
The open-source microplate reader features full-spectrum absorbance and fluorescence emission detection, in situ optogenetic stimulation, and stand-alone touch screen programming of automated assay protocols.
The system features full-spectrum absorbance and fluorescence emission detection, in situ optogenetic stimulation, and stand-alone touch screen programming of automated assay protocols.
The open-source microplate reader features full-spectrum absorbance and fluorescence emission detection, in situ optogenetic stimulation, and stand-alone touch screen programming of automated assay protocols.
The system features full-spectrum absorbance and fluorescence emission detection, in situ optogenetic stimulation, and stand-alone touch screen programming of automated assay protocols.
The paper reports the design, construction, validation, and benchmarking of an open-source microplate reader.
we here report the design, construction, validation, and benchmarking of an open-source microplate reader
The paper reports the design, construction, validation, and benchmarking of an open-source microplate reader.
we here report the design, construction, validation, and benchmarking of an open-source microplate reader
The paper reports the design, construction, validation, and benchmarking of an open-source microplate reader.
we here report the design, construction, validation, and benchmarking of an open-source microplate reader
The paper reports the design, construction, validation, and benchmarking of an open-source microplate reader.
we here report the design, construction, validation, and benchmarking of an open-source microplate reader
The paper reports the design, construction, validation, and benchmarking of an open-source microplate reader.
we here report the design, construction, validation, and benchmarking of an open-source microplate reader
The paper reports the design, construction, validation, and benchmarking of an open-source microplate reader.
we here report the design, construction, validation, and benchmarking of an open-source microplate reader
Approval Evidence
1 source10 linked approval claimsfirst-pass slug open-source-microplate-reader
we here report the design, construction, validation, and benchmarking of an open-source microplate reader
Source:
application demonstrationsupports
The open-source microplate reader was functionally demonstrated by steady-state measurements of ligand-induced reporter gene expression in a model of bacterial quorum sensing and by flavin photocycling kinetic measurements of a LOV domain photoreceptor used for optogenetic transcriptional activation.
Functional capabilities were demonstrated in context of synthetic biology, optogenetics, and photosensory biology: by steady-state measurements of ligand-induced reporter gene expression in a model of bacterial quorum sensing, and by flavin photocycling kinetic measurements of a LOV (light-oxygen-voltage) domain photoreceptor used for optogenetic transcriptional activation.
Source:
capabilitysupports
The open-source microplate reader features full-spectrum absorbance detection, fluorescence emission detection, in situ optogenetic stimulation, and stand-alone touch screen programming of automated assay protocols.
The system features full-spectrum absorbance and fluorescence emission detection, in situ optogenetic stimulation, and stand-alone touch screen programming of automated assay protocols.
Source:
costsupports
The total system cost is less than $3500.
The total system costs <$3500, a fraction of the cost of commercial plate readers
Source:
costsupports
The total system cost is less than $3500.
The total system costs less than $3500
Source:
detection limitsupports
The open-source microplate reader can detect fluorescence of common dyes at concentrations as low as approximately 10 nM.
can detect the fluorescence of common dyes at concentrations as low as ∼10 nM
Source:
detection limitsupports
The open-source microplate reader can detect fluorescence of common dyes down to approximately 10 nanomolar concentration.
can detect the fluorescence of common dyes down to ∼10 nanomolar concentration
Source:
documentationsupports
The paper provides fully detailed guides for assembling the device and automating it using a custom Python-based API.
Fully detailed guides for assembling the device and automating it using the custom Python-based API (Application Program Interface) are provided.
Source:
documentation availabilitysupports
Fully detailed guides are provided for assembling the device and automating it using a custom Python-based API.
Fully detailed guides for assembling the device and automating it using the custom Python-based API (Application Program Interface) are provided.
Source:
feature descriptionsupports
The open-source microplate reader features full-spectrum absorbance and fluorescence emission detection, in situ optogenetic stimulation, and stand-alone touch screen programming of automated assay protocols.
The system features full-spectrum absorbance and fluorescence emission detection, in situ optogenetic stimulation, and stand-alone touch screen programming of automated assay protocols.
Source:
tool descriptionsupports
The paper reports the design, construction, validation, and benchmarking of an open-source microplate reader.
we here report the design, construction, validation, and benchmarking of an open-source microplate reader
Source:
Comparisons
Source-backed strengths
Reported strengths include full-spectrum absorbance detection, fluorescence emission detection, in situ optogenetic stimulation, and stand-alone touch screen control of automated protocols. The instrument was not only built but also validated and benchmarked, and its functionality was demonstrated in both ligand-induced reporter gene expression assays and LOV-domain flavin photocycling measurements.
Compared with droplet microfluidic platform
open-source microplate reader and droplet microfluidic platform address a similar problem space because they share recombination, selection.
Shared frame: same top-level item type; shared target processes: recombination, selection; same primary input modality: light
Compared with fluorescence recovery after photobleaching
open-source microplate reader and fluorescence recovery after photobleaching address a similar problem space because they share recombination, selection.
Shared frame: same top-level item type; shared target processes: recombination, selection; same primary input modality: light
Compared with RNA sequencing
open-source microplate reader and RNA sequencing address a similar problem space because they share recombination, selection, transcription.
Shared frame: same top-level item type; shared target processes: recombination, selection, transcription; same primary input modality: light
Relative tradeoffs: appears more independently replicated; looks easier to implement in practice.
Ranked Citations
- 1.