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48 protocols using hr2000

1

Absorbance and SERS Spectroscopy Protocol

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In the absorption spectrum measurement, the light from the halogen light source is focused on the sample by a 10× objective lens. The transmitted light from the sample is collected by another 10× objective lens and subsequently coupled to the 100 µm-core-diameter optical fiber connected to the spectrometer (Ocean Optics, HR2000). In the SERS measurement, the 10−5 M solution of R6G dye used as a probe molecule is dropped on the sample surface for 2 hrs. The samples are then immersed in de-ionized water to remove unadsorbed dye molecules. The Raman spectrum measurements are carried out using a 532 nm DPSS laser and an Acton SP-2358 spectrometer equipped with TE-cooled CCD (Andor DV420A). A 50× objective lens (NA = 0.42) is used to focus the laser light on the target area and to collect the backward scattering light from the sample surface. The integration time of the Raman measurement is 5 sec.
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2

Spectrum Measurement of Laser Filamentation

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The spectrum of the pulse after filamentation was measured using two different fiber-coupled spectrometers (Ocean Optics USB2000 in the near IR and HR2000 in the visible) to cover the full spectral range of interest. The post-filament light was diffused off a white screen and coupled into the collecting fiber with a lens. To ensure that light emitted at all angles from the filament was collected, the diffusion spot on the screen was kept small (while ensuring that no optical damage occurred to the screen) and the spectrum was verified to be unchanged by small movements of the collecting fiber and lens. The system was calibrated and the spectra from both spectrometers combined in post-processing with the aid of a tungsten calibration lamp.
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3

Porous Silicon Rugate Filter Vapor Sensing

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Reflectance spectra were collected
using a halogen light source (Ocean Optics, HL-2000) and a spectrometer
(Ocean Optics, HR2000+) equipped with a bifurcated optical probe (Ocean
Optics, QR400–7-UV/Vis). The optical probe was normal to the
rugate filter surface, generating an illuminated area of about 2 mm
in diameter. Vapor concentrations were varied by bubbling the nitrogen
carrier gas at a particular flow rate into the analyte liquid so that
the partial pressure of the analyte vapor was between 0.02P0 and 0.30P0, where P0 is the saturated vapor pressure at 20 °C.
The total gas flow rate for all measurements was held constant at
400 mL min–1 by mass flow controllers (Alicat Scientific),
and the temperature was held constant at 20 °C. The reflectance
measurement cell had a volume of 500 mL, while the gas tubing had
a total volume of 270 mL. Each spectrum was collected after 10 min
of exposure to the vapor. Mild heating of the pSi rugate filter to
80 °C facilitated the rapid return of the spectra to the nitrogen
baseline between analyte tests.28 (link) For both
pSi rugate filters, three separate runs of each analyte concentration
were collected and averaged. Rather than a reflectance standard, differential
reflectance spectra were collected and analyzed.4 (link),11 (link),38 (link) PCA was performed on the averaged differential
spectra relative to nitrogen after mean-centering the data.
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4

Spectral Reflectance of Dragonfly Abdomen

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Example 1

Spectral Reflectance Measurement of the Dorsal Side and Ventral Side of the Fifth Segment of the Abdomen of a White Tailed Skimmer Dragonfly

The ventral side and dorsal side of the surgically-dissected fifth segment of the abdomen of a white tailed skimmer dragonfly were used for the measurement of spectral reflectance. Spectral reflectance from the small field was measured using a spectrometer (HR2000+, Ocean Optics, Inc., USA). By normalizing the reflected spectral radiation using a white reflection standard (Spectralon USRS-99-010, Labsphere Inc., USA), it was converted to a relative spectral reflectance. The results are shown in FIG. 1. The spectral reflectance was particularly high for the dorsal side of a mature white tailed skimmer dragonfly.

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5

LIBS Analysis of Rice Pellets

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Rice pellets were analyzed using a LIBS system equipped with a 1064 nm Q-switched Nd:YAG laser (Quantel, Big Sky Ultra 50, Bozeman, USA) operating at 50 mJ maximum power energy with a pulse duration that is less than 8 ns, lens for laser focalization with focal distance of 10 cm, and an optical fiber bundle to lead plasma emissions to four spectrometers (Ocean Optics HR2000+, Dunedin, USA), which feature the spectral resolution of 0.1 nm FWHM (full width at half maximum) and cover a spectral range from 200 to 600 nm. The instrumental fixed integration time was 1 ms and the Q-Switch delay was set to 2.5 μs. Additionally, a spark discharge device, previously proposed by Vieira et al. [25 (link)] was coupled to the LIBS system to increase the sensitivity of the measures. The output discharge was set to 4.5 kV. The OOLIBS software from Ocean Optics, USA, was used to control the instrument and for data acquisition.
For analysis, rice pellets were placed in LIBS’s sample holder, which was moved in x and y directions relative to each laser pulse with a pulse duration of 20 ns, providing spectra acquisitions corresponding to fifty pulses spread on the pellets’ surface. The interaction laser sample provided a spot diameter of around 300 μm and irradiance in the focal point around 6.2 GW cm−2. In addition, a video camera inside the sampling chamber was used for monitoring the analysis.
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6

Optical Transmission Profiling Protocol

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All optical transmission profiles shown in Fig. 6A were measured with a spectrometer (HR2000+, Ocean Insight, Orlando, USA). One hundred transmission measurements of each optical component were averaged and then smoothed across wavelengths by rolling window averaging with a window of ≈19 nm width. The values in the ranges 400 to 419 nm and 681 to 700 nm were ignored after smoothing to avoid unwanted border effects.
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7

Turbidity Measurement of Colloidal Aggregates

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Turbidity measurements were performed at 20 °C and pH = 7 with the aggregates in a 1 cm optical path length quartz cuvette. Specimens were illuminated with a broadband halogen lamp (HL2000, Ocean Optics, Inc., Dunedin, FL.) coupled to an optical fiber. Spectra were collected in the wavelength range of 400 nm to 1000 nm. The transmitted light was collected by a second optical fiber coupled to a spectrophotometer equipped with a CCD (HR2000, Ocean Optics, Inc.) which transferred the data to a personal computer. A 1 mm diameter aperture positioned in front of the collection fiber limited data collection to transmitted light while blocking scattered light. A magnetic stirrer was employed to prevent settling of the suspended colloidal aggregates. The distance between the cuvette and aperture was 5 cm, limiting the collection solid angle to 0.00003 sr and thus restricting the intensity of forward scattered light incident on the collection fiber (Katz et al., 2013 ). For time-resolved measurements, each spectrum was integrated for 250 ms using a high-speed data acquisition mode which allowed rapid collection and transfer of many spectra (3600 spectra for the typical 900 s experiment) to a PC with no dead-time between spectra acquisitions. For the estimation of φ6 concentration by turbidity, spectra were integrated for 30 s.
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8

Characterization of Micro-LED Brain Probes

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Scanning electron microscopic (SEM) images are taken with a ZEISS Auriga SEM/FIB Crossbeam System. Optical images are captured by a microscope MC-D800U(C). The LED emission spectra are measured with a spectrometer (HR2000 + , Ocean Optics). Current–voltage characteristics are recorded by a Keithley 2400 source meter. LED irradiances and external quantum efficiencies are measured using a spectroradiometer with an integrating sphere (LabSphere Inc.). The angular-dependent emission profiles are measured by a standard Si photodetector (DET36A, Thorlabs) with the device mounted on a goniometer. The probe’s mechanical properties are measured with dynamic mechanical analysis (DMA Q800, TA Instruments). For in vitro tests, micro-LED probes are implanted into the brain phantom. The brain phantom is made of agarose (0.5% w/v), hemoglobin (0.2% w/v), and intralipid (1% w/v) mixed in phosphate buffer solutions (98.3% w/v). After stirring, the mixed liquid is heated to boiling and then naturally cooled to room temperature, forming the gels.
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9

Rearing Mice in Monochromatic Lights

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Before eye opening at 14 days of age, B6 mice were randomly assigned to one of three visual environment groups: normal white light (n = 24), quasi-monochromatic red light (peak wavelength = 629 nm, n = 25), or quasi-monochromatic blue light (peak wavelength = 452 nm, n = 17). The mothers were kept in these cages for two or three days to enable the baby mice to nurse. Illumination was provided by light emitting diode (LED) tubes installed on the walls and ceiling of the cages to obtain a luminance of 275 ± 30 lux. Refraction and axial dimensions of all mice were measured every 2 weeks between 4 and 10 weeks of age. The emission characteristics of the LEDs were determined with a high-resolution spectrometer (HR 2000; Ocean Optics, Dunedin, FL, USA) (Fig. 1).

Spectral emission curves for the three types of LEDs used for mice rearing. The white light emitting LEDs had a broad emission spectrum (400–760 nm) with a high peak at 443 nm and a lower broad peak at 575 nm. The spectrum of the blue-emitting LEDs ranged from 410 to 510 nm with a sharp peak at 452 nm. The spectrum of the red-emitting LEDs spanned from 585 to 660 nm with a major peak at 629 nm.

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10

Characterization of 10-nm AuNPs

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For pure absorber 10-nm AuNPs, absorbance of different concentration from 1 fold to 30 fold was collected on a UV-Vis spectrometer (Ocean Optics, Model: HR2000 + CG) with a standard 10 mm × 10 mm × 45 mm cuvette. The absorbance A at 532 nm and the molar concentration of AuNPs (aq) c showed a linear relationship, expressed as A = 4.18 × 104 c, which agrees well with the Lambert-Beer law.
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