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Knowitall software

Manufactured by Bio-Rad
Sourced in United States

KnowItAll software is a comprehensive data analysis platform that enables users to interpret and manage scientific data. The software provides tools for spectral analysis, compound identification, and data visualization.

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11 protocols using knowitall software

1

Raman Spectroscopy of Protein Solutions

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For Raman measurements, 45 µl of protein solution was added into a sample cell and placed on the object stage. The sample was excited with a 785-nm pulsed laser at an excitation power of 50 mW/cm2, as 785-nm excitation allows probing of the chromophore site with minimal spectral interference from the surrounding protein environment.
The Raman spectra were acquired using Renishaw inVia Reflex confocal Raman microscope (Renishaw, UK) with a total collection time of 60 s for the recording of the spectra region from approximately 400–2400 cm−1. The laser beam was focused on the 200–300 µm point under the sample surface.
Raw data were processed by KnowItAll software, (Bio-Rad, USA) and Raman spectra were calculated by Savitzky–Golay smoothing. Raman spectra assignment was performed using KnowItAll software functional group database and references.
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2

FTIR Analysis of Chiral Tar-Brushite Interaction

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The
cements produced were analyzed using an FTIR spectrometer (PerkinElmer,
Liantrisant, U.K.) to see if there is any interaction between chiral
Tar and the brushite mineral. Cement pieces were ground up into a
powder and placed onto the pedestal of the device. A transmittance
spectrum was obtained using a wavelength range of 400–4000
cm–1 with a 1 cm–1 resolution.
The resulting spectra were analyzed using the know-it-all software
(Biorad, Hercules) and plotted using a python script.
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3

Raman Spectroscopy for Microplastic Identification

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A small representative subset of MPs from the net samples (16.7%, 31 of
185) were selected based on appearance for micro-Raman spectroscopy in effort to
provide examples of polymer types found in this study. Only particles from the
net samples were selected because they underwent cleaning during the WPO
process, which reduces interference from biofouling. Raman spectrometery was
chosen over FTIR due to the availability of equipment.
Raman spectra were collected using a Sierra IM-52 Portable Raman
Microscope (Snowy Range Instruments, Laramie WY) equipped with a 785 nm laser.
Laser power (ranging from 2.4 to 18.5 mW), integration time (average 14 seconds)
and the number of multi-acquisitions varied for each individual particle to
enhance spectral quality and reduce fluorescence. All spectra were analyzed
using the BioRad KnowItAll Software and compared to the following spectral
libraries: Horiba Raman Forensics, Horiba Raman Minerals, Bio-Rad Sadtler Raman
Polymers and Monomers and Bio-Rad Sadtler Polymers and Processing Chemicals. The
BioRad KnowItAll Software program compares unknown spectra to known library
spectra using a correlation algorithm. Search results are ranked with a Hit
Quality Index (HQI) value from 0-100%. Only values of 70% or higher were
accepted as a positive match (Lusher et al.,
2017a
).
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4

Fourier-Transform Infrared Spectroscopy of Garlic Extracts

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Fourier-transform infrared spectroscopy (FTIR) spectra of garlic extract in aqueous methanol (8:2) and DMSO were recorded at room temperature using a Perkin Elmer Frontier spectrum spectrophotometer, scanning over the frequency range of 4000 to 400 cm−1. The spectrum of each sample was acquired using spectrum software version 5.3.1 and a diamond ATR (Perkin Elmer, MA, USA) and each spectrum was an average of 64 scans, with a resolution of 4 cm−1. The aqueous methanol aliquots and DMSO aliquots of 10 µL were uniformly spread directly onto the ATR crystal before each spectrum was collected. Functional group analysis was carried out using Know-it-all software (Bio-Rad, Life Science, Hercules, CA, USA).
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5

Microplastic Characterization by Advanced Techniques

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The average particle size of microplastics was measured using PSA (ELS-Z2Plus, Otsuka, Japan), and the actual shape and particle size were confirmed by SEM (JSM-6701F, JEOL Inc., Akishima, Tokyo, Japan) and 3D profile (Confocal Microscopy, Keyence, IL, USA). The chemical properties of the particles were analyzed using Raman spectroscopy (RAMANtouch, Nanophoton, Osaka, Japan). Briefly, after exploring the morphology of particles with a 20× objective lens, Raman spectra were collected in the range of 160–3000 cm−1 using 300 lines per millimeter grid with a 50 µm slit width. The spectrum of particles was measured over a 16-bit dynamic range with Peliter-cooled charge-coupled element detectors. The acquisition time and accumulation number were adjusted for each scan to obtain enough signals for conducting a library search. The spectrometer was calibrated with silicon at a line of 520.7 cm prior to obtaining the spectrum. Raw Raman spectra underwent noise reduction by polynomial baseline correction and vector normalization to enhance spectral quality (LabSpec 6 software, Horiba Scientific, Kyoto, Japan). The Raman spectra were compared with those of the SLoPP Library of Microplastics and the spectral library KnowItAll software (Bio-Rad Laboratories, Inc., Hercules, CA, USA). Similarities above the hit quality index of 80 were thought to be satisfactory.
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6

Metabolic Profiling of A375 Cells Using 13C-Glucose NMR

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A375-v and A375RIV1 cells were incubated for 24 h in DMEM medium containing [U-13C]-glucose (10 mM). Metabolites were extracted35 and redissolved in 550 µl of phosphate buffer (0.2 M; D2O) at pH 7.4. 1D 13C NMR experiments were acquired with power-gated proton decoupling (3.1 kHz, Waltz-16) at 298 K on a Bruker Avance 500 equipped with a 5-mm cryoprobe. Acquisition parameters were as follow: relaxation delay 2 s, acquisition time 0.93 s, spectral width 35.2 kHz (280 ppm), and number of scans 20 K. 13C NMR spectra were processed using the Bruker TopSpin software 3.1, integrated with the KnowItAll® software (BIO-RAD) and normalized using the external standard and the amount of proteins in the sample as previously described35 .
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7

FTIR Analysis of Nanomaterial Interactions

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FTIR studies were carried out in a FT/IR-670 plus (Jasco, Tokyo, Japan) to detect interaction of each component before and after nanoparticulation. Sb, chitosan, PLGA, pluronic and the nanoparticles were pelletized individually with IR grade KBr in the ratio of 1∶100 in a hydraulic press at a pressure of 150 bar for 30 sec. The pellets were scanned over a range of 4000 to 400 cm−1 at a resolution of 4 cm−1 and the data stacked in Biorad KnowItAll software for analysis and overlap regions.
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8

Raman Spectroscopy for Microplastic Identification

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Raman spectroscopy (Horiba LabRAM HR) was used to examine the chemical composition of the potential MPs. The resulted spectra were compared with reference spectra in the SLOPP Library of microplastics and polymer databases of KnowItAll software (Bio-Rad Laboratories, Inc.) to identify polymer type.
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9

Raman Spectroscopic Characterization of Microplastics

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Chemical characterization was performed using the Horiba LabRAM HR Raman spectrometer, equipped with gratings ruled at 600 lines/mm and liquid nitrogen‐cooled charge‐coupled device detector. The 514.5‐nm radiation of an argon ion laser and a 100× objective of an Olympus BX41 microscope (NA = 0.80) were used for spectra acquisition. The confocal pinhole was set at 100 μm. Raman spectra were recorded in the wavenumber range of 0–3500 cm1, with laser power between 0.04 and 0.4 mW. Due to high background fluorescence in microplastics, particles were subjected to photobleaching for 5–60 s prior to acquisition depending on the intensity of the background fluorescence. The Raman system was operated using LabSpec 5 software. The chemical composition of polymers was identified by comparison with reference spectra in the SLOPP Library of microplastics and polymer databases of KnowItAll software (Bio‐Rad), at a threshold hit quality index (HQI) of 80% or similarity between the sample and reference spectra.
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10

FTIR Analysis of Fatty Acids in A. caespitosus

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The FTIR spectra of standard fatty acid (FAME Mix C4-C24, Sigma-Aldrich, St Louis, MO, USA) and extracted lipids from A. caespitosus ASEF14 grown in SWW for ten days were recorded using ATR-FTIR spectroscopy (JASCO FT/IR-6300, Japan), with a diamond-enabled ATR sample holder and a DLaTGS detector in the spectral range of 400 to 4,000 cm–1. The functional components in the samples were identified qualitatively by matching the maximum peak hit (> 99.5 peak region matching) with the IR Spectral Library using the KnowItAll software (BioRad Laboratories, Munchen, Germany). The analysis of the second derivative spectra (2800–3050 cm–1 and 1350–1500 cm–1) was done by the Means-Movement method (smoothing with a convolution width of 25) using the Jasco Spectra Manager software. All analyses were done thrice to confirm the reproducibility of the data.
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