The SDF files of all lipids in LipidBlast were constructed as follows. The SDF files of PC, lysoPC, PE, lysoPE, PG, PI, PS, and PA were downloaded from LIPID MAPS26 . The SDF files for the other lipid classes were created from SMILES code written in LipidBlast by ChemAxon JChem 6.3.0 molconvert (http://www.chemaxon.com ), totaling 117,343 SDF files. They also included plasmenyl PC, PE, sphingomyelin, and cholesterol ester as lipid classes although these lipids were not the focus for algal lipid identifications. The PaDEL descriptor software was utilized to calculate 1D and 2D molecular descriptors and PubChem fingerprints from the SDF files12 (link). Their exact masses were also generated by ChemAxon JChem molconvert. Then, redundant and uniform variables were excluded, and a total of 464 compound descriptors were used as predictor variables in the regression analysis. The in-house retention time information of 254 lipids was used for model development. Since the number of predictor variables (compound descriptors) were considerably higher than the number of data samples (the number of training set: 254), partial least square regression (PLS-R) was utilized in order to construct the retention time prediction model11 . The program of PLS-R was written in Visual Basic for Application and the source code can be downloaded at http://prime.psc.riken.jp/ . A seven-fold cross validation was used to calculate the predictive residual sum of squares (PRESS) and Q2 value. The final model included six latent variables based on the PRESS and Q2 value and the retention time information from the training samples. In this study, retention time information of newly identified 1,808 lipids from nine algal species was used for validating that accurate precursor ion masses and MS/MS spectra were also confirmed by retention time matching.
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LYSO-PC
LYSO-PC
LYSO-PC, or Lutetium-yttrium oxyorthosilicate scintillator crystals, are widely used in positron emission tomography (PET) imaging due to their excellent scintillation properties.
These crystals convert high-energy gamma rays into visible light, enabling PET detectors to capture detailed images of biological processes within the body.
Optimizing LYSO-PC research can be a complex endeavor, but PubCompare.ai offers a powerful AI-driven platform to streamline the process.
Easily locate relevant protocols across literature, preprints, and patents, and utilize advanced comparisons to identify the best protocols and products for your needs.
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These crystals convert high-energy gamma rays into visible light, enabling PET detectors to capture detailed images of biological processes within the body.
Optimizing LYSO-PC research can be a complex endeavor, but PubCompare.ai offers a powerful AI-driven platform to streamline the process.
Easily locate relevant protocols across literature, preprints, and patents, and utilize advanced comparisons to identify the best protocols and products for your needs.
Take the guesswork out of your LYSO-PC experiments and ensure reproducibility with the help of PubCompare.ai's intuitive tools.
Discover the leading solution for your LYSO-PC research needs today.
Most cited protocols related to «LYSO-PC»
Cholesterol Esters
fluoromethyl 2,2-difluoro-1-(trifluoromethyl)vinyl ether
Lipids
LYSO-PC
Retention (Psychology)
Sphingomyelins
Tandem Mass Spectrometry
cDNA Library
Fatty Acids
formic acid
Lipids
LYSO-PC
Tandem Mass Spectrometry
The MassBank revision 173, ReSpect updated in 2012/9/25, and LipidBlast version 3 were downloaded. The spectrum data were converted to the NIST MSP format. For the hydrophilic metabolite identification, the NIST 12 MS/MS library was also utilized in addition to MassBank and ReSpect libraries. For the algal lipid identification, fatty acid 16:2, 16:3, 16:4, and 16:5 spectrum information were added to LipidBlast library. The position of double bonds was determined according to previous reports16 . Moreover, the adduct ions and the MS/MS spectral information of formic acid were added to PC, lysoPC, MGDG, and DGDG for the lipid identification in negative ion mode analysis. In order to determine the ion abundances for each lipid class the heuristic model was constructed from the data sets of DDA MS/MS as described above. The MSP format libraries (MassBank, ReSpect, and LipidBlast), and the LipidBlast excel macro file are downloadable under http://prime.psc.riken.jp/ .
cDNA Library
Fatty Acids
formic acid
Lipids
LYSO-PC
Tandem Mass Spectrometry
Lipids
LYSO-PC
Stereoisomers
Tandem Mass Spectrometry
Trees
All lipids were annotated with subsequent manual verification of MS/MS spectral matching for compound identifications (Supplementary Table 1 ). A total of 1,808 (SWATH) and 1,521 (DDA) lipids (Supplementary Table 2 ) were first integrated disregarding the acyl chain positions (sn1, sn2, sn3), double bond positions, and stereoisomers (E, Z). For example, TAG(16:0/16:1/16:2), TAG(16:0/16:2/16:1), TAG(16:2/16:1/16:0), TAG(16:2/16:0/16:1), TAG(16:1/16:0/16:2), and TAG(16:1/16:2/16:0) were considered the same lipid. Likewise, lysoPC 16:1(7Z) and lysoPC 16:1(9E) were regarded as the same. For the remaining 1,023 lipids, presence or absence in each of nine species was represented as a binary data matrix of size 1023×9 (Supplementary Data 2 ).
Hierarchical clustering analysis was performed using the R statistical language (http://www.R-project.org ) and the package ‘amap’ (http://CRAN.R-project.org/package=amap ). The distance was calculated by ‘correlation’ in the package. The linkage was performed by ‘average’. We cited the previous report27 as the standard taxonomic tree.
Hierarchical clustering analysis was performed using the R statistical language (
Lipids
LYSO-PC
Stereoisomers
Tandem Mass Spectrometry
Trees
Most recents protocols related to «LYSO-PC»
Agarose, diluted trypsin (0.25%),
RIPA buffer, N-tert-butyl-α-phenylnitrone
(PBN), N,N′-dimethylthiourea
(DMTU), and 1-palmitoyl-sn-glycero-3-phosphocholine
(LysoPC(16:0)) were purchased from Millipore Sigma (St. Louis MO).
Hydrogen peroxide, Pierce’s gold standard BCA assay, trypsin,
tris base, hydrochloric acid, acetone, formic acid, Pierce colorometric
peptide quantification assay, MS grade 0.1% formic acid in water,
MS grade 0.1% formic acid in acetonitrile, and MS grade water were
purchased from Thermo Fisher Scientific (Waltham, MA). McCoy’s
5A, fetal bovine serum (FBS),l -glutamine, phosphate-buffered
saline (PBS), and 0.05% porcine trypsin with 0.1% EDTA were purchased
from Gibco (Gaithersburg, MD). Iodoacetamide (IAA) was acquired from
ACROS Organics. Dithiothreitol (DTT) was purchased from American Bio
(Canton, MA). Dimethyl sulfoxide (DMSO) was purchased from Invitrogen
(Carlsbad, CA).
RIPA buffer, N-tert-butyl-α-phenylnitrone
(PBN), N,N′-dimethylthiourea
(DMTU), and 1-palmitoyl-sn-glycero-3-phosphocholine
(LysoPC(16:0)) were purchased from Millipore Sigma (St. Louis MO).
Hydrogen peroxide, Pierce’s gold standard BCA assay, trypsin,
tris base, hydrochloric acid, acetone, formic acid, Pierce colorometric
peptide quantification assay, MS grade 0.1% formic acid in water,
MS grade 0.1% formic acid in acetonitrile, and MS grade water were
purchased from Thermo Fisher Scientific (Waltham, MA). McCoy’s
5A, fetal bovine serum (FBS),
saline (PBS), and 0.05% porcine trypsin with 0.1% EDTA were purchased
from Gibco (Gaithersburg, MD). Iodoacetamide (IAA) was acquired from
ACROS Organics. Dithiothreitol (DTT) was purchased from American Bio
(Canton, MA). Dimethyl sulfoxide (DMSO) was purchased from Invitrogen
(Carlsbad, CA).
Full text: Click here
1,3-dimethylthiourea
Acetone
acetonitrile
Biological Assay
Buffers
Dithiothreitol
Edetic Acid
Fetal Bovine Serum
formic acid
Glutamine
Glycerylphosphorylcholine
Gold
Hydrochloric acid
Iodoacetamide
LYSO-PC
Peroxide, Hydrogen
Phosphates
Pigs
PRSS1 protein, human
Radioimmunoprecipitation Assay
Sepharose
Sulfoxide, Dimethyl
TERT protein, human
Tromethamine
Trypsin
LC-MS grade acetonitrile, methanol, water, isopropyl alcohol, and HPLC grade methanol, and chloroform were purchased from Thermo Fisher Scientific (Fairlawn, NJ, USA). LC/MS grade eluent buffers, ammonium acetate, and acetic acid were purchased from Sigma-Aldrich (St. Louis, MO, USA). Diacylglycerol (DG, 10:0/10:0), triacylglycerol (TG, 17:0/17:0/17:0), phosphatidylcholine (PC, 10:0/10:0), phosphatidylethanolamine (PE, 10:0/10:0), sphingomyelin (SM, 18:1d/17:0), and ceramide (CER, C17) for internal standards were acquired from Avanti Polar Lipids (Alabaster, AL, USA). Diacylglycerol (DG, 16:0/16:0), phosphatidylcholine (PC, 16:0/16:0), phosphatidylethanolamine (PE, 16:0/16:0), lyso-phosphatidylcholine (lyso-PC, 18:0), lyso-phosphatidylethanolamine (lyso-PE 16:0), triacylglycerol (TG, 17:0/17:0/17:0), sphingomyelin (SM, 18:1d/17:0), and ceramide (CER, C17) as standards for retention time were obtained from Avanti Polar Lipids (Alabaster, AL, USA).
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Acetic Acid
acetonitrile
Alabaster
ammonium acetate
Buffers
Ceramides
Chloroform
Diacylglycerol
High-Performance Liquid Chromatographies
Isopropyl Alcohol
Lipids
LYSO-PC
Methanol
Phosphatidylcholines
phosphatidylethanolamine
Retention (Psychology)
Sphingomyelins
Triglycerides
Chloroform (CHCl3), Methanol (CH3OH) and Formic acid (HCOOH) were purchased from Sigma Aldrich (Saint Quentin Fallavier, France). The water (H2O) used for lipid extraction came from Milli-Q. Lipid standards (Lyso PC 16:0, Lyso PC 13:0, Lyso PAF 16:0, PAF “from heart PC”, PC(16:0/18:1), PC 14:0 (DMPC), FA20:0 and FA17:0) were purchased from Avanti Polar Lipids via Sigma Aldrich and then prepared at the appropriate concentration and stored at −20 °C.
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Chloroform
Dimyristoylphosphatidylcholine
formic acid
Heart
Lipids
LYSO-PC
lyso-platelet activating factor
Methanol
PC 16
Oleosin emulsions consisting of 2.8 μL sucrose solution (with 3.92 μg or 0.28 μg oleosin) containing 100 μM resorufin and 60 μL mineral oil was added to the DOPC monolayer and centrifuged at 5,200 × g for 10 min at room temperature. Ten microliters of vesicle solution were collected from the tube. Ten microliters of 500 μM or 30 μM 16:0 lyso-PC micelles containing 0.14 mol % TopFluor lyso-PC was added to 10 μL of the lipid–oleosin vesicle solution. Time-lapse images were acquired using a CLSM. The TopFluor lyso-PC fluorescence and resorufin fluorescence were observed using a CLSM with a 60× oil-immersion lens using a diode laser (473 nm for TopFluor) and (559 nm for resorufin), respectively. The area of the vesicle was measured using a feel hand tool of ImageJ. The fluorescence of TopFluor on these vesicles was measured using ImageJ.
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1,2-oleoylphosphatidylcholine
Emulsions
Feelings
Fluorescence
Lasers, Semiconductor
Lens, Crystalline
Lipids
LYSO-PC
Micelles
Oil, Mineral
resorufin
Submersion
Sucrose
Total lipids were extracted from HM and IFs according to the method of Zhang et al. [19 (link)]. HM samples were mixed with CHCl3/CH3OH (2:1, v/v) at a ratio of 1:3, followed by 30 min of ultrasonic treatment at 30 °C. After 10 min of centrifugation at 16,994× g and 4 °C, the organic phase was transferred to a new vial, and the same extraction process was performed on the remaining water phase once more. The mixed organic phase was evaporated to about 5 mL under vacuum, and further dried under a stream of nitrogen. IFs were dissolved in ultrapure water at a ratio of 1:10 before mixing with CHCl3/CH3OH (2:1, v/v). The obtained dry lipid was stored at −20 °C for further gas chromatography (GC) analysis.
The process for lipid extraction was performed following the method of Li et al. [12 (link)], with slight modifications. Briefly, 60 μL milk sample and 340 μL ultrapure water were collected and placed in an EP tube (A). Then, 960 μL extraction liquid (MTBE:CH3OH = 5:1, v/v) and 70 μL internal standard mixture ((d5-17:0/17:1/17:0) TG, 15:0 lyso PC, (19:0/19:0) PE, 13:0 lyso PE, d18:1/6:0 SM, (17:0/17:0) PS, and (17:0/17:0) PG were mixed in equal quantities in the concentration of 250 μg/mL) were added to each sample. The sample was mixed to homogeneity, vortexed, sonicated for 10 min, and then centrifuged for 10 min at 16,994× g and 4 °C. The supernatant was transferred to a new EP tube (B), and the remaining aqueous phase was extracted again with extraction liquid. The organic phases were combined and dried in a vacuum concentrator at 30 °C before 100 μL isopropyl alcohol was added for reconstitution. The samples were then transferred to a fresh glass vial for ultra-high-performance liquid chromatography quadruple time-of flight mass spectrometry (UHPLC-Q-TOF-MS) analysis.
The process for lipid extraction was performed following the method of Li et al. [12 (link)], with slight modifications. Briefly, 60 μL milk sample and 340 μL ultrapure water were collected and placed in an EP tube (A). Then, 960 μL extraction liquid (MTBE:CH3OH = 5:1, v/v) and 70 μL internal standard mixture ((d5-17:0/17:1/17:0) TG, 15:0 lyso PC, (19:0/19:0) PE, 13:0 lyso PE, d18:1/6:0 SM, (17:0/17:0) PS, and (17:0/17:0) PG were mixed in equal quantities in the concentration of 250 μg/mL) were added to each sample. The sample was mixed to homogeneity, vortexed, sonicated for 10 min, and then centrifuged for 10 min at 16,994× g and 4 °C. The supernatant was transferred to a new EP tube (B), and the remaining aqueous phase was extracted again with extraction liquid. The organic phases were combined and dried in a vacuum concentrator at 30 °C before 100 μL isopropyl alcohol was added for reconstitution. The samples were then transferred to a fresh glass vial for ultra-high-performance liquid chromatography quadruple time-of flight mass spectrometry (UHPLC-Q-TOF-MS) analysis.
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Centrifugation
Chloroform
Gas Chromatography
High-Performance Liquid Chromatographies
Isopropyl Alcohol
Lipids
LYSO-PC
methyl tert-butyl ether
Milk
Nitrogen
Spectrometry
Ultrasonics
Vacuum
Top products related to «LYSO-PC»
Sourced in United States
LysoPC is a phospholipid product offered by Avanti Polar Lipids. It is a pure chemical compound used in laboratory settings.
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Formic acid is a colorless, pungent-smelling liquid chemical compound. It is the simplest carboxylic acid, with the chemical formula HCOOH. Formic acid is widely used in various industrial and laboratory applications.
Sourced in United States, Germany, United Kingdom, Italy, Spain, India, France, China, Australia, Switzerland, Macao, Sao Tome and Principe, Canada, Ireland, Czechia, Belgium, Netherlands, Poland, Japan, Austria, Hungary, Finland, Mexico, Sweden, Romania
Ammonium acetate is a chemical compound with the formula CH3COONH4. It is a colorless, crystalline solid that is soluble in water and alcohol. Ammonium acetate is commonly used in various laboratory applications, such as pH adjustment, buffer preparation, and as a mobile phase component in chromatography.
Sourced in United States
LysoPC is a laboratory product manufactured by Merck Group. It is a phospholipid compound used in various scientific research and analytical applications. The core function of LysoPC is to serve as a research tool for the study of lipid metabolism and signaling pathways.
Sourced in United States, United Kingdom, China, Germany, Belgium, Canada, France, India, Australia, Portugal, Spain, New Zealand, Ireland, Sweden, Italy, Denmark, Poland, Malaysia, Switzerland, Macao, Sao Tome and Principe, Bulgaria
Methanol is a colorless, volatile, and flammable liquid chemical compound. It is commonly used as a solvent, fuel, and feedstock in various industrial processes.
Sourced in United States, Germany, United Kingdom, India, Italy, Spain, France, Canada, Switzerland, China, Australia, Brazil, Poland, Ireland, Sao Tome and Principe, Chile, Japan, Belgium, Portugal, Netherlands, Macao, Singapore, Sweden, Czechia, Cameroon, Austria, Pakistan, Indonesia, Israel, Malaysia, Norway, Mexico, Hungary, New Zealand, Argentina
Chloroform is a colorless, volatile liquid with a characteristic sweet odor. It is a commonly used solvent in a variety of laboratory applications, including extraction, purification, and sample preparation processes. Chloroform has a high density and is immiscible with water, making it a useful solvent for a range of organic compounds.
Sourced in United States, Germany, United Kingdom, Italy, France, China, India, Switzerland, Spain, Canada, Poland, Sao Tome and Principe, Belgium, Czechia, Netherlands, Macao, Austria, Sweden, Japan, Hungary, Australia, Ireland
Ammonium formate is a chemical compound that is commonly used in various laboratory applications. It is a crystalline solid that is soluble in water and other polar solvents. Ammonium formate serves as a buffer in analytical techniques and is also used as a mobile phase additive in liquid chromatography.
Sourced in United States, United Kingdom, China, Belgium, Germany, Canada, Portugal, France, Australia, Spain, Switzerland, India, Ireland, New Zealand, Sweden, Italy, Japan, Mexico, Denmark
Acetonitrile is a highly polar, aprotic organic solvent commonly used in analytical and synthetic chemistry applications. It has a low boiling point and is miscible with water and many organic solvents. Acetonitrile is a versatile solvent that can be utilized in various laboratory procedures, such as HPLC, GC, and extraction processes.
Sourced in Austria, United States, Japan, Germany
The AbsoluteIDQ p180 kit is a targeted metabolomics assay developed by Biocrates. The kit provides a quantitative analysis of up to 188 metabolites from various chemical classes, including acylcarnitines, amino acids, biogenic amines, and lipids. The kit utilizes flow injection analysis-tandem mass spectrometry (FIA-MS/MS) technology to enable the simultaneous measurement of these metabolites in a single analysis.
Sourced in United States, United Kingdom, Germany, Austria, France, Belgium, Czechia, Canada, Ireland
The Acquity UPLC is a high-performance liquid chromatography (HPLC) system developed by Waters Corporation. It is designed to deliver rapid and efficient separation of complex samples, providing high-resolution and sensitivity for various analytical applications.
More about "LYSO-PC"
LYSO, Lutetium-yttrium oxyorthosilicate, Positron Emission Tomography, PET, Scintillator Crystals, Gamma Rays, LysoPC, Formic acid, Ammonium acetate, Methanol, Chloroform, Ammonium formate, Acetonitrile, AbsoluteIDQ p180 kit, Acquity UPLC