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2,697 results for “Lipids”
Research data in support of: An Interplay of Mechanical and Structural Properties of DNA Determines Its Electrostatic Interactions with Lipids
<p>The data collected and reported for the publication entitled: An Interplay of Mechanical and Structural Properties of DNA Determines Its Electrostatic Interactions with Lipids. by Diana Morzy et al.</p> <p>Data is divided by the technique used, with folders named accordingly. Each dataset has a readme file, explaining the basic technical details, as well as how to open each file type.</p> <p>Please do not hesitate to contact the corresponding author (MMCB) for further details.</p>
Set simulations small pure bilayers with cholesterol (max 128 lipids) using charmm36 ff in gromacs (DPPC)
<p>Collection simulations of small pure bilayers (max 128 phospholipids) with cholesterol in gromacs using the charmm36 force field. The list of systems describing their particular simulation conditions can be found below:</p> <ol> <li>DPPC_128_CHL1_32_310K</li> </ol> <p>For further information read the Readme file provided for each simulation.</p>
Simulations POPC bilayers (512 lipids) using charmm36 ff in gromacs
<p>Collection simulations of POPC (512 lipids) bilayers in gromacs using the charmm36 force field. The list of systems can be found below where the several parameter are:</p> <ol> <li>POPC_512_310K (500ns)</li> <li>POPC_512_NaCl_150mM_310K (500ns)</li> <li>POPC_512_NaCl_150mM_310K_tip3p (500ns)</li> <li>POPC_512_NaCl_Dang_150mM_310K (500ns)</li> </ol> <p>For further information read the Readme file provided for each simulation.</p>
Figure 7 in Inflammation reduction potential of nanostructured lipid carriers encapsulated with rat's bone marrow cells' lysate
Figure 7. In-vivo Gene Expression Analysis: (A) represents apoptotic markers; BAX and Caspase-3, expression in treated nanostructured lipid carriers (T-NLC), treated bone marrow-derived mesenchymal stromal cells (BMSCs) lysate (C-I-BMSCs-L) and NLC loaded BMSCs lysate (C-I-NLC-BMSCs-L) groups as compared to normal (N) and carrageenan injected injury (C) groups (B) shows proinflammatory markers (IL-6 and IL-8) expression levels in treated C-I-BMSCs-L and treated C-I-NLC-BMSCs-L groups as compared to N and C groups (C) shows Proliferative markers (Ki-67, PCNA and TOP2A) expression in treated C-I-BMSCs-L and treated C-INLC-BMSCs-L group as compared to N and C groups. Whereas N-NS represents normal rats injected with normal saline, C-NS represents carrageenan-injected normal saline, C-I-DFS represents carrageenan-injected diclofenac sodium. Where; the* sign shows significance between untreated and treated groups while α and ss sign shows significance between carrageenan injury and other treatment groups. Where, ns is non-significant, * & α represents P<0.05, ** & ss represents P<0.001, *** & αss represents P<0.0001.
Figure 6 in Inflammation reduction potential of nanostructured lipid carriers encapsulated with rat's bone marrow cells' lysate
Figure 6. Percentage inhibition of inflammation at a time interval (hr) in carrageenan-induced rat's hind paw oedema model. The effect of different treatment groups, i.e., normal (N), normal rat paw injected with normal saline (N-NS), carrageenan injected group (C), carrageenan injected with normal saline group (C-NS), carrageenan injected with diclofenac sodium group (C-I-DFS), carrageenan injected with nanostructured lipid carriers group (C-I-NLC), carrageenan injected with bone marrow-derived mesenchymal stromal cells (BMSCs) lysate group (C-I-BMSCs-L) and Carrageenan injected with NLC loaded BMSCs lysate group (C-I-NLC-BMSCs-L); on hind paw oedema at different hours (0, 1 2, 3, 6 & 24 hours). Where; the* sign shows significance between normal and carrageenan-induced treated groups while α and ss sign shows significance between carrageenan injected and carrageenaninduced treatment groups. Where; ns is non-significant, ** & ss denotes P<0.001, *** & αss denotes P<0.0001.
Figure 4 in Inflammation reduction potential of nanostructured lipid carriers encapsulated with rat's bone marrow cells' lysate
Figure 4. (A) Expression analysis of angiogenesis marker vascular endothelial growth factor (VEGF) via immunocytochemistry; (B) Expression analysis of apoptotic marker p53 via immunocytochemistry; (C) Expression analysis of apoptotic marker p53 via immunocytochemistry. Where: Untreated (UT), H 2 O 2 injury (I-H 2 O 2), treated NLC (T-NLC), treated BMSCs lysate (T-BMSCs-L), and treated NLC loaded bone marrow-derived mesenchymal stromal cells lysate (T-NLC-BMSCs-L). Stained cells are red, and blue denotes the nuclei counterstained with 4′,6-diamidine-2′-phenylindole dihydrochloride (DAPI,) while arrows show the positive cells expressing the protein. Scale bar: 200µm.
Figure 2 in Inflammation reduction potential of nanostructured lipid carriers encapsulated with rat's bone marrow cells' lysate
Figure 2. Represents cytotoxicity analysis/percentage cell viability and standardized viability concentration (SVC) values of different treatment groups on NIH 3T3 Cells (A) Represents the percentage of NIH 3T3 cells viability treated with different concentrations of nanostructured lipid carriers (NLC), bone marrow-derived mesenchymal stromal cells lysate (BMSCs-L), and NLC loaded BMSCs lysate (NLC-BMSCs-L). N represents % age viability of normal cells that receive no treatment and no H 2O2 injury; (B) Cytotoxicity analysis of various concentrations (500µg/µL, 1mg/mL, 2mg/mL, and 3mg/mL) of BMSCs lysate (C) SVC of BMSCslysate on NIH 3T3 cells; (D) Cytotoxicity analysis of various concentrations (500µg/µL, 1mg/mL, 2mg/mL, and 3mg/mL) of NLC loaded BMSCs lysate (E) shows SVC of NLC loaded BMSCs lysate on cells. Where; ***P<0.0001, *shows significance between untreated and treated groups while α and ss sign shows significance between H 2O2 injury and other treatment groups, αss shows P<0.0001, and ns is non-significant.
Figure 1 in Inflammation reduction potential of nanostructured lipid carriers encapsulated with rat's bone marrow cells' lysate
Figure 1. (A) Scanning Electron Micrograph of NLC and (B) Scanning Electron Micrograph of NLC-BMSCs-L; (B) Characterization of nanostructured lipid carriers (NLC) loaded bone marrow-derived mesenchymal stromal cells (BMSCs) lysate via enzyme-linked immunosorbent assay (ELISA):vascular endothelial growth factor (VEGF) and interleukin-6 (IL-6) expression in NLC, BMSCs-L, and NLC loaded bone marrow-derived mesenchymal stromal cells lysate (NLC-BMSCs-L).Where; *P<0.05, **P<0.01, ***P<0.0001, ns is non-significant.
Fig. 1 in Lipid accumulation in Cyprinus carpio (Linnaeus, 1785) liver induced by thiamethoxam
Fig. 1. Intensity of Sudan III staining in Common Carp liver: A – control group, x200; B – 6.6 mg/L insecticide, x400; C – 10 mg/L insecticide, x400; D – 20 mg/L insecticide, x400.
Рис. 2. Варианты преΑсказанной Αоменной структуры патогенраспознающих моΛекуΛ гемоцитов моΛΛюсков Planorbarius corneus. a — фибриногенпоΑобные беΛки, b — гаΛектины, c — F-Λектины. УсΛовные обозначения и сокращения, зΑесь и ΑаΛее: горизонтаΛьные красные поΛоски — сигнаΛьный пептиΑ, горизонтаΛьные розовые — обΛасть низкой сΛожности, вертикаΛьные синие поΛоски — трансмембранная обΛасть, FBG — фибриногеновый Αомен, FTP — Αомен фукоΛектина, EGF — Αомен эпиΑермаΛьного фактора роста, EGF_CA — каΛьцийсвязывающий EGF-поΑобный Αомен, PAN_AP — APPLE-поΑобный Αомен, SCAN — обΛасть, богатая Λейцином, GLECT — гаΛактозосвязывающий Λектин, CLECT — Λектин C-типа, Gal-bind — гаΛактозиΑ–связывающий Λектин, ML — MD-2- поΑробный Αомен распознавания ΛипиΑов Fig. 2. Variants of the predicted domain structure of pattern recognition molecules from hemocytes of Planorbarius corneus molluscs. a — fibrinogen-related proteins, b — galectins, c — F-lectins. Symbols and abbreviations (here and further): horizontal red stripes — signal peptide, horizontal pink stripes — a low complexity region, vertical blue stripes — transmembrane region, FBG — fibrinogen-related domain, FTP — fucolectin domain, EGF — epidermal growth factor-like domain, EGF_CA — calcium-binding EGF-like domain, PAN_AP — APPLE-like domain, SCAN — leucine rich region, Apple — APPLE domain, GLECT — galactose-binding lectin, CLECT — C-type lectin, Gal-bind — galactoside-binding lectin, ML — MD-2-related lipid-recognition domain in Pathogen recognition molecules from hemocytes of Planorbarius corneus molluscs (Planorbidae, Pulmonata)
Рис. 2. Варианты преΑсказанной Αоменной структуры патогенраспознающих моΛекуΛ гемоцитов моΛΛюсков Planorbarius corneus. a — фибриногенпоΑобные беΛки, b — гаΛектины, c — F-Λектины. УсΛовные обозначения и сокращения, зΑесь и ΑаΛее: горизонтаΛьные красные поΛоски — сигнаΛьный пептиΑ, горизонтаΛьные розовые — обΛасть низкой сΛожности, вертикаΛьные синие поΛоски — трансмембранная обΛасть, FBG — фибриногеновый Αомен, FTP — Αомен фукоΛектина, EGF — Αомен эпиΑермаΛьного фактора роста, EGF_CA — каΛьцийсвязывающий EGF-поΑобный Αомен, PAN_AP — APPLE-поΑобный Αомен, SCAN — обΛасть, богатая Λейцином, GLECT — гаΛактозосвязывающий Λектин, CLECT — Λектин C-типа, Gal-bind — гаΛактозиΑ–связывающий Λектин, ML — MD-2- поΑробный Αомен распознавания ΛипиΑов Fig. 2. Variants of the predicted domain structure of pattern recognition molecules from hemocytes of Planorbarius corneus molluscs. a — fibrinogen-related proteins, b — galectins, c — F-lectins. Symbols and abbreviations (here and further): horizontal red stripes — signal peptide, horizontal pink stripes — a low complexity region, vertical blue stripes — transmembrane region, FBG — fibrinogen-related domain, FTP — fucolectin domain, EGF — epidermal growth factor-like domain, EGF_CA — calcium-binding EGF-like domain, PAN_AP — APPLE-like domain, SCAN — leucine rich region, Apple — APPLE domain, GLECT — galactose-binding lectin, CLECT — C-type lectin, Gal-bind — galactoside-binding lectin, ML — MD-2-related lipid-recognition domain
Copepod diapause duration estimation code for manuscript: Lipid load triggers migration to diapause in Arctic Calanus copepods - insights from underwater imaging
<p>This is a script and data upload by Frederic Maps (Université Laval) which creates figure 10 as well as other exploratory plots for publication Schmid, Maps, Fortier 2018: Lipid load triggers migration to diapause in Arctic Calanus copepods - insights from underwater imaging, to be published in the journal of plankton research (JPR).</p>
Research data supporting "Fate of Liposomes in Presence of Phospholipase C and D: From Atomic to Supramolecular Lipid Arrangement"
<p>Raw research data for experimental work supporting the publication above.</p> <p>Raw data for MD simulation is available upon reasonable request from Irene Yarovsky (irene.yarovsky@rmit.edu.au).</p>
Configurations and parameters for DMPC and DMTAP lipids and their mixtures
<p><strong>Configurations</strong> containing cationic (charge: +1) DMTAP and DMPC lipids, water and neutralizing ions (when necessary) at 50 C for the following systems:</p> <ol> <li>Pure DMPC: 128 lipids (all DMPC, 0 Cl ions) and 3655 waters. File: dmpc128_20ns.pdb</li> <li>6% DMTAP: 128 lipids (120 DMPC, 8 DMTAP, 8 Cl ions) and 3647 waters. File: tap06_20ns.pdb</li> <li>16% DMTAP: 128 lipids (108 DMPC, 20 DMTAP, 20 Cl ions) and 3635 waters</li> <li>25% DMTAP: 128 lipids (96 DMPC, 32 DMTAP, 32 Cl ions) and 3623 waters</li> <li>31% DMTAP: 128 lipids (88 DMPC, 40 DMTAP, 40 Cl ions) and 3615 waters</li> <li>39% DMTAP: 128 lipids (78 DMPC, 50 DMTAP, 50 Cl ions) and 3605 waters</li> <li>50% DMTAP: 128 lipids (64 DMPC, 64 DMTAP, 64 Cl ions) and 3591 waters</li> <li>63% DMTAP: 128 lipids (48 DMPC, 80 DMTAP, 80 Cl ions) and 3575 waters</li> <li>75% DMTAP: 128 lipids (32 DMPC, 96 DMTAP, 96 Cl ions) and 3559 waters</li> <li>89% DMTAP: 128 lipids (14 DMPC, 114 DMTAP, 114 Cl ions) and 3541 waters</li> <li>Pure DMTAP: 128 lipids (all DMTAP, 128 Cl ions) and 3527 waters: File: dmtap128_24ns.pdb</li> </ol> <p>Simulation time for each system is shown in the file name.</p> <p><strong>Parameter files are: </strong>dmpc.itp and dmtap.itp. The file lipid.itp is also needed (these are Berger lipids). Download lipid.itp from <a href="http://wcm.ucalgary.ca/tieleman/downloads">http://wcm.ucalgary.ca/tieleman/downloads</a></p> <p><strong>The PDF file</strong> (TablePDB.pdf ) contains a summary of the systems with area per lipid and error.</p> <p><strong>References:</strong></p> <ol> <li><a href="http://www.biophysj.org/cgi/content/abstract/86/6/3461">Cationic DMPC/DMTAP Lipid Bilayers: Molecular Dynamics Study</a>, Gurtovenko, Patra, Karttunen, Vattulainen, Biophys. J. 86, 3461-3472 (2004).</li> <li><a href="http://dx.doi.org/10.1021/jp053667m">Effect of Monovalent Salt on Cationic Lipid Membranes As Revealed by Molecular Dynamics Simulations</a>, A. A. Gurtovenko, M. Miettinen, M. Karttunen, and I. Vattulainen J. Phys. Chem. B 109, 21126-21134 (2005).</li> <li><a href="http://dx.doi.org/10.1021/jp810233q">Ion Dynamics in Cationic Lipid Bilayer Systems in Saline Solutions</a>, M.S. Miettinen, A.A. Gurtovenko, I. Vattulainen, and M. Karttunen, J. Phys. Chem. B 113, 9226-9234 (2009).</li> </ol> <p> </p> <p> </p>
Supplementing data and code for: "Correlation of mRNA delivery timing and protein expression in lipid-based transfection"
<p>Supplementary data and code for Reiser <em>et al.</em>: Correlation of mRNA delivery timing and protein expression in lipid-based transfection. 2019, <a href="https://doi.org/10.1093/intbio/zyz030">doi:10.1093/intbio/zyz030</a>.</p> <p>See `README.pdf` for further details.</p>
Figures 1-4 in Ultrastructural detection of lipids in the cephalic salivary glands of Apis mellifera and Scaptotrigona postica (Hymenoptera: Apidae) workers
Figures 1-4. Lipids, detected using imidazole-osmium, in cephalic salivary gland (CSG) cells of Apis mellifera workers. (1-2) Small droplets of lipid (arrows) dispersed in the cellular cytoplasm of a newly emerged worker (NE), mitochondria (m) of medium electron density and narrow alveolar lumens (l) containing scarce IO-positive secretion (s). (3-4) Gland cells from workers working in the brood comb area (CA). Note lipid droplets dispersed in the cytoplasm (arrows) (1C), heterogeneous granules (gr) (1D) and large amounts of lipid secretion (s) in the alveolar lumen (l). (c) Cuticle, (n) nuclei. Scale bars: 1, 2, 4 = 1 µm, 3 = 3 µm.
Figures 5-8 in Ultrastructural detection of lipids in the cephalic salivary glands of Apis mellifera and Scaptotrigona postica (Hymenoptera: Apidae) workers
Figures 5-8. Imidazole-osmium preparations for lipid detection in gland cells from Apis mellifera workers. (5-6) Gland cells from worker working in the brood comb area (CA) (5) and forager (FO) (6) showing lipid droplets dispersed in the apical region (arrow), infolds (i) of the apical membrane forming channels flanked by mitochondria (m). (6) Note the presence of lipid droplets in the apical channels (arrows). (7-8) Osmium-imidazole-positive dots spread in the cytoplasm (arrows) and vesicles (ve) of forager cellular glands. (c) Cuticle, (s) secretion. Scale bars: 5 = 3 µm, 6 = 2 µm, 7-8 = 1 µm.
The data for: What can be lost? Genomic perspective on the lipid metabolism of Mucoromycota
<div> <h3><a href="https://static-content.springer.com/esm/art%3A10.1186%2Fs43008-023-00127-4/MediaObjects/43008_2023_127_MOESM1_ESM.xlsx"><strong>Additional file 1:</strong></a></h3> <div> <p>Spreadsheet with gene names, protein accessions and list of analysed fungal assemblies.</p> </div> </div> <div> <h3><a href="https://static-content.springer.com/esm/art%3A10.1186%2Fs43008-023-00127-4/MediaObjects/43008_2023_127_MOESM2_ESM.txt"><strong>Additional file 2:</strong></a></h3> <div> <p>Phylogenetic trees of all proteins.</p> </div> </div>
Moderate levels of dissolved iron stimulate cellular growth and increase lipid storage in Symbiodinium sp.
<p>Dataset and code for analysis in R of the manuscript entitled "Moderate levels of dissolved iron stimulate cellular growth and increase lipid storage in Symbiodinium sp.".</p>
Research data for Structure and function of skin barrier lipids: Effects of hydration and natural moisturizers in vitro
<p>Research data for 10.1016/j.bpj.2024.10.006 Research data for Structure and function of skin barrier lipids: Effects of hydration and natural moisturizers in vitro. Biophysical Journal 2024.</p>
Trapped ion mobility spectrometry-guided molecular discrimination between plasmalogens and other ether lipids in lipidomics experiments
<p>Supplementary Dataset for the manuscript "Trapped ion mobility spectrometry-guided molecular discrimination between plasmalogens and other ether lipids in lipidomics experiments" under preparation for bioRxiv submission.<br>Data is packed into a zip archive according to ZENODO upload limitations.<br>in the top folder the actual analysis and respective files, as described in the publications supplementary materials can be found as <em>PLOP2 </em>folder (including raw data etc.).<br>The additional images explain the repo layout in a sketched form: <br>Additionally also for data readout the used <em>docker-compose.yml </em>and a github clone of the important <em>timsr </em>package is included.<br>PLEASE READ the README!.<br><br>Additionally the file `Calibration-2021-08-31_11-44-22.pdf` contains the calibration report, and `PLOP4_method.pdf` a hystar report of the used methodology.<br><br>For LSI Reporting Checklist see DOI: 10.5281/zenodo.13963972</p>
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International Brain Laboratory public data
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OpenNeuro
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